Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Gene Ontology
•
reset
2
votes
12
replies
2.4k
views
I want to order genes in GO groups
gene ontology
genefilter
updated 8.6 years ago by
b.nota
▴ 360 • written 8.6 years ago by
kanacska
▴ 10
0
votes
9
replies
2.9k
views
expired SQLiteConnection in GoSemSim package.
gene ontology
GOSemsim
updated 8.8 years ago by
Paulson, Ariel
▴ 10 • written 9.1 years ago by
anupambtech2007
• 0
1
vote
3
replies
2.1k
views
Gene Ontology and Gene Set Enrichment
rna-seq
bioinformatics
gene ontology
gene set enrichment
go
updated 7.6 years ago by
Guangchuang Yu
★ 1.2k • written 7.6 years ago by
fromhj304
▴ 10
3
votes
4
replies
1.5k
views
Annotation Extension for GO terms
gene ontology
rols
updated 9.6 years ago by
Marc Carlson
★ 7.2k • written 9.6 years ago by
Michele
▴ 90
8
votes
5
replies
2.4k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound) : value for "GO:0000059" not found
GOSemSim
gosemsim
gene ontology
updated 6.2 years ago by
ellascottgm
• 0 • written 6.2 years ago by
anton.kratz
▴ 60
2
votes
2
replies
1.4k
views
GO.db source obo file?
gene ontology
gostats
go.db
ontologies
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
brismiller
• 0
2
votes
2
replies
2.1k
views
GO offspring consistency
annotation
GO
graph
gene ontology
updated 9.4 years ago by
Laurent Gatto
1.6k • written 9.4 years ago by
jelle.goeman
• 0
0
votes
3
replies
1.7k
views
piano runGSA with input from DESEQ2
deseq2
gene ontology
piano
7.5 years ago
simonp.snoeck
• 0
5
votes
4
replies
1.6k
views
Contrasts in GOexpress analysis?
gene ontology
goexpress
updated 7.3 years ago by
kevin.rue
▴ 350 • written 7.3 years ago by
mforde84
▴ 20
3
votes
8
replies
2.1k
views
How does the org.Dm.eg.db package deal with NOT annotation qualifiers when annotating genes to GO?
org.dm.eg.db
gene ontology
go enrichment
annotation
NOT
updated 7.1 years ago by
Valerie Obenchain
★ 6.8k • written 7.1 years ago by
triZZla
• 0
2
votes
2
replies
4.3k
views
topGO gene names/ensembl IDs
topgo
biomart
deseq2
gene ontology
updated 7.0 years ago by
Lluís Revilla Sancho
▴ 730 • written 7.0 years ago by
krc3004
▴ 10
3
votes
5
replies
1.7k
views
Does DEseq2 analysis make GOseq redundant?
deseq2
goseq
gene ontology
differential gene expression
6.8 years ago
david.rinker
▴ 10
0
votes
4
replies
1.2k
views
discrepancy between genes corresponding to gene ontology terms in org.Mm.eg.db and in AMIGO
gene ontology
6.6 years ago
raf4
▴ 20
4
votes
4
replies
1.3k
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO
Gene Ontology
enrichment
panther.db
updated 3.6 years ago by
Gordon Smyth
50k • written 3.6 years ago by
Brian Smith
▴ 120
1
vote
2
replies
2.5k
views
topGO for Gene Ontology and Gene Set enrichment
topgo
gene ontology
gene set enrichment
rna-seq
bioinformatics
updated 7.3 years ago by
Lluís Revilla Sancho
▴ 730 • written 7.6 years ago by
fromhj304
▴ 10
1
vote
1
reply
1.2k
views
Returning gene functional annotations with gene symbols as input (using mygene Bioconductor package)
software error
mygene
gene ontology
R
updated 6.8 years ago by
James W. MacDonald
65k • written 6.8 years ago by
Bohdan Khomtchouk
▴ 10
0
votes
3
replies
2.2k
views
Getting Differentially Expressed Genes from GOSeq Categories
goseq
gene ontology
biomart
annotate
category
updated 6.8 years ago by
b.nota
▴ 360 • written 6.9 years ago by
krc3004
▴ 10
3
votes
3
replies
3.6k
views
how to find ensembl genes belonging to a GO category?
biomart
gene ontology
GO
updated 5.6 years ago by
James W. MacDonald
65k • written 5.6 years ago by
Guido Hooiveld
★ 3.9k
1
vote
1
reply
1.1k
views
Error in GO enrichment with topGO
topGO
microarray
Gene ontology
updated 3.8 years ago by
James W. MacDonald
65k • written 3.8 years ago by
June.
