Showing : ensembl • reset
16
votes
7
replies
8.8k
views
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
deseq2 ensembl
updated 5.0 years ago by 62k • written 5.0 years ago by ▴ 150
15
votes
13
replies
1.4k
views
celldex ensembl gene annotation issue
SingleR celldex HumanPrimaryCellAtlasData ensembl
updated 14 months ago by ▴ 10 • written 14 months ago by ▴ 20
13
votes
8
replies
14k
views
how to use biomaRt with ensembl build 37
biomaRt ensembl GRCh37
updated 8.3 years ago by ▴ 790 • written 8.3 years ago by ▴ 90
10
votes
8
replies
1.6k
views
Best alternative annotation package to BiomaRt
R biomaRt Ensembl rnaseq
3.6 years ago m93 ▴ 10
9
votes
1
reply
1.8k
views
News: Ensembl release 80 is out!
biomart Ensembl zebrafish Rat 1000 genomes phase 3 News
updated 7.7 years ago by ▴ 380 • written 7.7 years ago by ▴ 790
8
votes
8
replies
2.0k
views
biomaRt: drerio_gene_ensembl dataset missing
biomart ensembl ripseeker
updated 5.1 years ago by ★ 5.8k • written 5.1 years ago by ▴ 490
8
votes
9
replies
2.1k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 12 months ago by 16k • written 12 months ago by ▴ 40
6
votes
5
replies
3.5k
views
biomaRt Ensembl gene ID to multiple HGNC symbol
ensembl symbol hgnc biomart
updated 3.7 years ago by 62k • written 3.7 years ago by ▴ 80
6
votes
11
replies
2.0k
views
ensembldb from M.musculus NCBI37 v67 gtf
ensembldb NCBI37 v67 ensembl
5.0 years ago floriandeckert ▴ 30
6
votes
1
reply
5.2k
views
Finding orthologous human/mouse ENSEMBL IDs
human mouse ensembl annotationdbi homologue
5.6 years ago Keith Hughitt ▴ 180
6
votes
5
replies
7.4k
views
biomaRt: no access to Ensembl_75 (GRCh37.p13)
biomarRt ensembl
updated 8.2 years ago by • 0 • written 8.3 years ago by • 0
5
votes
19
replies
2.2k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 3 months ago by ★ 2.0k • written 4.2 years ago by ★ 3.5k
5
votes
3
replies
286
views
Problem obtaining NCBI gene IDs from Ensembl version 107
biomaRt ensembldb ensembl
3 months ago • updated 15 days ago jamie.gearing ▴ 60
5
votes
4
replies
2.4k
views
biomaRt server error, and mirrors do not help
ensembl biomaRt R
updated 10 weeks ago by • 0 • written 8 months ago by ▴ 30
5
votes
2
replies
2.0k
views
News: Ensembl release 81 is out!
human mouse GRCh38 biomart Ensembl News
updated 7.5 years ago by ▴ 380 • written 7.5 years ago by ▴ 790
5
votes
5
replies
1.5k
views
News: Ensembl 88 is out!
ensembl ensembl mart biomart e!88 News
5.8 years ago Thomas Maurel ▴ 790
4
votes
5
replies
927
views
Getting CDSCHROM values from ENSEMBL/SYMBOL keys using mapIds from TxDb.Hsapiens.UCSC.hg19.knownGene
ensembl cdschrom org.Hs.eg.db AnnotationDbi SingleCellExperiment
updated 3.8 years ago by 62k • written 3.8 years ago by ▴ 10
4
votes
9
replies
2.2k
views
News: Ensembl release 84 is out!
ensembl mart release84 biomart ensembl release News
updated 6.8 years ago by ▴ 20 • written 6.9 years ago by ▴ 790
4
votes
5
replies
1.3k
views
ChIPpeakAnno getAnnotation request fail
chippeakanno biomart ensembl
7.0 years ago igor ▴ 40
4
votes
17
replies
1.4k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 2.4 years ago by 3.7k • written 2.4 years ago by ▴ 10
4
votes
4
replies
844
views
biomaRt getSequence fails with genomic coordinates
biomart getSequence genomic coordinates ENSEMBL bug report
updated 3.0 years ago by ★ 5.8k • written 3.0 years ago by ▴ 10
4
votes
11
replies
921
views
Dealing with duplicated genes in camera gene set testing
limma camera gene set testing ensembl
updated 3.1 years ago by ★ 3.0k • written 3.1 years ago by ▴ 10
4
votes
8
replies
9.8k
views
Ensembl site unresponsive
ensembl biomart
updated 21 months ago by • 0 • written 2.3 years ago by ▴ 40
3
votes
6
replies
1.5k
views
biomaRt: Ensembl -> Entrez conversion error?
biomart entrez gene identifiers ensembl conversion
updated 4.2 years ago by ★ 5.8k • written 4.2 years ago by ▴ 10
3
votes
6
replies
1.8k
views
Problem with annotating ENSEMBLE IDs to GENE SYMBOL with AnnotationDBI mapIDs
annotation ensembl annotationdbi
4.6 years ago vd4mmind • 0
3
votes
14
replies
2.9k
views
biomaRt - Error in getBM: The query to the BioMart webservice returned an invalid result
biomart error ensembl bioconductor ensembl mart
5.7 years ago • updated 5.6 years ago daniel.carbajo • 0
3
votes
2
replies
697
views
GEO Download - "The query to BioMart webservice returned an invalid result..."
