Showing : microrna • reset
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microRNAs not available in TxDb.Hsapiens.UCSC.hg38.knownGene
microRNA TxDb.Hsapiens.UCSC.hg38.knownGene
22 months ago Lluís Revilla Sancho ▴ 760
1
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6
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1.3k
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low counts from microRNA seq
DESeq2 microRNA HTSeq
23 months ago abhay.kanodia • 0
1
vote
4
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1.1k
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RNA-seq analysis between a wildtype vs a double microRNA kockout mouse brain
microRNA gene RNASeqRData edgeR geneontology
2.1 years ago faiza • 0
1
vote
7
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2.2k
views
High padj in DESeq2
deseq2 RNA-seq microRNA
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by ▴ 10
0
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1
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2.0k
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Using DeSeq2 on microRNA data
deseq2 mirdeep2 microRNA differential expression analysis
updated 4.6 years ago by 42k • written 4.6 years ago by • 0
0
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1
reply
766
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find genes near a microRNA binding site
R microRNA genes binding Site
5.4 years ago pengu447 • 0
0
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2
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1.5k
views
R packages for differential expression analysis of raw data from arraystar microarrays
microarray lncrna microrna mrna raw data
updated 7.0 years ago by ★ 1.0k • written 7.0 years ago by • 0
0
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4
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1.6k
views
Agilent microrna microaaray
agilent microarrays microrna analysis
7.2 years ago arisarkar88 ▴ 40
0
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0
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924
views
gene set enrichment and pathway analysis of gene expression datas
microarray microrna
7.9 years ago n3da.karami • 0
0
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4
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1.4k
views
Error while normalizing [miRNA-1_0] Affymetrix miRNA Array cel files
microrna microarray cdfinfo
updated 8.2 years ago by 67k • written 8.2 years ago by ▴ 40
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0
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1.2k
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Combining TLDA cards for normalization
normalization microrna htqpcr
8.3 years ago jamie_jabalee • 0
0
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1
reply
3.0k
views
Error in file(file, "rt") : cannot open the connection - Using ExiMir Package
R eximir microrna
8.6 years ago 31sharmajittu1991 • 0
2
votes
2
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1.8k
views
normalized read count per group from edgeR
microrna edger
8.7 years ago manoharankumar01 • 0
2
votes
6
replies
1.9k
views
edgeR_robust: where are moderately expressed genes?
edger rnaseq microrna
updated 9.1 years ago by ★ 28k • written 9.1 years ago by • 0
2
votes
1
reply
3.3k
views
Setting a good lfcThreshold-value in DESeq2 to find stably expressed microRNAs
deseq2 microrna lfcThreshold stable expression ffpe
updated 9.1 years ago by 42k • written 9.1 years ago by ▴ 20
3
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4
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2.8k
views
How to find significantly stably expressed miRNA with DESeq2 DE results
deseq2 microrna differential expression stable expression
9.1 years ago mariakarand ▴ 20
0
votes
5
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2.5k
views
RUVseq for microRNAs
ruvseq ruv microrna
9.3 years ago sergio.espeso-gil • 0
0
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1
reply
1.7k
views
The number of features of Expression Set for Affymetrix miRNA 4.0 data preprocsessed by oligo package
affy oligo microarray preprocessing microrna
updated 9.4 years ago by 67k • written 9.4 years ago by • 0
0
votes
2
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1.4k
views
help with array based microRNA data analysis
limma microRNA limma microRNA
updated 10.8 years ago by ★ 1.3k • written 10.8 years ago by ▴ 190
0
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3
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3.5k
views
mirDeep2 edgeR analysis
Sequencing miRNA microRNA Sequencing miRNA microRNA
updated 11.3 years ago by ★ 7.9k • written 11.3 years ago by ▴ 10
0
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2
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2.0k
views
Chip Definition File (CDF) for Affymetrix microRNA Arrays 3.0
cdf microRNA cdf microRNA
updated 11.6 years ago by 67k • written 11.6 years ago by ▴ 10
0
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0
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1.5k
views
identifying drosophila miRNA targets
miRNA drosophila2 probe affy convert affycoretools microRNA miRNA drosophila2 probe affy
11.6 years ago Fiona ▴ 70
0
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4
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1.4k
views
identifying drosophila miRNA targets
miRNA affy microRNA miRNA affy microRNA
updated 11.7 years ago by 67k • written 11.7 years ago by ▴ 70
0
votes
0
replies
1.9k
views
AgiMicroRna for new Agilent Chip format
Microarray GO limma PROcess microRNA AgiMicroRna Microarray GO limma PROcess microRNA
11.7 years ago Gordon Smyth 51k
0
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4
replies
1.3k
views
miRNA analysis advice
miRNA Microarray microRNA miRNA Microarray microRNA
updated 11.7 years ago by 67k • written 11.7 years ago by ▴ 70
0
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1
reply
1.2k
views
taqman versions
microRNA microRNA
updated 12.1 years ago by ▴ 120 • written 12.1 years ago by ▴ 320
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4
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2.0k
views
get al microRNA target sites for a given gene
microRNA microRNA
updated 12.1 years ago by 67k • written 12.1 years ago by ▴ 840
0
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4
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2.0k
views
Should AgiMicroRna and GeneSpring quantile normalisation be the same ?
