how to analyze CNV data
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mms140130 • 0
@mms140130-13360
Last seen 5.2 years ago

Hello,

I'm trying to use copy number variation data in a statistical model "regression" so I have for example gene expression data and SNP data for breast cancer, which is one data point for each patient.

the CNV data is different for each patient there are 23 chromosomes and several segment means, I downloaded the file for tumor data 

if anyone can just clarify to me how to analyze such data, Thanks.

The data is about Breast Cancer data BRCA, downloaded from FireBrowse

Sample

Chromosome

Start

End

Num_Probes

Segment_Mean

TCGA-3C-AAAU-10A-01D-A41E-01

1

3218610

95674710

53225

0.0055

TCGA-3C-AAAU-10A-01D-A41E-01

1

95676511

95676518

2

-1.6636

TCGA-3C-AAAU-10A-01D-A41E-01

1

95680124

167057183

24886

0.0053

TCGA-3C-AAAU-10A-01D-A41E-01

1

167057495

167059336

3

-1.0999

TCGA-3C-AAAU-10A-01D-A41E-01

1

167059760

181602002

9213

-8.00E-04

TCGA-3C-AAAU-10A-01D-A41E-01

1

181603120

181609567

6

-1.2009

copy number • 1.2k views
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A good place to start is to clarify what you mean by 'analyze such data' -- what is your scientific research question, and what do you think you need to do to answer the question?

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