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knowledgesystems / curation-scrum

Used for issue tracking of data curation efforts.
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Compare cBioPortal studies to those listed in recent cancer genomics review #64

Closed schultzn closed 8 years ago

schultzn commented 8 years ago

This table lists many recent WES or WGS studies: http://www.nature.com/nrg/journal/v14/n10/fig_tab/nrg3539_T1.html

We need to make sure we have all these studies in cBioPortal.

chenh4 commented 8 years ago

Studies not in cBioPortal (16 out of 45): paediatric GBM, McGill University, Nature 2012 http://www.nature.com/nature/journal/v482/n7384/full/nature10833.html

CCRCC, Wellcome Trust Sanger Institute, Nature 2011 http://www.nature.com/nature/journal/v469/n7331/full/nature09639.html CCRCC, UTSW, Nat Genetics 2012 http://www.nature.com/ng/journal/v44/n7/full/ng.2323.html

Gastric adenocarcinoma,National Cancer Centre, Singapore, Nat Genetics, 2012 http://www.nature.com/ng/journal/v44/n5/full/ng.2246.html#affil-auth

Breast Cancer, Washington University, Nature 2012 http://www.nature.com/nature/journal/v486/n7403/full/nature11143.html

HCC, Johns Hopkins, Nat Genetics, 2011 http://www.nature.com/ng/journal/v43/n9/full/ng.903.html#affil-auth HCC, INSERM, Nat Genetcs, 2012 http://www.nature.com/ng/journal/v44/n6/full/ng.2256.html HCC, Shanghai Jiaotong University, Nat Genetics, 2012 http://www.nature.com/ng/journal/v44/n10/full/ng.2391.html

AML, Washington University, Cell 2012 http://www.sciencedirect.com/science/article/pii/S0092867412007775

MDS, Sanger, NEJM 2011 http://www.nejm.org/doi/full/10.1056/NEJMoa1103283

CLL, Columbia University, JEM 2011 http://jem.rupress.org/content/208/7/1389 CLL, Universidad de Oviedo, Nature 2011 http://www.nature.com/nature/journal/v475/n7354/full/nature10113.html#affil-auth CLL, Dana-Farber, NEJM 2011 http://www.nejm.org/doi/full/10.1056/NEJMoa1109016

DLBCL, Columbia University, Nature 2011 http://www.nature.com/nature/journal/v471/n7337/full/nature09730.html DLBCL, Columbia University, Nat Genetics 2011, http://www.nature.com/ng/journal/v43/n9/full/ng.892.html

MM, Broad, Nature 2011 http://www.nature.com/nature/journal/v471/n7339/full/nature09837.html

ritikakundra commented 8 years ago

Gastric adenocarcinoma,National Cancer Centre, Singapore, Nat Genetics, 2012 http://www.nature.com/ng/journal/v44/n5/full/ng.2246.html#affil-auth: HAS NO REF OR ALT ALLELE

chenh4 commented 8 years ago

PMID: 22286061 21248752 22683710 22484628 22722193 21822264 22561517 22922871 22817890 21995386 21670202 21642962 22150006 21390126 21804550 21430775

chenh4 commented 8 years ago

Added the PMID list above to Matt's hotspot list already, so there will be a total of 27 studies to add.