GATCI whole genome somatic variants (SomaticSniper)
Sequence data in fastq format was aligned to the GRCh38 reference genome with BWA-MEM and preprocessed with GATK for indel realignment and base quality score recalibration. Aligned sequence was analyzed with SomaticSniper to generate somatic variant calls. Variant calls are in VCF format. In total, there are 60 tumour samples from 38 patients, all with matched normal. Further details can be found in the vcf headers
- DAC: EGAC00001002164
Data Access Agreement for the Nichols Group
Data will be available to qualified investigators upon request.
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS00001002234 | Other |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Located in | |
|---|---|---|---|---|
| EGAF00003287857 | vcf.gz | 78.4 kB | ||
| EGAF00003287864 | vcf.gz | 16.6 MB | ||
| EGAF00003287866 | vcf.gz | 211.8 kB | ||
| EGAF00003287872 | vcf.gz | 760.5 kB | ||
| EGAF00003288028 | vcf.gz | 136.1 kB | ||
| EGAF00003288032 | vcf.gz | 45.3 kB | ||
| EGAF00003288033 | vcf.gz | 231.0 kB | ||
| EGAF00003288037 | vcf.gz | 468.6 kB | ||
| EGAF00003288040 | vcf.gz | 46.2 kB | ||
| EGAF00003288041 | vcf.gz | 48.7 kB | ||
| EGAF00003288050 | vcf.gz | 66.6 kB | ||
| EGAF00003288051 | vcf.gz | 88.0 kB | ||
| EGAF00003288052 | vcf.gz | 203.4 kB | ||
| EGAF00003288054 | vcf.gz | 59.7 kB | ||
| EGAF00003288057 | vcf.gz | 204.9 kB | ||
| EGAF00003288066 | vcf.gz | 21.5 kB | ||
| EGAF00003288067 | vcf.gz | 413.8 kB | ||
| EGAF00003288071 | vcf.gz | 118.2 kB | ||
| EGAF00003288074 | vcf.gz | 106.7 kB | ||
| EGAF00003288077 | vcf.gz | 259.0 kB | ||
| EGAF00003288079 | vcf.gz | 171.5 kB | ||
| EGAF00003288083 | vcf.gz | 132.2 kB | ||
| EGAF00003288089 | vcf.gz | 46.0 kB | ||
| EGAF00003288090 | vcf.gz | 111.6 kB | ||
| EGAF00003288091 | vcf.gz | 287.0 kB | ||
| EGAF00003288094 | vcf.gz | 121.5 kB | ||
| EGAF00003288096 | vcf.gz | 71.6 kB | ||
| EGAF00003288097 | vcf.gz | 23.9 kB | ||
| EGAF00003288099 | vcf.gz | 121.3 kB | ||
| EGAF00003288108 | vcf.gz | 210.9 kB | ||
| EGAF00003288110 | vcf.gz | 58.0 kB | ||
| EGAF00003288113 | vcf.gz | 110.5 kB | ||
| EGAF00003288116 | vcf.gz | 59.7 kB | ||
| EGAF00003288120 | vcf.gz | 50.6 kB | ||
| EGAF00003288505 | vcf.gz | 110.8 kB | ||
| EGAF00003288509 | vcf.gz | 69.9 kB | ||
| EGAF00003288510 | vcf.gz | 125.9 kB | ||
| EGAF00003289157 | vcf.gz | 314.9 kB | ||
| EGAF00003289160 | vcf.gz | 96.9 kB | ||
| EGAF00003289162 | vcf.gz | 26.1 kB | ||
| EGAF00003289164 | vcf.gz | 21.4 kB | ||
| EGAF00003289165 | vcf.gz | 80.0 kB | ||
| EGAF00003289166 | vcf.gz | 23.2 kB | ||
| EGAF00003289167 | vcf.gz | 27.2 kB | ||
| EGAF00003290594 | vcf.gz | 128.8 kB | ||
| EGAF00003290596 | vcf.gz | 272.5 kB | ||
| EGAF00003290597 | vcf.gz | 1.0 MB | ||
| EGAF00003290602 | vcf.gz | 725.9 kB | ||
| EGAF00003290607 | vcf.gz | 131.1 kB | ||
| EGAF00003290608 | vcf.gz | 142.0 kB | ||
| EGAF00003290611 | vcf.gz | 268.3 kB | ||
| EGAF00003290615 | vcf.gz | 63.0 kB | ||
| EGAF00003290616 | vcf.gz | 145.7 kB | ||
| EGAF00003292682 | vcf.gz | 530.9 kB | ||
| EGAF00003292683 | vcf.gz | 462.6 kB | ||
| EGAF00003292684 | vcf.gz | 304.4 kB | ||
| EGAF00003292685 | vcf.gz | 517.9 kB | ||
| EGAF00003292694 | vcf.gz | 169.8 kB | ||
| EGAF00003292709 | vcf.gz | 87.2 kB | ||
| EGAF00003292712 | vcf.gz | 35.1 kB | ||
| 60 Files (27.6 MB) | ||||