upstream regulators Posts

Latest

Open

RNA-Seq

ChIP-Seq

SNP

Assembly

Tutorials

Tools

Jobs

Forum

Planet

All »

Home

Welcome to Biostar! about • faq • rss

Community

Log In

Sign Up

Add New Post

Showing selected topics • reset

or Classic search

votes

answers

203

views

answers

Can anyone introduce me a free tool for finding upstream regulators of differentially expressed genes?

rna-seq enrichment analysis upstream regulators written 8 weeks ago by Sib • 20

Recent Votes

Recent Locations • All »

Boulder, Colorado, 1 minute ago
London, United Kingdom, 2 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087, 4 minutes ago

Recent Awards • All »

Centurion to anasofiamoreira94 • 70
Good Answer to Kevin Blighe ♦ 68k
Popular Question to Kevin Blighe ♦ 68k
Scholar to Carlo Yague • 5.2k
Appreciated to WouterDeCoster ♦ 44k
Teacher to Kevin Blighe ♦ 68k

Recent Replies

C: What exactly does the -fs flag (fragment size) do in bedtools genomecov/genomeCo by kieft1bp • 0
Thanks for your simple answer. So, in my case from above, if I have a read that is 50 bp long it ...
A: Estimation of Copy Number of alterations(CNA) in Sc-RNA Seq data by igor ♦ 11k
> I could not find that many tools for this purpose This previous discussion has a few: https...
C: Accessing local installation of biomart results in "XML file does not appear to by anhvo711 • 0
Yes, I did all of that and downloaded from ensembl since biomart.org was not giving any marts
A: What exactly does the -fs flag (fragment size) do in bedtools genomecov/genomeCo by ATpoint ♦ 42k
It extends coordinates to the 3‘ direction starting from the 5‘ position to the value you give it...
C: Predicting survival of cancer patients using glmnet cox by Kevin Blighe ♦ 68k
Hey, you looked at some of the examples using `predict()` at https://web.stanford.edu/~hastie/glm...
C: Accessing local installation of biomart results in "XML file does not appear to by GenoMax ♦ 92k
Sounds like you did not actually manage to download a mart. Did you do the stuff on page 7 and 8 ...
C: Accessing local installation of biomart results in "XML file does not appear to by anhvo711 • 0
Any idea what the problem actually is? Why are the marts not of correct format?
A: Estimation of Copy Number of alterations(CNA) in Sc-RNA Seq data by jared.andrews07 ♦ 8.0k
There are several tools for this. [inferCNV](http://bioconductor.org/packages/release/bioc/html/i...
C: Accessing local installation of biomart results in "XML file does not appear to by Pierre Lindenbaum ♦ 131k
> This XML file does not appear to have any style information associated with it. The document...
A: Identify small strings in a larger sequence in R by rpolicastro • 2.4k
Example data df <- structure(list(seq = c("A0A0D9S786..........STDQNHSTETPNLAAAVPSSVSVPR"...
C: How to create vcf file with SNPs bed file and sorted bam file? by O.rka • 230
A bit. I've only really done it for prokaryotic organisms with `snippy`. Right now I'm trying t...
C: How to create vcf file with SNPs bed file and sorted bam file? by ATpoint ♦ 42k
Are you familiar with the process of variant calling?

Content

Help

About
FAQ

Access

RSS
Stats
API

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Traffic: 1848 users visited in the last hour