text: user3039: 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. 
  
  user1453: You can use snpEff or snpSIFT java annotator also for hg19.
  
  user1332: Use the Variant Effect Predictor(VEP)
  
original_text: 3039: <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>
   1453: <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>
   1332: <p>Use the <a href="http://grch37.ensembl.org/info/docs/tools/vep/index.html" rel="nofollow noreferrer">Variant Effect Predictor(VEP)</a></p>
  