Source: https://github.com/markziemann/GeneNameErrors2020

View the reports: http://ziemann-lab.net/public/gene_name_errors/

Intro

Gene name errors result when data are imported improperly into MS Excel and other spreadsheet programs (Zeeberg et al, 2004). Certain gene names like MARCH3, SEPT2 and DEC1 are converted into date format. These errors are surprisingly common in supplementary data files in the field of genomics (Ziemann et al, 2016). This could be considered a small error because it only affects a small number of genes, however it is symptomtic of poor data processing methods. The purpose of this script is to identify gene name errors present in supplementary files of PubMed Central articles in the previous month.

library("XML")
library("jsonlite")
library("xml2")
library("reutils")
library("readxl")
library("RCurl")

Get PMC IDs

Here I will be getting PubMed Central IDs for the previous month.

Start with figuring out the date to search PubMed Central.

CURRENT_MONTH=format(Sys.time(), "%m")
CURRENT_YEAR=format(Sys.time(), "%Y")

if (CURRENT_MONTH == "01") {
  PREV_YEAR=as.character(as.numeric(format(Sys.time(), "%Y"))-1)
  PREV_MONTH="12"
} else {
  PREV_YEAR=CURRENT_YEAR
  PREV_MONTH=as.character(as.numeric(format(Sys.time(), "%m"))-1)
}

DATE=paste(PREV_YEAR,"/",PREV_MONTH,sep="")
DATE
## [1] "2022/12"

Let’s see how many PMC IDs we have in the past month.

QUERY ='((genom*[Abstract]))'

ESEARCH_RES <- esearch(term=QUERY, db = "pmc", rettype = "uilist", retmode = "xml", retstart = 0, 
  retmax = 5000000, usehistory = TRUE, webenv = NULL, querykey = NULL, sort = NULL, field = NULL, 
  datetype = NULL, reldate = NULL, 
  mindate = paste(DATE,"/1",sep="") , maxdate = paste(DATE,"/31",sep=""))

pmc <- efetch(ESEARCH_RES,retmode="text",rettype="uilist",outfile="pmcids.txt")
## Retrieving UIDs 1 to 500
## Retrieving UIDs 501 to 1000
## Retrieving UIDs 1001 to 1500
## Retrieving UIDs 1501 to 2000
## Retrieving UIDs 2001 to 2500
## Retrieving UIDs 2501 to 3000
## Retrieving UIDs 3001 to 3500
## Retrieving UIDs 3501 to 4000
pmc <- read.table(pmc)
pmc <- paste("PMC",pmc$V1,sep="")
NUM_ARTICLES=length(pmc)
NUM_ARTICLES
## [1] 3567
writeLines(pmc,con="pmc.txt")

Run the screen

Now run the bash script. Note that false positives can occur (~1.5%) and these results have not been verified by a human.

Here are some definitions:

  • NUM_XLS = Number of supplementary Excel files in this set of PMC articles.

  • NUM_XLS_ARTICLES = Number of articles matching the PubMed Central search which have supplementary Excel files.

  • GENELISTS = The gene lists found in the Excel files. Each Excel file is counted once even it has multiple gene lists.

  • NUM_GENELISTS = The number of Excel files with gene lists.

  • NUM_GENELIST_ARTICLES = The number of PMC articles with supplementary Excel gene lists.

  • ERROR_GENELISTS = Files suspected to contain gene name errors. The dates and five-digit numbers indicate transmogrified gene names.

  • NUM_ERROR_GENELISTS = Number of Excel gene lists with errors.

  • NUM_ERROR_GENELIST_ARTICLES = Number of articles with supplementary Excel gene name errors.

  • ERROR_PROPORTION = This is the proportion of articles with Excel gene lists that have errors.

system("./gene_names.sh pmc.txt")
results <- readLines("results.txt")

XLS <- results[grep("XLS",results,ignore.case=TRUE)]
NUM_XLS = length(XLS)
NUM_XLS
## [1] 6654
NUM_XLS_ARTICLES = length(unique(sapply(strsplit(XLS," "),"[[",1)))
NUM_XLS_ARTICLES
## [1] 1171
GENELISTS <- XLS[lapply(strsplit(XLS," "),length)>2]
#GENELISTS

NUM_GENELISTS <- length(unique(sapply(strsplit(GENELISTS," "),"[[",2)))
NUM_GENELISTS
## [1] 634
NUM_GENELIST_ARTICLES <- length(unique(sapply(strsplit(GENELISTS," "),"[[",1)))
NUM_GENELIST_ARTICLES
## [1] 351
ERROR_GENELISTS <- XLS[lapply(strsplit(XLS," "),length)>3]
#ERROR_GENELISTS

