Gistic ROI gene selection - cancer studies not loading

[GoogleCodeExporter]

There is no option to select genes via Gistic for the cancer studies listed 
below.  Perhaps its a problem with the source data or data files generated via 
the firehose converter.  If so, let me know.

HNSC
LUAD
KIRP
LGG
THCA
LUSC
PAAD
LIHC
STAD

Original issue reported on code.google.com by Benjamin.Gross@gmail.com on 1 Oct 2012 at 2:37

[GoogleCodeExporter]

I am not having this problem on the gdac portal.  Is that what you are 
referring to?

button doesn't appear for:
HNSC (Broad)
THCA

I'll continue to test the other cancer studies and see what is coming in from 
the firehose for THCA.  Is HNSC (Broad) also firehose?

Original comment by gide...@gmail.com on 1 Oct 2012 at 2:51

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Ok, yes, I see THCA has no data, but HNSC (TCGA) does.  You can see the data 
here:

miso-dev:/data/grossb/gdac-current/hnsc_tcga/

Original comment by Benjamin.Gross@gmail.com on 1 Oct 2012 at 2:56

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The button appears on the gdac portal, Head and Neck Squamous Cell Carcinoma 
(TCGA, provisional) -- HNSC (TCGA) -- and data loads into the table.  

These are the cancer studies for which the button doesn't show up.  This is 
supposed to mean that there is no gistic data for that cancer study.  I think 
that this is to be expected for many of them since they are not TCGA.

Acute Myeloid Leukemia (TCGA, provisional)
Bladder Cancer (MSKCC)
Breast Cancer (Broad, Sanger, Scandinavian cohorts)
Cancer Cell Line Encyclopedia
Colorectal Cancer (Genetech)
Colorectal Cancer Triplets (MSKCC)
Lung Adenocarcinoma (Broad, MSKCC, TCGA & Broad, TSP)
Medulloblastome (ICGC)
Melanoma (Broad)
Prostate Cancer (Broad/Cornell)
Prostate Cancer, Metastatic and High Degree Primary (Michigan)
Small Cell Lung Cancer (CLCGP)
Small Cell Lung Cancer (Johns Hopkins)
Thyroid Carcinoma (TCGA, Provisional)

Original comment by gide...@gmail.com on 1 Oct 2012 at 3:10

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For the studies I pointed out initially, I meant the TCGA versions (including 
provisional).  For Head and Neck Squamous Cell Carcinoma (TCGA, provisional), I 
don't see the button.  Maybe an issue with Chrome?

Original comment by Benjamin.Gross@gmail.com on 1 Oct 2012 at 3:16

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No, I don't see HNSC (TCGA) on Safari either.

Original comment by Benjamin.Gross@gmail.com on 1 Oct 2012 at 3:17

[GoogleCodeExporter]

The MutSig button wasn't appearing and so the Gistic button floated over to the 
left.  Maybe this is disorienting.

Original comment by gide...@gmail.com on 1 Oct 2012 at 3:31

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Perhaps, but I didn't get much sleep last night :-), so my experience may not 
be the best judge of this.

Original comment by Benjamin.Gross@gmail.com on 1 Oct 2012 at 3:35

• Changed state: Done