Title: Documentation  
Owner: Former user
Creator: Former user 2011-06-23
Last Changed by: Former user 2018-07-06
Tiny Link: (useful for email) https://broadinstitute.atlassian.net/wiki/x/CoVTMg
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Broad TCGA GDAC (2)
    Page: Analysis Run Release Notes
    Page: FAQ
Hierarchy
Children (5)
    Page: Authorship List for TCGA Papers
    Page: GDAC Search Examples
    Page: Methylation Preprocessor
    Page: PARADIGM Pipeline Description
    Page: RPPA Issues
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Time Editor  
2018-07-06 09:54 Former user View Changes
2018-06-21 14:31 Former user View Changes
2018-06-21 14:11 Vicky Horst View Changes
2017-12-14 18:04 Former user View Changes
2017-12-04 16:53 Vicky Horst  
Outgoing Links
External Links (32)
    www.broadinstitute.org/oncotator/
    gdac.broadinstitute.org/Analyses-DAG.html
    bioinformatics.mdanderson.org/main/TCPA:Overview
    https://confluence.broadinstitute.org/display/GDAC/Document…
    www.broadinstitute.org/cgi-bin/cancer/publications/pub_pape…
    gdac.broadinstitute.org/runs/info/clinical
    www.sciencemag.org/content/317/5844/1500.2
    www.broadinstitute.org/cancer/cga/mutsig
    firebrowse.org/api-docs/#!/Samples/ClinicalTier1
    www.pnas.org/cgi/content/abstract/101/12/4164
    firebrowse.org
    ftp://ftp.broadinstitute.org/pub/GISTIC2.0
    www.ncbi.nlm.nih.gov/pmc/articles/PMC3600490/#r14
    https://gdc.cancer.gov/about-data/data-harmonization-and-ge…
    mailto:gdac@broadinstitute.org
    https://gdc.cancer.gov/resources-tcga-users/tcga-code-table…
    www.broadinstitute.org/cgi-bin/cancer/publications/pub_pape…
    www.broadinstitute.org/gsea/index.jsp
    firehose:8080/tcga-gdac/secure/taskregistry/TaskRegistry.ac…
    ftp://ftp.broadinstitute.org/pub/GISTIC2.0/GISTICDocumentat…
    https://wiki.nci.nih.gov/display/TCGA/Mutation+Annotation+F…
    www.nature.com/ng/journal/v45/n10/full/ng.2760.html
    https://github.com/mariodeng/FirebrowseR
    https://www.nature.com/ng/journal/v48/n6/full/ng.3557.html
    bioinformatics.oxfordjournals.org/content/26/12/i237.full
    https://confluence.broadinstitute.org/display/CGA/Iterative…
    archive.broadinstitute.org/cancer/cga/msp
    compbio.cs.brown.edu/projects/hotnet/
    firebrowse.org/api-docs
    https://confluence.broadinstitute.org/display/GDAC/Analysis…
    https://wiki.nci.nih.gov/display/TCGA/Biospecimen+and+Clini…
    bioinformatics.oxfordjournals.org/content/25/22/2906.full#s…
Broad TCGA GDAC (8)     Page: FAQ
    Page: PARADIGM Pipeline Description
    Page: Download
    Page: Presentations
    Page: CHASM Status
    Page: Methylation Preprocessor
    Page: Documentation
    Page: GDAC Search Examples