Forum: General
11-22-2014, 04:11 AM
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Replies: 3
Views: 2,949
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Forum: General
11-22-2014, 04:09 AM
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Replies: 8
Views: 3,801
Here are a few threads on a tool we've put...
Here are a few threads on a tool we've put together to help explore cancer genomics data, particularly The Cancer Genome Atlas:
http://seqanswers.com/forums/showthread.php?t=42471...
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Forum: RNA Sequencing
11-22-2014, 03:50 AM
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Replies: 2
Views: 4,311
If you look at the "DESCRIPTION.TXT" files...
If you look at the "DESCRIPTION.TXT" files included in each package, there is the following description:
This data archive contains the miRNA expression data for cancer samples
of The Cancer...
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Forum: Bioinformatics
11-22-2014, 03:32 AM
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Replies: 7
Views: 26,880
Hi,
Yep, as Benjamin has pointed out, we...
Hi,
Yep, as Benjamin has pointed out, we have found the data in the *.normalized_results to be the most robust and comparable across samples and experiments. We've also done some testing against...
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Forum: Bioinformatics
11-22-2014, 03:25 AM
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Replies: 2
Views: 2,532
Hi,
Yep, like Richard has pointed out, you...
Hi,
Yep, like Richard has pointed out, you need to get a hold of analysis IDs.
We typically use https://browser.cghub.ucsc.edu/ to search for the samples that we're interested in, and then...
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Forum: Bioinformatics
11-22-2014, 03:16 AM
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Replies: 4
Views: 2,547
Hi Mous,
We've put this data into GenePool...
Hi Mous,
We've put this data into GenePool and much of the RNA-Seq data is freely available to the community. We've linked all of the genomics data (such as RNA-Seq) to the relevant patient &...
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Forum: Bioinformatics
11-22-2014, 03:12 AM
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Replies: 1
Views: 3,042
Hi,
We have made the Breast Cancer microRNA...
Hi,
We have made the Breast Cancer microRNA level 3 data freely available as part of a free preview of GenePool's premium content. This data is prepped and ready to analyze in GenePool.
...
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Forum: Vendor Forum
11-22-2014, 12:15 AM
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Replies: 1
Views: 4,568
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Forum: Vendor Forum
11-22-2014, 12:12 AM
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Replies: 0
Views: 5,341
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Forum: Vendor Forum
04-15-2014, 04:16 PM
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Replies: 1
Views: 4,568
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Forum: General
03-27-2014, 03:59 PM
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Replies: 15
Views: 3,029
Hi, you might want to check out GenePool as a...
Hi, you might want to check out GenePool as a resource for supporting genomics education. It is built with a very intuitive interface that makes working with genomics fairly approachable for students...
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Forum: Bioinformatics
03-27-2014, 11:21 AM
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Replies: 2
Views: 2,157
Hi All,
We've included TCGA gene-level read...
Hi All,
We've included TCGA gene-level read counts as part of freely available reference library of genomics data in our product, GenePool. These counts were generated using the RNASeqV2 pipeline...
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Forum: Bioinformatics
03-27-2014, 11:17 AM
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Replies: 4
Views: 10,232
Hi All,
For what it's worth, we're committed...
Hi All,
For what it's worth, we're committed to making this sort of data more freely available and usable by the community. In that spirt, we've included a freely available reference library of...
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Forum: RNA Sequencing
03-27-2014, 11:08 AM
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Replies: 3
Views: 1,701
Hello!
You might want to check out the...
Hello!
You might want to check out the genomics reference library that is freely available in GenePool. It is a growing resource that we're making freely available to the community, and it...
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Forum: Bioinformatics
03-27-2014, 11:03 AM
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Replies: 2
Views: 2,160
Hi,
There are actually adjacent normals...
Hi,
There are actually adjacent normals available for a subset of patients per cohort that were profiled by RNA-Seq, while the DNA sequence variation data (genomes, exomes) is generated from...
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Forum: Bioinformatics
03-27-2014, 10:56 AM
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Replies: 1
Views: 1,478
Hi,
If you're interested in working with...
Hi,
If you're interested in working with TCGA expression data, you might be interested in checking out the free genomics reference library that Station X has recently launched as part of GenePool....
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Forum: Bioinformatics
03-27-2014, 10:51 AM
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Replies: 1
Views: 1,811
Hi Matthew,
We at Station X totally feel...
Hi Matthew,
We at Station X totally feel that TCGA data needs to be more freely accessible and approachable by the research community. In that spirit, we've recently launched a free reference...
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Forum: General
03-27-2014, 10:45 AM
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Replies: 1
Views: 2,510
Hi Shahenda,
Yes there are a number of...
Hi Shahenda,
Yes there are a number of normal-adjacent samples available for the RNA-Seq. In fact, you can freely browse and analyze the RNA-SeqV2 (level 3) gene-level data in GenePool by taking...
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