NUM_ERROR_GENELISTS = length(ERROR_GENELISTS)
NUM_ERROR_GENELISTS
## [1] 247
GENELIST_ERROR_ARTICLES <- unique(sapply(strsplit(ERROR_GENELISTS," "),"[[",1))
GENELIST_ERROR_ARTICLES
##  [1] "PMC9801655" "PMC9795187" "PMC9793550" "PMC9792465" "PMC9757741"
##  [6] "PMC9789999" "PMC9785075" "PMC9784255" "PMC9775101" "PMC9772819"
## [11] "PMC9769457" "PMC9768194" "PMC9763387" "PMC9763382" "PMC9762592"
## [16] "PMC9762028" "PMC9759858" "PMC9758924" "PMC9755029" "PMC9750130"
## [21] "PMC9748153" "PMC9746999" "PMC9742853" "PMC9734637" "PMC9733279"
## [26] "PMC9729295" "PMC9729111" "PMC9728798" "PMC9727928" "PMC9724437"
## [31] "PMC9721428" "PMC9720402" "PMC9720150" "PMC9683724" "PMC9718428"
## [36] "PMC9715950" "PMC9715678" "PMC9713440" "PMC9714951" "PMC9713698"
## [41] "PMC9713327" "PMC9713173" "PMC9708086" "PMC9706722" "PMC9703941"
## [46] "PMC9800021" "PMC9795334" "PMC9792466" "PMC9791056" "PMC9776514"
## [51] "PMC9776006" "PMC9775906" "PMC9775105" "PMC9774719" "PMC9771818"
## [56] "PMC9768914" "PMC9764863" "PMC9763853" "PMC9763118" "PMC9763110"
## [61] "PMC9762029" "PMC9758519" "PMC9753033" "PMC9749333" "PMC9748020"
## [66] "PMC9748018" "PMC9746894" "PMC9744761" "PMC9743592" "PMC9743561"
## [71] "PMC9738480" "PMC9736101" "PMC9734139" "PMC9731154" "PMC9723631"
## [76] "PMC9724785" "PMC9722939" "PMC9718667" "PMC9716074" "PMC9715725"
## [81] "PMC9714834" "PMC9713371" "PMC9705836"
NUM_ERROR_GENELIST_ARTICLES <- length(GENELIST_ERROR_ARTICLES) 
NUM_ERROR_GENELIST_ARTICLES
## [1] 83
ERROR_PROPORTION = NUM_ERROR_GENELIST_ARTICLES / NUM_GENELIST_ARTICLES
ERROR_PROPORTION
## [1] 0.2364672

Look at the errors detected

Here you can have a look at all the gene lists detected in the past month, as well as those with errors. The dates are obvious errors, these are commonly dates in September, March, December and October. The five-digit numbers represent dates as they are encoded in the Excel internal format. The five digit number is the number of days since 1900. If you were to take these numbers and put them into Excel and format the cells as dates, then these will also mostly map to dates in September, March, December and October.

