Answers.Body: <p>Use the <a href="http://grch37.ensembl.org/info/docs/tools/vep/index.html" rel="nofollow noreferrer">Variant Effect Predictor(VEP)</a></p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-07-15T13:02:34.720Z
Answers.Text: Please don't just post links as answers. It would be great if you could add a short explanation of what VEP is, how to use it etc. Otherwise, this is really a comment and not an answer and would become useless in the (admittedly unlikely) case where the VEP were to be discontinued or its URL changed. For instance, pasting `chr10_103577643` into VEP doesn't work, so you could explain what format the data would have to be in.
Answers.UserDisplayName: terdon
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-07-09T07:47:20.313Z
Answers.LastActivityDate: 2018-07-09T07:47:20.313Z
Answers.UserDisplayName: Emily_Ensembl
Answers.Body: <p>You can use <a href="http://snpeff.sourceforge.net/SnpEff_manual.html" rel="nofollow noreferrer">snpEff</a> or <a href="http://snpeff.sourceforge.net/SnpSift.html" rel="nofollow noreferrer">snpSIFT</a> java annotator also for hg19.</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-07-15T13:03:19.677Z
Answers.Text: Please don't just post links as answers. It would be great if you could add a short explanation of these tools do, how to use them etc. Otherwise, this is really a comment and not an answer and would become useless if the tools were to be discontinued or their URLs changed.
Answers.UserDisplayName: terdon
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-07-09T08:21:43.623Z
Answers.LastActivityDate: 2018-07-09T08:21:43.623Z
Answers.UserDisplayName: Andrea Spinelli
Body: <p>Assuming I have SNPs data using hg19, how can I know which SNP belongs into which Gene? </p>
  
  <p>The data looks like:</p>
  
  <pre><code>chr10_103577643
  chr10_124712463
  </code></pre>
  
  <p>and so on. </p>
  
  <p>I want to add a column of Gene, which would tell to which Gene the SNP belongs. 
  The file is not a VCF file but a Txt file. </p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-07-09T08:22:23.773Z
Comments.Text: Please [edit] your question and show us an example of your data. What do you have? A list of rsIDs? A VCF file? Some other format? How many SNPs?
Comments.UserDisplayName: terdon
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-07-09T12:10:10.253Z
Comments.Text: Just annotate the vcf file.
Comments.UserDisplayName: arup
Tags: <gene><snp><hgp>
Title: Associating SNP and GENE
ThreadText: # Associating SNP and GENE
  
  (Asked by: username_0 on 2018-07-08)
  
  Assuming I have SNPs data using hg19, how can I know which SNP belongs into which Gene?
  
  The data looks like:
  
  ```
  chr10_103577643
  chr10_124712463
  
  ```
  
  and so on.
  
  I want to add a column of Gene, which would tell to which Gene the SNP belongs.
  The file is not a VCF file but a Txt file.
  
  **Tags:** gene, snp, hgp
  
  > **Comments:**
  > **username_1**: Please [edit] your question and show us an example of your data. What do you have? A list of rsIDs? A VCF file? Some other format? How many SNPs?  
  > **username_2**: Just annotate the vcf file.  
  
  ---
  
  ## 2 answers
  
  ### Answer by username_3 on 2018-07-09. Score: 3
  
  Use the [Variant Effect Predictor(VEP)](http://grch37.ensembl.org/info/docs/tools/vep/index.html)
  
  > **Comments:**
  > **username_1**: Please don't just post links as answers. It would be great if you could add a short explanation of what VEP is, how to use it etc. Otherwise, this is really a comment and not an answer and would become useless in the (admittedly unlikely) case where the VEP were to be discontinued or its URL changed. For instance, pasting `chr10_103577643` into VEP doesn't work, so you could explain what format the data would have to be in.  
  
  ---
  
  ### Answer by username_4 on 2018-07-09. Score: 2
  
  You can use [snpEff](http://snpeff.sourceforge.net/SnpEff_manual.html) or [snpSIFT](http://snpeff.sourceforge.net/SnpSift.html) java annotator also for hg19.
  
  > **Comments:**
  > **username_1**: Please don't just post links as answers. It would be great if you could add a short explanation of these tools do, how to use them etc. Otherwise, this is really a comment and not an answer and would become useless if the tools were to be discontinued or their URLs changed.  
  
  ---
  
  