Normalization GeneSpring microRNA AgiMicroRna Normalization GeneSpring microRNA AgiMicroRna
updated 12.3 years ago by ★ 1.3k • written 12.3 years ago by ▴ 30
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1.0k
views
Help with choice of normalization
Microarray Normalization GO microRNA Microarray Normalization GO microRNA
12.3 years ago Ali Mohammadian ▴ 290
0
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6
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1.5k
views
any good R package to scan microRNA target?
microRNA microRNA
updated 12.7 years ago by ★ 13k • written 12.7 years ago by ★ 2.0k
0
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5
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6.1k
views
extracting sequence from a genome
miRNA microRNA miRNA microRNA
updated 12.7 years ago by ★ 4.2k • written 12.7 years ago by ▴ 930
0
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4
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1.5k
views
A problem about trimLRPatterns
microRNA microRNA
updated 12.7 years ago by ▴ 590 • written 12.7 years ago by ★ 2.0k
0
votes
0
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918
views
Trouble in using AgiMicroRna Package
Microarray microRNA Microarray microRNA
12.8 years ago Kannan Venugopal ▴ 10
0
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5
replies
1.7k
views
Limma question
limma microRNA limma microRNA
updated 12.9 years ago by ▴ 740 • written 12.9 years ago by ▴ 30
0
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0
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895
views
how to analyze
affy microRNA affy microRNA
13.0 years ago Adrian Johnson ▴ 330
0
votes
6
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2.7k
views
Error when using the nsFilter command in the genefilter package
miRNA Annotation microRNA BiocInstaller miRNA Annotation microRNA BiocInstaller
13.0 years ago Peter Davidsen ▴ 210
6
votes
11
replies
2.9k
views
edgeR on microRNA data
microRNA edgeR miRNA
13.2 years ago • updated 3.5 years ago Gordon Smyth 51k
0
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2
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1.7k
views
ChIPpeakAnno, getAnnotation question
Annotation microRNA ChIPpeakAnno Annotation microRNA ChIPpeakAnno
13.2 years ago Julie Zhu ★ 4.3k
0
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1
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1.3k
views
loading AB OpenArray qPCR data in HTqPCR
miRNA microRNA HTqPCR miRNA microRNA HTqPCR
updated 13.3 years ago by ★ 2.0k • written 13.3 years ago by ★ 4.1k
0
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0
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904
views
align microRNA with custom mRNA sequences
Alignment Cancer Biostrings microRNA Alignment Cancer Biostrings microRNA
13.3 years ago Hervé Pagès 16k
0
votes
0
replies
920
views
filterMicroRna function of AgiMicroRna for filtering by sample replicates
probe microRNA AgiMicroRna probe microRNA AgiMicroRna
13.3 years ago Viki S ▴ 20
0
votes
1
reply
1.1k
views
cdf environment fo microRNA dataset
Microarray cdf microRNA Microarray cdf microRNA
updated 13.3 years ago by 67k • written 13.3 years ago by ▴ 10
0
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0
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1.3k
views
align microRNA with custom mRNA sequences
microRNA microRNA
13.4 years ago Jason Shoemaker ▴ 80
0
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0
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1.1k
views
dCHip
microRNA microRNA
13.4 years ago Ayse Ulgen ▴ 30
0
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0
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1.5k
views
Go terms attributes not available on Biomart, ensembl
miRNA GO probe limma matchprobes biomaRt arrayQualityMetrics microRNA miRNA GO probe
13.5 years ago chawla ▴ 190
0
votes
8
replies
1.9k
views
microRNA hg build?
microRNA microRNA
updated 13.5 years ago by ★ 7.2k • written 13.5 years ago by ★ 1.1k
0
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0
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1.4k
views
GoStats and microRNA pipeline using Biomart
miRNA Normalization GO Organism GOstats biomaRt microRNA miRNA Normalization GO Organism
13.7 years ago David ▴ 860
0
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8
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2.3k
views
GoStats and microRNA pipeline using Biomart
GO GOstats biomaRt microRNA GO GOstats biomaRt microRNA
updated 13.7 years ago by ▴ 930 • written 13.7 years ago by ▴ 860
0
votes
1
reply
1.3k
views
An error while installing RWebService
limma biomaRt RWebServices IRanges microRNA SJava ChIPpeakAnno limma biomaRt RWebServices
updated 13.7 years ago by ★ 8.2k • written 13.7 years ago by ▴ 120
0
votes
1
reply
1.3k
views
AgiMicroRna problem
Annotation microRNA AgiMicroRna Annotation microRNA AgiMicroRna
updated 13.8 years ago by ▴ 200 • written 13.8 years ago by ▴ 120
50 results • Page 1 of 1
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Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 870
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Comment: ANOVA like approach of edgeR by SamGG ▴ 350
Simply remove the cell type from the model. design <- model.matrix(~targets$Status)
Answer: ANOVA like approach of edgeR by Yunshun Chen ▴ 870
You could try the followings: > design <- model.matrix(~ 0 + group) > contrast <- makeContrasts(PvsL = 0.5*(L.pregnant + B.pregnan…
Answer: Identical samples after deseq2 batch effect removal by maripane • 0
Thanks Michael, so is there a way to work around this issue? Can I somehow make sure I can remove this batch effects without overcorrecti…
Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data by rcreed • 0
The updated version worked well on my data. Thank you!
Votes
A: ANOVA-like test with edgeR
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
A: TopGO: How to retrieve the gene list related to a GO ID ?
A: Error in DESeqDataSet : some values in assay are not integers
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