Showing : microarray • reset
1
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8
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935
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Combining RNAseq and microarray data using edgeR/limma-voom
limma voom RNASeq edgeR Microarray
written 12 days ago by • 0
1
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5
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2.4k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 9.8 years ago by ▴ 10
1
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4
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4.0k
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How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 24 months ago by • 0
2
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2
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3.4k
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Biostatistician Position: UMass Medical School
Microarray Microarray
written 17.3 years ago by ▴ 190
0
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2
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955
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Probe off-target prediction: Identifying short sequence matches - potentially with mismatches & indels - in a transcriptome
Microarray Alignment Biostrings
written 18 months ago by ▴ 70
1
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2
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1.2k
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Filter by expression and keep probes in limma
R filter limma Normalization Microarray
19 months ago Abdul ▴ 20
2
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2
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881
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Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
19 months ago Abdul ▴ 20
0
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2
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944
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Full list of differential genes not obtained in topTable
Microarray GEOquery topTable limma
updated 19 months ago by 51k • written 19 months ago by • 0
1
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6
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2.3k
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can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 15 months ago by 51k • written 4.2 years ago by ▴ 20
2
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2
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916
views
Question about avereps function of limma
avereps probes average limma Microarray
updated 20 months ago by 51k • written 20 months ago by ▴ 10
0
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0
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833
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
21 months ago agamemnon • 0
0
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1
reply
828
views
Micro Array GEO data analysis
GEOquery MicroarrayData Normalization Microarray NanoStringDiff
updated 21 months ago by 67k • written 21 months ago by • 0
0
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2
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1.2k
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Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
22 months ago dqt • 0
0
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2
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894
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Celfiles not reading in
Microarray
written 22 months ago by • 0
3
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2
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7.2k
views
How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 23 months ago by ▴ 200 • written 6.9 years ago by • 0
6
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6
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1.7k
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Too many differentially expressed miRNA with limma
limma miRNA Microarray
24 months ago Sara ▴ 20
0
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17
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2.9k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 21 months ago by 51k • written 2.1 years ago by • 0
0
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1
reply
877
views
Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 2.4 years ago by 51k • written 2.4 years ago by • 0
0
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8
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1.8k
views
Finding differentially expressed genes in a prospective cohort study
limma MicroarrayData Microarray
2.4 years ago YC • 0
2
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13
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5.0k
views
Error in using r
microarray
updated 2.4 years ago by • 0 • written 8.1 years ago by • 0
0
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4
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1.2k
views
Thoughts on how to model gene expression data from two groups in a clinical trial
Microarray DifferentialExpression
2.4 years ago S • 0
1
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2
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1.0k
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Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
2.5 years ago Mikołaj Mierzejewski • 0
1
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2
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1.4k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
2.5 years ago Mikołaj Mierzejewski • 0
4
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10
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2.3k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
2.5 years ago Yang Shi ▴ 10
3
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4
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2.1k
views
Quantile Normalization after rma or not?
limma Microarray oligo
2.5 years ago Yang Shi ▴ 10
2
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2
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1.0k
views
Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0
hta20transcriptcluster.db Microarray oligo
2.5 years ago Yang Shi ▴ 10
2
votes
5
replies
2.5k
views
Get corresponding gene id for probe id from Affymetrix array
AnnotationDbi Microarray
2.5 years ago nhaus ▴ 70
0
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2
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957
views
Identifying multiple mappings with pd.clariom.d.human
clariomdhumantranscriptcluster.db MicroarrayData Microarray pd.clariom.d.human
2.5 years ago amir.rakhimov.b • 0
1
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2
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1.6k
views
Time course experiment using limma
limma Multi-levelExperiments Microarray
2.6 years ago Wendy ▴ 10
0
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12
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1.9k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
2.6 years ago Adam • 0
0
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0
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792
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Error in svd(X) when using edge lrt (or odp) function.
edge Microarray longitudinal
2.7 years ago emily • 0
1
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7
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8.7k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 2.7 years ago by • 0 • written 5.8 years ago by ▴ 10
2
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5
replies
2.1k
views
Adjust for base line gene expression in limma model
limma Microarray
updated 2.9 years ago by 51k • written 2.9 years ago by • 0
4
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6
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1.5k
views
RMA on different disease labels
rma background microarray normalization
updated 3.0 years ago by 67k • written 3.0 years ago by • 0
1
vote
1
reply
1.4k
views
Extracting a list of genes from the Gene Expression Omnibus with Geoquery.
Microarray GEOquery cancerdata MicroarrayData
updated 3.2 years ago by 67k • written 3.2 years ago by ▴ 50
5
votes
2
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2.9k
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Query regarding the use of eBayes + topTable and treat + topTreat
Microarray limma DifferentialExpression
updated 2.2 years ago by 51k • written 3.3 years ago by ▴ 10
0
votes
1
reply
1.3k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 3.3 years ago by ▴ 80 • written 3.4 years ago by ▴ 10
3
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5
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2.0k
views
Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 3.4 years ago by 51k • written 3.4 years ago by • 0
1
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1
reply
1.7k
views
How do I adjust for other factors in Limma differential expression analysis?
limma Microarray MicroarrayData arrays
updated 3.5 years ago by ★ 4.0k • written 3.5 years ago by • 0
1
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2
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1.7k
views
RUV4 for microarrays
RUV4 RUV Microarray
3.6 years ago • updated 3.5 years ago Antonio • 0
0
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2
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2.3k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.6 years ago waiyin0923 • 0
0
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1
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1.1k
views
Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.6 years ago by ★ 4.1k • written 3.6 years ago by • 0
1
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2
replies
1.5k
views
How to quantile normalize arraystar lncRNA microarray data?
limma Microarray
3.6 years ago a.deb • 0
3
votes
3
replies
1.6k
views
Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
3.7 years ago FedeXandeR • 0
0
votes
2
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1.9k
views
WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
3.7 years ago jpwl2 • 0
8
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4
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1.5k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3.8 years ago snijesh ▴ 200
1
vote
2
replies
1.6k
views
How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
3.8 years ago Dan ▴ 20
3
votes
9
replies
1.7k
views
limma analysis when only Cy5 was used
MicroarrayData limma Microarray
3.8 years ago Daniel.Schnell • 0
0
votes
1
reply
1.4k
views
Creating a model matrix for three age groups using two-colour arrays
Microarray BRAIN Microarray BRAIN
updated 3.8 years ago by 51k • written 16.0 years ago by ▴ 10
5
votes
8
replies
2.9k
views
how to annotate arrays
affy annotation microarray oligo
updated 3.9 years ago by 67k • written 9.3 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: [How to construct a model.matrix ] by kyj2226 • 0
Thanks to you, I learn a lot. Many thanks, Yujin.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
thank you for your advice, I posted separate post.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Answer: DESeq2 rerun returns different results by ATpoint ★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Votes
Answer: [How to construct a model.matrix ]
C: DESeq2 baseMean values for each sample
C: DESeq2 baseMean values for each sample
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
A: Some questions for remove batch effect by using mnnCorrect
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