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microrna
•
reset
0
votes
2
replies
653
views
microRNAs not available in TxDb.Hsapiens.UCSC.hg38.knownGene
microRNA
TxDb.Hsapiens.UCSC.hg38.knownGene
15 months ago
Lluís Revilla Sancho
▴ 730
1
vote
6
replies
990
views
low counts from microRNA seq
DESeq2
microRNA
HTSeq
16 months ago
abhay.kanodia
• 0
1
vote
4
replies
792
views
RNA-seq analysis between a wildtype vs a double microRNA kockout mouse brain
microRNA
gene
RNASeqRData
edgeR
geneontology
18 months ago
faiza
• 0
1
vote
7
replies
1.5k
views
High padj in DESeq2
deseq2
RNA-seq
microRNA
updated 3.9 years ago by
Kevin Blighe
★ 3.9k • written 3.9 years ago by
saulwang0102
▴ 10
0
votes
1
reply
1.4k
views
Using DeSeq2 on microRNA data
deseq2
mirdeep2
microRNA
differential expression analysis
updated 4.0 years ago by
Michael Love
41k • written 4.0 years ago by
ljbond
• 0
0
votes
1
reply
601
views
find genes near a microRNA binding site
R
microRNA
genes
binding Site
4.8 years ago
pengu447
• 0
0
votes
2
replies
1.3k
views
R packages for differential expression analysis of raw data from arraystar microarrays
microarray
lncrna
microrna
mrna
raw data
updated 6.4 years ago by
Axel Klenk
★ 1.0k • written 6.4 years ago by
ntagaras
• 0
0
votes
4
replies
1.4k
views
Agilent microrna microaaray
agilent microarrays
microrna
analysis
6.7 years ago
arisarkar88
▴ 40
0
votes
0
replies
827
views
gene set enrichment and pathway analysis of gene expression datas
microarray
microrna
7.3 years ago
n3da.karami
• 0
0
votes
4
replies
1.2k
views
Error while normalizing [miRNA-1_0] Affymetrix miRNA Array cel files
microrna
microarray
cdfinfo
updated 7.6 years ago by
James W. MacDonald
65k • written 7.6 years ago by
arisarkar88
▴ 40
0
votes
0
replies
1.0k
views
Combining TLDA cards for normalization
normalization
microrna
htqpcr
7.7 years ago
jamie_jabalee
• 0
0
votes
1
reply
2.8k
views
Error in file(file, "rt") : cannot open the connection - Using ExiMir Package
R
eximir
microrna
8.0 years ago
31sharmajittu1991
• 0
2
votes
2
replies
1.6k
views
normalized read count per group from edgeR
microrna
edger
8.1 years ago
manoharankumar01
• 0
2
votes
6
replies
1.7k
views
edgeR_robust: where are moderately expressed genes?
edger
rnaseq
microrna
updated 8.5 years ago by
Aaron Lun
★ 28k • written 8.5 years ago by
marek_koter
• 0
2
votes
1
reply
3.1k
views
Setting a good lfcThreshold-value in DESeq2 to find stably expressed microRNAs
deseq2
microrna
lfcThreshold
stable expression
ffpe
updated 8.5 years ago by
Michael Love
41k • written 8.5 years ago by
mariakarand
▴ 20
3
votes
4
replies
2.5k
views
How to find significantly stably expressed miRNA with DESeq2 DE results
deseq2
microrna
differential expression
