<think>
Okay, so I need to figure out how to answer these questions about the pathway enrichment analysis in the given scientific article. The user has provided an abstract and some sections of the paper, but it's a bit unclear where exactly the Methods section is described. Let me go through each question one by one and see what information I can extract from the text.

1. **What tool was used for pathway enrichment analysis?**
   Looking at the text, especially in the Discussion section, there's mention of "our online tool Drug Targetor (drugtargetor.com), which displays bipartite drug-target networks..." So it seems like they developed their own tool called Drug Targetor. I don't see any other tools mentioned for pathway enrichment, so maybe that's what they used.

2. **Was a tool version number provided?**
   Skimming through the text, I don't see any version numbers mentioned for Drug Targetor or any other tools related to the analysis. It just refers to it as their online tool without specifying versions.

3. **What gene set library was queried (e.g., GO, KEGG, Reactome or other)?**
   The article doesn't explicitly mention using standard libraries like GO or KEGG. They talk about imputed gene expression data and using MAGMA for gene-wise analysis. It seems they might be using their own sets based on druggable genes rather than standard pathway libraries.

4. **Was a background gene list defined for pathway enrichment analysis?**
   The text doesn't provide details on whether a specific background gene list was used. They mention imputed gene expression and MAGMA analysis but not the background list, so I think it's safe to say it's not described.

5. **What statistical test was used for enrichment analysis?**
   In the Methods section, they might have used MAGMA pathway analysis, which typically employs a hypergeometric test or something similar. But in the provided text, it just mentions "MAGMA pathway analysis" without specifying the exact test.

6. **Was false discovery rate correction used to control the number of false positives in the pathway enrichment analysis?**
   The Discussion section mentions using "false discovery rate (FDR) correction," so yes, they applied FDR to control for multiple comparisons.
</think>

**Answer:**

1. **Tool Used:** The study utilized their own online tool called Drug Targetor.

2. **Tool Version Number:** Not specified in the provided text.

3. **Gene Set Library:** The article does not mention using standard libraries like GO or KEGG, suggesting they used their own gene sets based on druggable genes.

4. **Background Gene List:** Not described; no details were provided about a background list.

5. **Statistical Test:** Likely MAGMA pathway analysis, but the exact test isn't specified.

6. **FDR Correction:** Yes, false discovery rate correction was applied to control for false positives.

| Question                                      | Answer                                                                                   |
|-----------------------------------------------|-----------------------------------------------------------------------------------------|
| 1. What tool was used?                        | Drug Targetor                                                                            |
| 2. Was a version provided?                    | No version number specified.                                                            |
| 3. Gene set library                          | Custom druggable gene sets; no standard libraries mentioned.                             |
| 4. Background gene list defined?              | Not described.                                                                           |
| 5. Statistical test used                     | Likely MAGMA pathway analysis (exact test not specified).                                |
| 6. FDR correction applied?                    | Yes, false discovery rate correction was used.                                         |