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A SWI/SNF subcomplex that incorporates two mutually exclusive paralogs, GLTSCR1 (glioma tumor suppressor candidate region gene 1) or GLTSCR1L (GLTSCR1-like), BRD9 (bromodomain-containing 9) and the …
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This ticket is to create the demo .yaml content for a "good sampling" of PDQ content. This should include:
* all the different summary types (by editorial board)
* patient vs health professional summa…
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I am implementing [SomaticSeq](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0758-2) for consensus variant calling on filtered mutation calls from Mutect2, VarScan2 and LoFreq. S…
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@elipapa commented on [Fri Jan 12 2018](https://github.com/opentargets/roadmap/issues/119)
@gkos-bio commented on [Fri Mar 17 2017](https://github.com/opentargets/platform_semantic/issues/3)
could b…
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Work in progress
```sql
/*
Get coverage statistics for each gene and sample
1. Get selected tumor pairs as described elsewhere (`selected_tumor_pairs`)
2. Reduce this list to a list of aliquots…
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Hepatocellular Mixed Fibrolamellar Carcinoma (rare subtype of HCC with mixed conventional and fibrolamellar features, not in NCI)
*The following would benefit from review of the WHO classification …
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Hello Radiomics community!
I have some questions regarding to dealing with negative intensity voxels.
I have brain tumor (glioma) MRI data set and it has been normalized relative to white matter…
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In progress
```sql
/*
Build a squared gene x subject matrix for heatmap plotting
1. Get selected tumor pairs as described elsewhere (`selected_tumor_pairs`)
- reduce this list to a list of ali…
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CNV results (GATK pipeline) are incoming and need to be QC'ed.
- [x] Visually inspect CNV calls, how is the noise level, were sex chromosomes excluded, can we observe characteristic glioma changes …
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**Background**: For the glioma life history project we have longitudinally collected MD Anderson tumor samples (2-3 samples per subject) that were sent to Novogene for sequencing. These samples come f…