User: thejustpark

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thejustpark80
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United States
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10 months, 2 weeks ago
Joined:
6 years, 8 months ago
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Posts by thejustpark

<prev • 33 results • page 1 of 4 • next >
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Comment: C: How to define psychiatric disorder patients from GTEx?
... Thank you very much Ian and Freiderike, Your comments actually alert me on my investigation direction. Since many papers used GTEx data in their research for those psychiatric disorders, I somehow thought that GTEx would have such phenotypes. However, after spending two days, I could not find an ...
written 11 months ago by thejustpark80
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How to define psychiatric disorder patients from GTEx?
... Dear Biostar users, I recently downloaded GTEx data to study psychiatric disorders such as schizophrenia, Alzheimer's disease and substance disorder. The first thing to do is to strategy samples based on (the risk or incidence) of such disorders. However, I cannot find a manual or a paper descri ...
database gtex psychiatric disorder written 11 months ago by thejustpark80
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Comment: C: Any database with RNA-Seq signal files for GTEx data?
... Thank you kristoffer. I am now checking recount2 to download bigwig files for each sample. Since I need individual bigwig files, I don't need to worry about summing to tissue-level signals. Thank you again! ...
written 11 months ago by thejustpark80
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Comment: C: Any database with RNA-Seq signal files for GTEx data?
... Thank you ATpoint for your help! Now I see how to use this thing. ...
written 11 months ago by thejustpark80
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Comment: A: Any database with RNA-Seq signal files for GTEx data?
... Thank you kristoffer. I am now checking recount2 to download bigwig files for each sample. Since I need individual bigwig files, I don't need to worry about summing to tissue-level signals. Thank you again! ...
written 11 months ago by thejustpark80
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Any database with RNA-Seq signal files for GTEx data?
... I am trying to analyze RNA-Seq data in GTEx. I learned that, although BAM files are restricted and require access control, its signal files are not identifiable, thus possibly in the open domain. Do you know of any database or download sites from which I can download RNA-Seq signal files (either i ...
rna-seq written 11 months ago by thejustpark80
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Comment: C: RNA-Seq database of cancer patients other than TCGA and ICGC?
... I am actually interested in pan cancer study, so does not matter (the more, the better). ...
written 19 months ago by thejustpark80
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Comment: C: RNA-Seq database of cancer patients other than TCGA and ICGC?
... I am sorry that I can't understand what you mean by entity. Assuming that you ask about response variable or covariate, I want to have their survival status with RNA-Seq data. If it's not what you asked, please let me know again. Thank you very much. ...
written 19 months ago by thejustpark80
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RNA-Seq database of cancer patients other than TCGA and ICGC?
... For my computational cancer model using RNA-Seq data, I am going to use TCGA as a discovery cohort. Since ICGC or GDC have great overlap with TCGA data, I want to find independent databases as validation cohort. I can find several RNA-Seq data on cancer cell lines, such as CTRP, TARGET, CCLE, but c ...
patient rna-seq cancer written 19 months ago by thejustpark80 • updated 18 months ago by Pappu1.9k
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What to do to identify rare variatns from vcf files resulted from UnifiedGenotyper?
... Hello, I am new to exome sequencing data anslysis and want to ask questions regarding what to do in my situation. I have spent quite a time to figure this out by myself, but since there's no one around me to direct me, I couldn't get much. I am given vcf files suspected to be from GATK UnifiedGe ...
next-gen written 2.3 years ago by thejustpark80 • updated 2.3 years ago by rse90

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Popular Question 18 months ago, created a question with more than 1,000 views. For A statistical test to call group connectivity based on individual connectivities.
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Popular Question 5.1 years ago, created a question with more than 1,000 views. For A statistical test to call group connectivity based on individual connectivities.
Popular Question 5.6 years ago, created a question with more than 1,000 views. For A statistical test to call group connectivity based on individual connectivities.

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