stable expression
8.5 years ago
mariakarand
▴ 20
0
votes
5
replies
2.2k
views
RUVseq for microRNAs
ruvseq
ruv
microrna
8.8 years ago • updated 8.7 years ago
sergio.espeso-gil
• 0
0
votes
1
reply
1.5k
views
The number of features of Expression Set for Affymetrix miRNA 4.0 data preprocsessed by oligo package
affy
oligo
microarray
preprocessing
microrna
updated 8.8 years ago by
James W. MacDonald
65k • written 8.8 years ago by
enthelesia
• 0
0
votes
2
replies
1.2k
views
help with array based microRNA data analysis
limma
microRNA
limma
microRNA
updated 10.3 years ago by
Paul Geeleher
★ 1.3k • written 10.3 years ago by
Abhishek Pratap
▴ 190
0
votes
3
replies
3.2k
views
mirDeep2 edgeR analysis
Sequencing
miRNA
microRNA
Sequencing
miRNA
microRNA
updated 10.7 years ago by
Ryan C. Thompson
★ 7.9k • written 10.7 years ago by
Flores Torres, Mariana
▴ 10
0
votes
2
replies
1.8k
views
Chip Definition File (CDF) for Affymetrix microRNA Arrays 3.0
cdf
microRNA
cdf
microRNA
updated 11.0 years ago by
James W. MacDonald
65k • written 11.0 years ago by
K. Weigelt
▴ 10
0
votes
0
replies
1.4k
views
identifying drosophila miRNA targets
miRNA
drosophila2
probe
affy
convert
affycoretools
microRNA
miRNA
drosophila2
probe
affy
11.1 years ago
Fiona
▴ 70
0
votes
4
replies
1.2k
views
identifying drosophila miRNA targets
miRNA
affy
microRNA
miRNA
affy
microRNA
updated 11.1 years ago by
James W. MacDonald
65k • written 11.1 years ago by
Fiona
▴ 70
0
votes
0
replies
1.7k
views
AgiMicroRna for new Agilent Chip format
Microarray
GO
limma
PROcess
microRNA
AgiMicroRna
Microarray
GO
limma
PROcess
microRNA
11.2 years ago
Gordon Smyth
50k
0
votes
4
replies
1.1k
views
miRNA analysis advice
miRNA
Microarray
microRNA
miRNA
Microarray
microRNA
updated 11.2 years ago by
James W. MacDonald
65k • written 11.2 years ago by
Fiona
▴ 70
0
votes
1
reply
1.1k
views
taqman versions
microRNA
microRNA
updated 11.5 years ago by
James F. Reid
▴ 120 • written 11.5 years ago by
marco fabbri
▴ 320
0
votes
4
replies
1.8k
views
get al microRNA target sites for a given gene
microRNA
microRNA
updated 11.5 years ago by
James W. MacDonald
65k • written 11.5 years ago by
Javier Pérez Florido
▴ 840
0
votes
4
replies
1.7k
views
Should AgiMicroRna and GeneSpring quantile normalisation be the same ?
Normalization
GeneSpring
microRNA
AgiMicroRna
Normalization
GeneSpring
microRNA
AgiMicroRna
updated 11.7 years ago by
Paul Geeleher
★ 1.3k • written 11.7 years ago by
Seyit Ali KAYIS
▴ 30
0
votes
0
replies
898
views
Help with choice of normalization
Microarray
Normalization
GO
microRNA
Microarray
Normalization
GO
microRNA
11.7 years ago
Ali Mohammadian
▴ 290
0
votes
6
replies
1.3k
views
any good R package to scan microRNA target?
