text: user298: I am looking for a publicly available matched tumor-normal sample. I need Illumina fastq reads (or an aligned bam file, since I could extract the reads from it) from a tumor and a matching, non-tumor control set from the same patient. Ideally, I would also have a truth set of known variants in the sample, but I can live without that. 
  I checked the Next Generation Cancer Knowledge Network but although they do seem to have appropriate bam files, which I could convert to fastq, all of the ones I found were "controlled access" and getting access seems very complicated. 
  Is there something like the public NA12878 sample for tumor-normal analyses? 
  
  user2141: Please take a look at 
  An open access pilot freely sharing cancer genomic data from participants in Texas
  Although I have not worked on this paper but author claimed that both tumor and normal data is publicly available. In case if you still need something more, than you can work on virtual normal data. And there are several papers which provide machnine learning techniques to overcome the deficiency of normal data (not much efficient but still they give considerable results). Hope this information will help you. Thanks
  
original_text: 298: <p>I am looking for a publicly available matched tumor-normal sample. I need Illumina fastq reads (or an aligned bam file, since I could extract the reads from it) from a tumor and a matching, non-tumor control set from the same patient. Ideally, I would also have a truth set of known variants in the sample, but I can live without that. </p>
  
  <p>I checked the <a href="http://gdc.cancer.gov" rel="nofollow noreferrer">Next Generation Cancer Knowledge Network</a> but although they do seem to have appropriate bam files, which I could convert to fastq, all of the ones I found were "controlled access" and getting access seems very complicated. </p>
  
  <p>Is there something like the public NA12878 sample for tumor-normal analyses? </p>
   2141: <p>Please take a look at </p>
  
  <p><a href="https://www.nature.com/articles/sdata201610" rel="nofollow noreferrer">An open access pilot freely sharing cancer genomic data from participants in Texas</a></p>
  
  <p>Although I have not worked on this paper but author claimed that both tumor and normal data is publicly available. In case if you still need something more, than you can work on virtual normal data. And there are several papers which provide machnine learning techniques to overcome the deficiency of normal data (not much efficient but still they give considerable results). Hope this information will help you. Thanks</p>
  