▴ 10
3
votes
1
reply
1.1k
views
Gene Ontology link in aaf.handler() not working
annaffy
aafTableAnn
Gene Ontology
aaf.handler()
updated 5.0 years ago by
James W. MacDonald
65k • written 5.0 years ago by
bjwiley23
• 0
7
votes
3
replies
1.5k
views
Presence of GO annotations for human mitochondrial genes in org.Hs.eg.db?
org.hs.eg.db
gene ontology
mitochondria
updated 6.5 years ago by
James W. MacDonald
65k • written 6.5 years ago by
Owen Dando
▴ 40
1
vote
2
replies
1.2k
views
Obtain the first gene expression heatmaps from GOexpress package gene ontology enrichment analysis results
GOexpress
heatmap
gene ontology
plot
updated 4.6 years ago by
kevin.rue
▴ 350 • written 4.6 years ago by
Antonio Campos
• 0
0
votes
4
replies
1.1k
views
GOexpress - Error when plotting expression data
RNA-seq
transcriptomics
gene ontology
gene expression
GOexpress
updated 4.3 years ago by
kevin.rue
▴ 350 • written 4.3 years ago by
atorson
• 0
1
vote
2
replies
2.1k
views
RESOLVED- GSEAbase: problem with GOCollection (getAnnMap: package GO not availale)
gene ontology
gseabase
6.7 years ago
maeva.mollion
• 0
1
vote
2
replies
2.2k
views
Using GAGE to Analyze Pathway Enrichment Directly from Fold Change Data
GAGE
Gene Ontology
rna-seq
pathview
updated 6.6 years ago by
Luo Weijun
★ 1.6k • written 6.6 years ago by
JMallory
• 0
2
votes
1
reply
2.2k
views
How to get genes corresponding to a GO term from topGOData object?
topGO
microarray
R
gene ontology
updated 6.8 years ago by
mt1022
▴ 10 • written 8.1 years ago by
rishi.dasroy
▴ 20
1
vote
2
replies
1.8k
views
clusterporfiler enrichGO plot
clusterprofiler
gene ontology
plot
updated 3.6 years ago by
793345316
▴ 40 • written 3.6 years ago by
kagan.ferenc
• 0
0
votes
3
replies
3.6k
views
Gene ontology and pathway analysis in R - replicate ToppGene features; best strategy for getting annotations?
topgo
biomart
gene ontology
goexpress
pathway analysis
updated 8.0 years ago by
kevin.rue
▴ 350 • written 8.0 years ago by
Darya Vanichkina
▴ 120
1
vote
2
replies
1.4k
views
Gene Ontology Overrepresentation Analysis with a custom level of Abstraction of GO Terminology
gene ontology
GO
overrepresentation analysis
missmethyl
gostats
updated 7.7 years ago by
James W. MacDonald
65k • written 7.7 years ago by
graggsd
• 0
3
votes
2
replies
4.6k
views
No genes found in universe : goana error
edger
goana
gene ontology
6.6 years ago • updated 6.5 years ago
fawazfebin
▴ 60
1
vote
2
replies
2.9k
views
GOseq: Determining ENSG IDs Associated with Genes Summarized by `numDEInCat` for Each Ontology Term
goseq
gene ontology
updated 6.5 years ago by
James W. MacDonald
65k • written 6.5 years ago by
JMallory
• 0
7
votes
9
replies
3.0k
views
GSEABase - View/extract GO terms mapped to each GOslim
go
GSEABase
GOslim
gene ontology
4.2 years ago • updated 13 months ago
samwhite
▴ 20
2
votes
2
replies
3.5k
views
enrichGO from DOSE, clusterprofiler is returning empty result.