#GENELISTS

ERROR_GENELISTS
##   [1] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Ggallus 2 44813 44630"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
##   [2] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 1 44806"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##   [3] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 1 44624"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##   [4] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Ggallus 2 44622 44621"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
##   [5] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 2 44812 44623"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
##   [6] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Ggallus 1 44806"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
##   [7] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 1 44624"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##   [8] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 2 44622 44621"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
##   [9] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 1 44622"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##  [10] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 2 44625 44628"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
##  [11] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 2 44621 44815"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
##  [12] "PMC9801655 PMC_DL/PMC9801655/supplementaryfiles/13578_2022_948_MOESM3_ESM.xlsx Hsapiens 1 44896"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##  [13] "PMC9795187 zip/Table_2.xlsx Hsapiens 2 44808 44809"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
##  [14] "PMC9793550 PMC_DL/PMC9793550/supplementaryfiles/12859_2022_5109_MOESM4_ESM.xlsx Hsapiens 5 44443 44257 44442 44265 44259"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
##  [15] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 1 44454"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
##  [16] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 5 44624 44816 44631 44816 44816"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
##  [17] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 11 44626 44628 44625 44625 44808 44626 44626 44628 44625 44625 44808"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
##  [18] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 2 44819 44819"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
##  [19] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 1 44443"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
##  [20] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 3 44451 44266 44259"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
##  [21] "PMC9792465 PMC_DL/PMC9792465/supplementaryfiles/42003_2022_4351_MOESM4_ESM.xlsx Drerio 3 44263 44261 44260"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
##  [22] "PMC9757741 zip/sciadv.abo4082_table_s1.xlsx Celegans 10 44621 44805 44652 44624 44626 44625 44836 44713 44835 44622"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [23] "PMC9789999 PMC_DL/PMC9789999/supplementaryfiles/41467_2022_35604_MOESM6_ESM.xlsx Mmusculus 24 44631 44815 44628 44808 44818 44819 44813 44812 44627 44622 44630 44624 44806 44625 44805 44621 44814 44816 44807 44809 44626 44810 44811 44629"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [24] "PMC9789999 PMC_DL/PMC9789999/supplementaryfiles/41467_2022_35604_MOESM5_ESM.xlsx Mmusculus 24 44805 44812 44625 44630 44621 44818 44622 44814 44628 44627 44816 44806 44811 44807 44626 44819 44808 44809 44810 44629 44813 44624 44631 44815"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [25] "PMC9789999 PMC_DL/PMC9789999/supplementaryfiles/41467_2022_35604_MOESM4_ESM.xlsx Mmusculus 24 44631 44628 44818 44813 44630 44812 44807 44808 44811 44806 44809 44819 44814 44815 44816 44626 44810 44805 44625 44627 44622 44624 44629 44621"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [26] "PMC9785075 zip/Supplementary_Table_S5.XLSX Hsapiens 3 38200 37135 38961"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
##  [27] "PMC9784255 PMC_DL/PMC9784255/supplementaryfiles/12863_2022_1099_MOESM7_ESM.xlsx Hsapiens 1 44256"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
##  [28] "PMC9775101 zip/Table_S1-S11.xlsx Hsapiens 2 44623 44630"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
##  [29] "PMC9772819 zip/Table_S6_630_PSGs_expression_in_each_cell_type.xlsx Hsapiens 1 43895"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [30] "PMC9772819 zip/Table_S12_Gene_expression_average_and_proportion.xlsx Hsapiens 25 44256 44257 44256 44265 44266 44257 44258 44259 44260 44261 44262 44263 44264 44440 44449 44450 44451 44441 44442 44443 44444 44445 44446 44447 44448"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
##  [31] "PMC9772819 zip/Table_S12_Gene_expression_average_and_proportion.xlsx Hsapiens 25 44256 44257 44256 44265 44266 44257 44258 44259 44260 44261 44262 44263 44264 44440 44449 44450 44451 44441 44442 44443 44444 44445 44446 44447 44448"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
##  [32] "PMC9772819 zip/Table_S13_The_mean_expression_of_DEGs_in_different_cell_types.xlsx Hsapiens 4 44621 44628 44808 44811"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
##  [33] "PMC9769457 PMC_DL/PMC9769457/supplementaryfiles/Table_2.xlsx Hsapiens 14 44624 44630 44807 44816 44629 44627 44806 44811 44622 44628 44810 44622 44814 44805"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
##  [34] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 8 44621 44624 44626 44628 44805 44807 44810 44811"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
##  [35] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 2 44626 44815"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
##  [36] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 5 44621 44626 44628 44818 44806"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
##  [37] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 11 44896 44621 44622 44621 44627 44628 44815 44806 44807 44808 44812"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
##  [38] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 8 44621 44621 44630 44624 44625 44628 44806 44812"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
##  [39] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 18 44896 44621 44630 44624 44625 44626 44627 44628 44629 44814 44815 44816 44807 44808 44810 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [40] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 13 44896 44622 44623 44625 44629 44814 44815 44818 44806 44807 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
##  [41] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 17 44621 44621 44623 44624 44626 44627 44628 44819 44814 44815 44806 44807 44808 44810 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [42] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 16 44621 44621 44624 44625 44627 44628 44629 44815 44816 44818 44807 44809 44810 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
##  [43] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 17 44621 44623 44624 44625 44626 44627 44628 44819 44815 44818 44806 44807 44809 44810 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [44] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 15 44896 44621 44621 44622 44623 44624 44626 44627 44628 44819 44815 44818 44810 44811 44812"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
##  [45] "PMC9768194 PMC_DL/PMC9768194/supplementaryfiles/Table1.XLSX Hsapiens 19 44621 44630 44623 44624 44625 44626 44627 44628 44629 44819 44814 44815 44818 44806 44807 44810 44811 44812 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
##  [46] "PMC9763387 PMC_DL/PMC9763387/supplementaryfiles/41387_2022_228_MOESM1_ESM.xlsx Hsapiens 5 44625 44624 44813 44621 44813"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
##  [47] "PMC9763387 PMC_DL/PMC9763387/supplementaryfiles/41387_2022_228_MOESM1_ESM.xlsx Hsapiens 13 44896 44621 44626 44624 44814 44625 44806 44810 44627 44630 44814 44629 44626"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
##  [48] "PMC9763387 PMC_DL/PMC9763387/supplementaryfiles/41387_2022_228_MOESM1_ESM.xlsx Hsapiens 1 44806"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
##  [49] "PMC9763382 PMC_DL/PMC9763382/supplementaryfiles/mmc3.xlsx Hsapiens 52 44896 44896 44896 44896 44630 44630 44630 44630 44621 44631 44631 44631 44631 44621 44621 44621 44622 44622 44622 44622 44623 44623 44623 44623 44624 44624 44624 44624 44625 44625 44625 44625 44626 44626 44626 44626 44627 44627 44627 44627 44628 44628 44628 44628 44629 44629 44629 44629 44819 44819 44819 44819"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
##  [50] "PMC9763382 PMC_DL/PMC9763382/supplementaryfiles/mmc3.xlsx Hsapiens 13 44622 44625 44629 44626 44819 44631 44628 44630 44627 44623 44624 44621 44896"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [51] "PMC9763382 PMC_DL/PMC9763382/supplementaryfiles/mmc3.xlsx Hsapiens 50 44896 44896 44896 44896 44630 44630 44630 44630 44621 44631 44631 44631 44631 44621 44621 44621 44622 44622 44622 44622 44623 44623 44623 44623 44624 44624 44624 44624 44625 44625 44625 44625 44626 44626 44626 44627 44627 44627 44628 44628 44628 44628 44629 44629 44629 44629 44819 44819 44819 44819"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
##  [52] "PMC9763382 PMC_DL/PMC9763382/supplementaryfiles/mmc3.xlsx Hsapiens 13 44629 44625 44622 44630 44626 44621 44819 44627 44623 44624 44631 44628 44896"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [53] "PMC9762592 PMC_DL/PMC9762592/supplementaryfiles/pgen.1010080.s011.xls Dmelanogaster 5 44441 44531 44440 44443 44444"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
##  [54] "PMC9762592 PMC_DL/PMC9762592/supplementaryfiles/pgen.1010080.s013.xls Dmelanogaster 1 44166"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
##  [55] "PMC9762028 PMC_DL/PMC9762028/supplementaryfiles/40779_2022_432_MOESM1_ESM.xlsx Hsapiens 77 44622 44812 44805 44626 44625 44622 44628 44628 44805 44814 44621 44809 44807 44628 44814 44810 44806 44628 44815 44621 44626 44808 44815 44621 44812 44806 44622 44809 44811 44630 44623 44813 44628 44813 44814 44814 44813 44814 44627 44811 44811 44813 44811 44815 44625 44624 44813 44815 44622 44806 44627 44811 44626 44808 44806 44813 44813 44806 44806 44815 44813 44812 44806 44810 44806 44811 44806 44812 44813 44813 44810 44813 44629 44815 44806 44629 44623"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
##  [56] "PMC9762028 PMC_DL/PMC9762028/supplementaryfiles/40779_2022_432_MOESM1_ESM.xlsx Hsapiens 70 44626 44628 44808 44626 44623 44807 44813 44813 44808 44809 44815 44622 44622 44629 44812 44806 44805 44622 44815 44813 44813 44626 44808 44806 44813 44806 44813 44625 44813 44629 44622 44622 44628 44809 44813 44813 44814 44813 44810 44806 44806 44809 44806 44815 44623 44626 44814 44621 44806 44627 44813 44627 44807 44621 44809 44815 44806 44621 44811 44806 44806 44815 44806 44811 44815 44627 44811 44806 44621 44811"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
##  [57] "PMC9762028 PMC_DL/PMC9762028/supplementaryfiles/40779_2022_432_MOESM1_ESM.xlsx Hsapiens 43 44622 44811 44621 44810 44622 44626 44815 44813 44813 44623 44814 44623 44623 44806 44621 44805 44623 44814 44626 44812 44624 44806 44811 44627 44811 44815 44809 44813 44806 44813 44810 44808 44809 44815 44814 44627 44814 44806 44808 44813 44808 44812 44808"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
##  [58] "PMC9759858 PMC_DL/PMC9759858/supplementaryfiles/13148_2022_1401_MOESM2_ESM.xlsx Hsapiens 2 40603 39142"