Answers.Body: <p>You can read about it on the <a href="https://www.inetbio.org/yeastnet/" rel="nofollow noreferrer">website</a>, the last column is the Log likelihood scores (LLS) between the genes in the first two columns. An LLS of 0 means not better than random link.</p>
  
  <p>On the website they show papers with fuller details about the statistics.</p>
  
Answers.ContentLicense: CC BY-SA 3.0
Answers.CreationDate: 2018-03-20T14:12:26.913Z
Answers.LastActivityDate: 2018-03-20T14:21:57.003Z
Answers.LastEditDate: 2018-03-20T14:21:57.003Z
Answers.UserDisplayName: benn
Body: <p>The following is an excerpt from an edge list file from the Gene Regulatory Database, <a href="https://www.inetbio.org/yeastnet/" rel="nofollow noreferrer">YeastNet v3</a></p>
  
  <pre><code>YML100W YMR261C 5.73968189451551
  YDR074W YML100W 5.73143623470086
  YDR074W YMR261C 5.72385204041689
  YML106W YMR271C 5.64698433340441
  YGR240C YMR205C 5.64063955646679
  YDL131W YDL182W 5.63907349642605
  YNL037C YOR136W 5.62782704009976
  YHR208W YJR148W 5.61712512462848
  YAL062W YOR375C 5.59956647235823
  YNL104C YOR108W 5.59046546303091
  YGR132C YGR231C 5.58996626839351
  YBR140C YOL081W 5.58738025271142
  YDR453C YML028W 5.58281825879471
  YNL096C YOR096W 5.58060076040965
  YGR180C YJL026W 5.57785446902287
  YGR056W YLR357W 5.57582611528462
  YBR009C YNL030W 5.57261292043205
  YMR169C YMR170C 5.55866364259678
  YAR071W YBR093C 5.55668852247789
  YER081W YIL074C 5.55252000887001
  </code></pre>
  
  <p>What do these rows mean?</p>
  
Comments.ContentLicense: CC BY-SA 3.0
Comments.CreationDate: 2018-03-21T09:49:49.193Z
Comments.Text: It also depends which file you have downloaded. Apparently the evidence can be based on various inputs such as co-citation in PubMed, or co-occurrence of domains... The details are listed on their webpage.
Comments.UserDisplayName: Kamil S Jaron
Tags: <gene><networks><transcriptome-regulation>
Title: How to read gene regulatory network edge list files?
ThreadText: # How to read gene regulatory network edge list files?
  
  (Asked by: username_0 on 2018-03-20)
  
  The following is an excerpt from an edge list file from the Gene Regulatory Database, [YeastNet v3](https://www.inetbio.org/yeastnet/)
  
  ```
  YML100W YMR261C 5.73968189451551
  YDR074W YML100W 5.73143623470086
  YDR074W YMR261C 5.72385204041689
  YML106W YMR271C 5.64698433340441
  YGR240C YMR205C 5.64063955646679
  YDL131W YDL182W 5.63907349642605
  YNL037C YOR136W 5.62782704009976
  YHR208W YJR148W 5.61712512462848
  YAL062W YOR375C 5.59956647235823
  YNL104C YOR108W 5.59046546303091
  YGR132C YGR231C 5.58996626839351
  YBR140C YOL081W 5.58738025271142
  YDR453C YML028W 5.58281825879471
  YNL096C YOR096W 5.58060076040965
  YGR180C YJL026W 5.57785446902287
  YGR056W YLR357W 5.57582611528462
  YBR009C YNL030W 5.57261292043205
  YMR169C YMR170C 5.55866364259678
  YAR071W YBR093C 5.55668852247789
  YER081W YIL074C 5.55252000887001
  
  ```
  
  What do these rows mean?
  
  **Tags:** gene, networks, transcriptome-regulation
  
  > **Comments:**
  > **username_1**: It also depends which file you have downloaded. Apparently the evidence can be based on various inputs such as co-citation in PubMed, or co-occurrence of domains... The details are listed on their webpage.  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_2 on 2018-03-20. Score: 3
  
  You can read about it on the [website](https://www.inetbio.org/yeastnet/), the last column is the Log likelihood scores (LLS) between the genes in the first two columns. An LLS of 0 means not better than random link.
  
  On the website they show papers with fuller details about the statistics.
  
  
  ---
  
  