microRNA
microRNA
updated 12.1 years ago by
Steve Lianoglou
★ 13k • written 12.1 years ago by
wang peter
★ 2.0k
0
votes
5
replies
5.9k
views
extracting sequence from a genome
miRNA
microRNA
miRNA
microRNA
updated 12.1 years ago by
Tim Triche
★ 4.2k • written 12.1 years ago by
Iain Gallagher
▴ 930
0
votes
4
replies
1.3k
views
A problem about trimLRPatterns
microRNA
microRNA
updated 12.2 years ago by
Harris A. Jaffee
▴ 590 • written 12.2 years ago by
wang peter
★ 2.0k
0
votes
0
replies
819
views
Trouble in using AgiMicroRna Package
Microarray
microRNA
Microarray
microRNA
12.2 years ago
Kannan Venugopal
▴ 10
0
votes
5
replies
1.5k
views
Limma question
limma
microRNA
limma
microRNA
updated 12.3 years ago by
boczniak767
▴ 720 • written 12.4 years ago by
Niccolò Bassani
▴ 30
0
votes
0
replies
797
views
how to analyze
affy
microRNA
affy
microRNA
12.4 years ago
Adrian Johnson
▴ 330
0
votes
6
replies
2.5k
views
Error when using the nsFilter command in the genefilter package
miRNA
Annotation
microRNA
BiocInstaller
miRNA
Annotation
microRNA
BiocInstaller
12.4 years ago
Peter Davidsen
▴ 210
6
votes
11
replies
2.6k
views
edgeR on microRNA data
microRNA
edgeR
miRNA
12.6 years ago • updated 2.9 years ago
Gordon Smyth
50k
0
votes
2
replies
1.5k
views
ChIPpeakAnno, getAnnotation question
Annotation
microRNA
ChIPpeakAnno
Annotation
microRNA
ChIPpeakAnno
12.7 years ago
Julie Zhu
★ 4.3k
0
votes
1
reply
1.2k
views
loading AB OpenArray qPCR data in HTqPCR
miRNA
microRNA
HTqPCR
miRNA
microRNA
HTqPCR
updated 12.7 years ago by
Heidi Dvinge
★ 2.0k • written 12.7 years ago by
Guido Hooiveld
★ 3.9k
0
votes
0
replies
790
views
align microRNA with custom mRNA sequences
Alignment
Cancer
Biostrings
microRNA
Alignment
Cancer
Biostrings
microRNA
12.7 years ago
Hervé Pagès
16k
0
votes
0
replies
810
views
filterMicroRna function of AgiMicroRna for filtering by sample replicates
probe
microRNA
AgiMicroRna
probe
microRNA
AgiMicroRna
12.7 years ago
Viki S
▴ 20
0
votes
1
reply
970
views
cdf environment fo microRNA dataset
Microarray
cdf
microRNA
Microarray
cdf
microRNA
updated 12.8 years ago by
James W. MacDonald
65k • written 12.8 years ago by
白燕南
▴ 10
0
votes
0
replies
1.2k
views
align microRNA with custom mRNA sequences
microRNA
microRNA
12.8 years ago
Jason Shoemaker
▴ 80
0
votes
0
replies
963
views
dCHip
microRNA
microRNA
12.8 years ago
Ayse Ulgen
▴ 30
0
votes
0
replies
1.4k
views
Go terms attributes not available on Biomart, ensembl
miRNA
GO
probe
limma
matchprobes
biomaRt
arrayQualityMetrics
microRNA
miRNA
GO
probe
12.9 years ago
chawla
▴ 190
0
votes
8
replies
1.6k
views
microRNA hg build?
microRNA
microRNA
updated 13.0 years ago by
Marc Carlson
★ 7.2k • written 13.0 years ago by
Tim Smith
★ 1.1k
0
votes
0
replies
1.3k
views
GoStats and microRNA pipeline using Biomart
miRNA
Normalization
GO
Organism
GOstats
biomaRt
microRNA
miRNA
Normalization
GO
Organism
13.1 years ago
David
▴ 860
0
votes
8
replies
2.0k
views
GoStats and microRNA pipeline using Biomart
GO
GOstats
biomaRt
microRNA
GO
GOstats
biomaRt
microRNA
updated 13.1 years ago by
Iain Gallagher
▴ 930 • written 13.1 years ago by
David
▴ 860
0
votes
1
reply
1.1k
views
An error while installing RWebService
limma
biomaRt
RWebServices
IRanges
microRNA
SJava
ChIPpeakAnno
limma
biomaRt
RWebServices
updated 13.1 years ago by
Dan Tenenbaum
★ 8.2k • written 13.1 years ago by
MLSC MANIPAL
▴ 120
0
votes
1
reply
1.2k
views
AgiMicroRna problem
Annotation
microRNA
AgiMicroRna
Annotation
microRNA
AgiMicroRna
updated 13.2 years ago by
Paulo Nuin
▴ 200 • written 13.2 years ago by
Pedro Lopez-Romero
▴ 120
50 results • Page
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Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
swbarnes2
★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error
by
James W. MacDonald
65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error
by
Fara
• 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function
by
James W. MacDonald
65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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