biomart geo software error ensembl
updated 3.6 years ago by ★ 5.8k • written 3.6 years ago by ▴ 10
2
votes
1
reply
903
views
Why does biomaRt query show inconsistent behavior with ensembl versions from March and May
biomart ensembl
7.6 years ago jmeisig ▴ 20
2
votes
0
replies
536
views
News: ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata annotationhub ensembl gtf 2bit News
updated 3.7 years ago by • 0 • written 3.7 years ago by 3.4k
2
votes
3
replies
9.5k
views
BiomaRt: protein coding transcript identification
ensembl protein coding biomart
updated 8.2 years ago by ▴ 790 • written 8.2 years ago by ▴ 120
2
votes
2
replies
915
views
goseq package: Is the package in sync with the most current Ensembl release?
goseq ensembl
updated 6.8 years ago by ★ 2.0k • written 6.8 years ago by ▴ 10
2
votes
3
replies
889
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
4.1 years ago rtwest • 0
2
votes
1
reply
943
views
GoSeq: use ENSEMBLTRANS as input
goseq ensembl
updated 7.7 years ago by ▴ 310 • written 7.7 years ago by ▴ 10
2
votes
1
reply
933
views
News: Ensembl 91 is out!
ensembl biomart release ensembl91 News
5.1 years ago amonida ▴ 20
2
votes
1
reply
1.2k
views
Ensemble and Entrez disconnected?
ensembl entrez biomart org.hs.eg.db
updated 4.1 years ago by 62k • written 4.1 years ago by • 0
2
votes
3
replies
622
views
Ensembl non responsive
ensembl R
9 months ago ksci ▴ 10
2
votes
2
replies
1.1k
views
BiomaRt returns 0 obs
biomart getbm ensembl
updated 4.4 years ago by 62k • written 4.4 years ago by • 0
2
votes
2
replies
1.6k
views
BioMart missing IDs
biomart ensembl entrez gene identifiers
updated 4.5 years ago by 62k • written 4.5 years ago by ▴ 20
2
votes
6
replies
1.4k
views
biomaRt Ensembl ID query returns NA in 'ensembl_gene_id', 'ensembl_transcript_id', etc.
biomart ensembl annotation
updated 5.5 years ago by ★ 5.8k • written 5.5 years ago by ▴ 30
2
votes
1
reply
384
views
Can Rsubread output use Ensembl gene IDs
Ensembl Rsubread
updated 10 months ago by 47k • written 10 months ago by ▴ 10
2
votes
2
replies
627
views
Ensembl sheep dataset in biomaRt
ensembl biomart oaries
updated 4.5 years ago by ★ 5.8k • written 4.5 years ago by • 0
2
votes
0
replies
309
views
News: News:Ensembl 106 has just been released!
ensembl biomaRt ensembldb
9 months ago Benjamin ▴ 20
2
votes
12
replies
2.2k
views
biomaRt does not return entrezgene id
bioconductor biomart entrez gene identifiers ensembl ensembl mart
updated 5.8 years ago by ▴ 790 • written 5.8 years ago by • 0
2
votes
11
replies
3.8k
views
biomaRT connexion problem make failed my unit tests
biomaRt Peer's Certificate Ensembl
updated 24 months ago by ★ 5.8k • written 2.3 years ago by • 0
2
votes
4
replies
1.2k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl macaque dbsnp customprodb
updated 7.6 years ago by ▴ 50 • written 7.6 years ago by • 0
2
votes
3
replies
921
views
Problem for finding "Locus Link ID" from Annotation file
wgcna package TCGA LocusLinkID genecode ensembl
updated 4.3 years ago by 62k • written 4.3 years ago by ▴ 10
1
vote
5
replies
2.1k
views
Ensembl bacteria not accessible from biomaRt
biomart ensembl
updated 6.7 years ago by 25k • written 6.7 years ago by ▴ 20
1
vote
2
replies
919
views
get_gene_transcript_exon_tables.pl extremely slow
ensembl ensembldb
updated 5.2 years ago by ★ 2.0k • written 5.2 years ago by ▴ 230
1
vote
0
replies
1.0k
views
News: ensembl 90 ensembldb EnsDb databases have been added to AnnotationHub
ensemblb ensembl AnnotationHub annotation News
5.4 years ago Johannes Rainer ★ 2.0k
1
vote
2
replies
2.9k
views
Converting annotation from UCSC to Ensembl
ensembl ucsc annotation
updated 7.2 years ago by 62k • written 7.2 years ago by ▴ 110
50 results • Page 1 of 1
Recent ...
Replies
Comment: Empty ChipQC Report by Okan • 0
Hi, I have the same issue. Have you found any solution or any reason why this is happening?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by Gordon Smyth 47k
Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by k.roelfs • 0
I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper by Gordon Smyth 47k
Sorry, I don't understand your experiment. You are reading the edgeR Section on on what to do without replicates, but your experiment appe…
Answer: MA plot by Nathalie • 0
Thank you very much for your help and comments. There is errors in my file. BaseMean is BaseMeanLog2. I don't know how insert a file.
Votes
Volcano Plot in R
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: MA plot
Answer: MA plot
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