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Showing :
enrichment
•
reset
0
votes
0
replies
426
views
topGO: how do I retrieve my genes contributing to the GO term enrichment
gene
enrichment
topGO
GO
retrieve
11 months ago
Priya
• 0
0
votes
4
replies
1.2k
views
Questions about non-model organisms gene enrichment analysis
non-model
enrichment
organisms
analysis
updated 15 months ago by
Guido Hooiveld
★ 3.9k • written 18 months ago by
yuhang
• 0
0
votes
0
replies
494
views
Enrichment in genomic regions
Enrichment
clusterPro
WGCNA
20 months ago
María José
• 0
0
votes
2
replies
889
views
Seeking help in multifactor differential gene expression analysis using DESeq2. Can not get significance difference while comparing 3 time factor (…
DifferentialExpression
GeneExpression
R
enrichment
DEGseq
updated 21 months ago by
swbarnes2
★ 1.3k • written 21 months ago by
ac.mainul.mmb
• 0
1
vote
3
replies
1.7k
views
enrichKEGG results for non-model organism
clusterProfiler
enrichment
KEGG
updated 5 weeks ago by
cinzia.spagnoli
• 0 • written 22 months ago by
AP
• 0
1
vote
3
replies
5.1k
views
GSVA and ssGSEA output differences
enrichment
GSVA
enrichplot
ssGSEA
updated 24 months ago by
Robert Castelo
★ 3.1k • written 24 months ago by
Davide
• 0
0
votes
0
replies
598
views
Over-enrichment of cytobands in INDUCE-Seq
enrichment
INDUCE-Seq
2.5 years ago
Mark Dunning
★ 1.1k
2
votes
2
replies
848
views
Hypergeometric (gene set enrichment) test using "Categories" package
enrichment
hypergeometric
Categories
2.9 years ago
josmantorres
▴ 10
0
votes
7
replies
2.2k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange
topGO
DifferentialExpression
enrichment
updated 3.4 years ago by
Gordon Smyth
50k • written 3.4 years ago by
lessismore
▴ 20
4
votes
4
replies
1.2k
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO
Gene Ontology
enrichment
panther.db
updated 3.5 years ago by
Gordon Smyth
50k • written 3.5 years ago by
Brian Smith
▴ 120
1
vote
2
replies
9.0k
views
Interpreting TSS Enrichment Score Summary
atacseq
atacseqqc
tss
enrichment
updated 3.6 years ago by
Ou, Jianhong
★ 1.3k • written 3.6 years ago by
Arpi Beshlikyan
• 0
0
votes
0
replies
745
views
reactomePA error input file
r
reactomePA
enrichment
updated 3.8 years ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
camillab.
▴ 10
3
votes
3
replies
4.4k
views
Genelist input for ClusterProfiler
R
ClusterProfiler
Enrichment
Pathway
updated 9 months ago by
Guido Hooiveld
★ 3.9k • written 3.9 years ago by
t.b.kuipers
• 0
5
votes
7
replies
2.1k
views
Alternative tools to perform GO enrichment on DE genes
go
de
enrichment
rnaseq
goana
updated 4.0 years ago by
Gordon Smyth
50k • written 4.0 years ago by
Raito92
▴ 60
2
votes
1
reply
1.2k
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics
enrichment
Perseus
4.1 years ago
harelarik
▴ 60
3
votes
3
replies
1.1k
views
Discrepancies between topGO output and input
go
topGO
gene
ontology
enrichment
updated 4.7 years ago by
James W. MacDonald
65k • written 4.7 years ago by
t.bergmann
• 0
1
vote
1
reply
1.1k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO
significant
enrichment
genes
IDs
5.2 years ago
David ROUX
▴ 20
2
votes
3
replies
926
views
How to calculate overlap between transposable elements differentially expressed in one experiment, with those expressed in another set of samples?
gene expression
enrichment
RNA-seq
DESeq2
updated 5.2 years ago by
Michael Love
41k • written 5.2 years ago by
rodrigo.duarte88
▴ 30
0
votes
0
replies
847
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq
enrichment
GWAS
5.6 years ago
zhu
• 0
0
votes
0
replies
1.1k
views
Enrichment of GWAS SNPs in regulatory regions
genomicranges
enrichment
fisher
7.5 years ago
enricoferrero
▴ 660
1
vote
2
replies
2.3k
views
Bias correction for enrichment analysis of 450k methylation data => feed bias adjusted genes into IPA
goseq
450k
enrichment
updated 9.1 years ago by
belinda.phipson
▴ 40 • written 9.1 years ago by
Ed Schwalbe
▴ 10
0
votes
0
replies
1.6k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment
genesetenrichment
dose
gosemsim
9.4 years ago
Guangchuang Yu
★ 1.2k
22 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
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