Alice:Exome Sequencing Analysis/FengLab livertumor
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Feng lab mouse liver tumor exome sequencing[edit]
- Two batch of exome sequencing done by the Feng lab
- exome varient calling pipeline used: GATK & freebayes (see script below)
First batch of data set: location on genome-miner: /home/zhl002/media/LTS_60T/SeqStore2015/Feng_151216 P608 and P610 are PTEN hepatocyte specific knockout mice. P608-tumor and P608-tail are tumor and tail samples from P608. P610-tumor and P610-tail are tumor and tail samples from P610. D634 and D642 are PTEN and SHP2 hepatocyte specific knockout mice. D634-tumor and D634-tail are tumor and tail samples from D634. D642-tumor and D642-tail are tumor and tail samples from D642.
Second batch of data set: location on genome-miner: /home/zhl002/media/LTS_60T/SeqStore2016/Feng_160222 tumor sample from liver of 8 months old mice injected DEN (carcinogen) two pair samples (A50-tumor, A50-Tail, A43-Tumor, A43-Tail) two tumor samples (A146-tumor, A149-tumor)