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mirna
•
reset
6
votes
6
replies
500
views
Too many differentially expressed miRNA with limma
limma
miRNA
Microarray
9 weeks ago
Sara
▴ 10
1
vote
3
replies
621
views
miRNA differential expression analysis - treat as transcript level?
tximport
DESeq2
edgeR
swish
miRNA
updated 7 months ago by
Michael Love
39k • written 7 months ago by
BG
• 0
0
votes
1
reply
240
views
miRNA analysis with DESeq2
mirna
DESeq2
updated 8 months ago by
Michael Love
39k • written 8 months ago by
Faith.omonijo
• 0
2
votes
2
replies
355
views
edgeR: How to display/plot individual miRNAs found to be differentialy expressed?
miRNAData
miRNA
DifferentialExpression
edgeR
8 months ago
Sarah
• 0
0
votes
3
replies
416
views
DESEQ PCA
DESeq2
miRNA
updated 17 months ago by
swbarnes2
★ 1.2k • written 17 months ago by
PJC
• 0
0
votes
1
reply
482
views
How to calculate high and low tumor mutational burden
SomaticMutation
miRNA
updated 20 months ago by
ATpoint
★ 2.0k • written 20 months ago by
lily
▴ 20
0
votes
1
reply
1.0k
views
edgeR on microRNA data
miRNA
edgeR
miRNA
edgeR
updated 20 months ago by
Gordon Smyth
47k • written 11.3 years ago by
Helena Persson
▴ 50
0
votes
1
reply
460
views
mircomb analysis from deg's list
mircomb
mrna
mirna
degs
interaction
2.6 years ago
andreia
▴ 10
6
votes
4
replies
1.8k
views
Affymetrix miRNA4.1 / oligo package / pd.mirna.4.1
microarray
mirna
oligo package
pdinfobuilder
pd.mirna
updated 3.2 years ago by
soumyab.g
▴ 10 • written 5.6 years ago by
rolan.zauner
▴ 20
0
votes
2
replies
694
views
Very high threshold for independent filtering
deseq2
mirna
independent filtering
updated 3.9 years ago by
Michael Love
39k • written 3.9 years ago by
thomas.deimel
• 0
0
votes
5
replies
874
views
Hill shape p-value histogram after differential miRNA expression analysis with DESeq2
deseq2
mirna
fdrtool
updated 3.9 years ago by
Robert Castelo
★ 3.0k • written 3.9 years ago by
L_K
• 0
1
vote
8
replies
1.5k
views
Trying to map nucleotide position from a transcript to genomic location
genomicfeatures
mapfromtranscripts
mirna
updated 4.4 years ago by
Valerie Obenchain
★ 6.7k • written 4.4 years ago by
Victoria Perreau
▴ 20
1
vote
2
replies
710
views
Whether "read_counts_miRNA" or "reads_per_million_miRNA" to use for DE expression analysis using DeSeq2
tcgadownload
deseq2
mirna
normalization
updated 4.6 years ago by
Lorena Pantano
▴ 120 • written 4.6 years ago by
Björn
• 0
0
votes
0
replies
821
views
miR2Pathway Finite Observations
pathway analysis
mirna
parallel
4.9 years ago
genomic8328
▴ 10
2
votes
0
replies
707
views
Job:
PhD Studentship - Investigating Regulation of Transcription and Translation in Prostate Cancer
mirna
riboseq
smallrna
differential gene expression
Job
4.9 years ago
Andy Lynch
▴ 120
0
votes
1
reply
832
views
Best way to analyze multiple treatments using DESeq2?
deseq2
rna-seq
mirna
updated 4.9 years ago by
Michael Love
39k • written 4.9 years ago by
michael.frech
• 0
0
votes
0
replies
765
views
Custom graphNEL object for pathview
pathview
mirintegrator
miRNA
5.3 years ago
drowsygoat
▴ 20
4
votes
3
replies
2.8k
views
EdgeR on miRNA data
edger
miRNA
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 years ago by
melmogy
• 0
0
votes
4
replies
3.6k
views
miRNA-seq data analysis
miRNA
mirna-seq
updated 5.9 years ago by
Jon Bråte
▴ 240 • written 5.9 years ago by
just
• 0
0
votes
0
replies
1.2k
views
miRNA target prediction tool(package) using R
mirna
prediction
target
5.9 years ago
Adam
• 0
1
vote
1
reply
748
views
miRNA normalization for large amount of samples using LVSmiRNA
mirna
normalization
6.3 years ago • updated 6.1 years ago
carleshf
▴ 10
2
votes
5
replies
1.1k
views
miRNA Probe IDs
mirna
microarray
mirbase.db
updated 6.3 years ago by
Dario Strbenac
★ 1.5k • written 6.3 years ago by
snufkin002
• 0
1
vote
2
replies
1.3k
views
Rsubread align for miRNAseq?