DOSE
clusterprofiler
annotation
gene ontology
gene set enrichment
updated 6.5 years ago by
Guangchuang Yu
★ 1.2k • written 6.5 years ago by
kirannbishwa01
▴ 10
0
votes
1
reply
1.7k
views
PANTHER.db- external pointer error
goseq
pantherdb
pathway analysis
gene ontology
updated 6.4 years ago by
James W. MacDonald
65k • written 6.4 years ago by
krc3004
▴ 10
0
votes
1
reply
945
views
Gene ontology enrichment
GO
Gene ontology
updated 6.3 years ago by
James W. MacDonald
65k • written 6.3 years ago by
KB
▴ 50
1
vote
12
replies
3.3k
views
Using GOsemsim to calculate semantic similarity between orthologus genes of two species
GOsemsim
Gene ontology
semantic similarity
across species
updated 7.4 years ago by
Guangchuang Yu
★ 1.2k • written 7.4 years ago by
saadmurtazakhan
▴ 10
0
votes
4
replies
1.9k
views
GOterm semantic similarity with non-reference organism
gosemsim
go
gene ontology
9.0 years ago
cpcantalapiedra
• 0
0
votes
1
reply
1.7k
views
[goana] function within edgeR not working for Arabidopsis
gene ontology
updated 6.2 years ago by
Gordon Smyth
50k • written 6.2 years ago by
jfreixas
• 0
3
votes
4
replies
1.5k
views
GSEABase - Map gene/transcript IDs to GOslims?
gseabase
go
gene ontology
goslim
4.2 years ago • updated 14 months ago
samwhite
▴ 20
1
vote
1
reply
1.2k
views
Correct for Gene Length bias in GO analysis of retrotransposition
GO
gene ontology
bias
retrotransposition
updated 7.2 years ago by
Gordon Smyth
50k • written 7.2 years ago by
mujupas
• 0
5
votes
7
replies
1.8k
views
Problem with installing packages made by makeOrgPackageFromNCBI
AnnotationForge
makeOrgPackageFromNCBI
gene ontology
edgeR
pathwayanalysis
updated 12 months ago by
L
▴ 50 • written 4.2 years ago by
babak.loghmani
▴ 20
1
vote
3
replies
1.0k
views
GoStats ontology count number does not match genes associated with GO term
gostat
go terms
gene ontology
7.6 years ago
adamgetzler
• 0
0
votes
0
replies
797
views
RDAVIDWebService Package Official Gene Symbol IDs in GO Term Tables
RDAVIDWebService
Gene Ontology
GOTerm
biomaRt
3.8 years ago
ra711
• 0
0
votes
1
reply
1.2k
views
News:
Interested in developing a new gene set enrichment tool ?
gene ontology
go analysis
gene set enrichment
gene set analysis
News
updated 6.7 years ago by
Martin Morgan
25k • written 6.7 years ago by
triZZla
• 0
0
votes
1
reply
1.2k
views
topGO - Extra terms appearing in main analysis and the enrichment test
gene ontology
topGO
GO
6.5 years ago
beachboarder900
▴ 40
0
votes
0
replies
1.0k
views
Error using gosummaries (GOsummaries) on small log2 fold change values
gosummaries
gene ontology
enrichment analysis
6.3 years ago
jan.soderman
• 0
1
vote
0
replies
2.1k
views
topGO (Version: 2.30.1) - weight01 algorithm
topgo
gene ontology
pathway analysis
rnaseq
DEG
6.1 years ago
digrigor
▴ 10
0
votes
1
reply
1.3k
views
Remove highly similar terms from a GO gene set enrichment analysis
clusterProfiler
gseGO
gene ontology
go semantic similarity
gene set enrichment analysis
5.9 years ago
jan.soderman
• 0
0
votes
0
replies
742
views
How to output list of genes which belong to specific GO(Gene Ontology)?
rnaseq
gene ontology
5.9 years ago
karagozeylul
• 0
0
votes
0
replies
744
views
How to output list of genes which belong to specific GO(Gene Ontology)?
gene ontology
rnaseq
5.8 years ago
karagozeylul
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Awards
• All
Popular Question
to
WouterDeCoster
▴ 130
Scholar
to
Michael Love
42k
Popular Question
to
Malcolm Cook
★ 1.6k
Teacher
to
Gordon Smyth
50k
Popular Question
to
priyanka.m
• 0
Locations
• All
France,
just now
Sweden,
just now
France,
2 minutes ago
Germany,
4 minutes ago
Spain,
4 minutes ago
Traffic: 848 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6