rsubread
miRNA
updated 6.3 years ago by
Wei Shi
★ 3.5k • written 6.3 years ago by
Ina Hoeschele
▴ 620
0
votes
2
replies
695
views
Differential expression of one group agains all samples
deseq2
mirna
differential gene expression
updated 6.3 years ago by
Gavin Kelly
▴ 660 • written 6.3 years ago by
ofonov
▴ 10
0
votes
2
replies
1.5k
views
TPM for miRNA tags
mirna
6.3 years ago
manoharankumar01
• 0
0
votes
0
replies
964
views
Normalizing miRNA-1_0 and miRNA-1_0_2Xgain type arrays simultaneously
mirna
microarray
normalization
6.4 years ago
arisarkar88
▴ 10
3
votes
6
replies
3.4k
views
Affymetrix miRNA 4.0 Normalization and Analysis
R
Limma
microarray
miRNA
updated 20 months ago by
S
▴ 10 • written 7.0 years ago by
Radek
▴ 90
4
votes
6
replies
2.2k
views
limma: within-array duplicates correlation
limma
mirna
microarray
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
roser.navarro
• 0
0
votes
0
replies
1.0k
views
get precursor mirna from mature mirna
bioconductor
mirna
mir
mirbase.db
7.1 years ago
C T
▴ 140
3
votes
4
replies
1.3k
views
Network generation from adjacency matrix of zeroes and ones
R
adjacency matrix
mirna
7.1 years ago
alptaciroglu
▴ 50
0
votes
0
replies
1.2k
views
miRNA 3D-Gene chips Toray
Toray 3D-Gene
miRNA
limma
7.3 years ago
santi.cabellos
▴ 10
0
votes
0
replies
776
views
targetScan R errors
targetscan
R
error handling
miRNA
7.3 years ago
alptaciroglu
▴ 50
1
vote
5
replies
1.0k
views
normalization of a miRNA microarray
normalization
vsn
eximir
microarray
miRNA
updated 7.3 years ago by
Wolfgang Huber
13k • written 7.3 years ago by
alptaciroglu
▴ 50
1
vote
1
reply
903
views
How can get the GO and KEGG miRNA microarray Agilent?
go
kegg
limma
microarray
mirna
7.4 years ago
santi.cabellos
▴ 10
2
votes
5
replies
1.5k
views
Problems with "read.agiMicroRna"
read.agiMicroRna
agilent
limma
microarray
mirna
updated 7.4 years ago by
Jim Java
▴ 30 • written 7.4 years ago by
santi.cabellos
▴ 10
4
votes
2
replies
1.7k
views
Detect global differences in miRNA expression between tumor and normal using spike-ins
edger
limma
mirna
sequencing
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
R
▴ 40
2
votes
5
replies
2.4k
views
miRNA expression analysis : annotation
miRNA
annotation
affymetrixchip
7.8 years ago
aswathym
▴ 10
0
votes
0
replies
724
views
Invitation Research Collaborations
cancer
microarray
mirna
sequencing
7.8 years ago
alexandru.floares
• 0
0
votes
0
replies
1.4k
views
News:
RNAseq data analysis courses: Torino (Italy) : Beginner course March 17-19 2015 & Advance Course April 14-16 2015
rnaseq
mirna
onechannelgui
chimera
News
8.1 years ago
raffaele calogero
▴ 500
6
votes
2
replies
1.4k
views
Should I skip the eBayes step when using Limma for Affymetrix miRNA v1 chip?
miRNA
cdf
probe
limma
miRNA
cdf
probe
limma
updated 8.3 years ago by
Gordon Smyth
47k • written 8.4 years ago by
Guest User
★ 12k
3
votes
1
reply
1.0k
views
Bioinformatics researching Schizophrenia
miRNA
updated 8.4 years ago by
Valerie Obenchain
★ 6.7k • written 8.4 years ago by
Guest User
★ 12k
0
votes
5
replies
1.5k
views
Using custom CDF with 'make.cdf.env'
miRNA
cdf
probe
miRNA
cdf
probe
updated 8.4 years ago by
Scott Robinson
▴ 130 • written 8.4 years ago by
Guest User
★ 12k
0
votes
0
replies
3.5k
views
cpm cutoff (edgeR) [was: total count filter cutoff (edgeR)]
Sequencing
miRNA
edgeR
Sequencing
miRNA
edgeR
8.6 years ago
Gordon Smyth
47k
0
votes
0
replies
840
views
total count filter cutoff (edgeR)
miRNA
edgeR
miRNA
edgeR
8.6 years ago
Daniel
▴ 10
0
votes
0
replies
909
views
QuasR for miRNA
miRNA
QuasR
miRNA
QuasR
8.7 years ago
Michael Stadler
▴ 350
0
votes
4
replies
1.1k
views
combat error message
miRNA
Normalization
affy
miRNA
Normalization
affy
updated 8.7 years ago by
Guest User
★ 12k • written 8.7 years ago by
W. Evan Johnson
▴ 840
0
votes
0
replies
751
views
ComBat error message, thanks
miRNA
Normalization
affy
miRNA
Normalization
affy
8.7 years ago
Guan
▴ 20
0
votes
2
replies
1.1k
views
About ChIPpeakAnno
miRNA
ChIPpeakAnno
miRNA
ChIPpeakAnno
updated 8.8 years ago by
Julie Zhu
★ 4.3k • written 8.8 years ago by
Lucia Peixoto
▴ 330
0
votes
0
replies
904
views
miRNA to gene mapping (miRNApath)
miRNA
miRNApath
miRNA
miRNApath
8.8 years ago
Kishor Tappita
▴ 340
0
votes
0
replies
3.3k
views
Bioconductor 2.14 is released
BiocViews
aCGH
SNP
Sequencing
RNASeq
ChIPSeq
miRNA
Microarray
qPCR
Metabolomics
Coverage
8.8 years ago
Dan Tenenbaum
★ 8.2k
50 results • Page
1 of 1
Recent ...
Replies
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Bernardo
• 0
Just did that, thank you for the suggestion.
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…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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
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★ 2.0k
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