Showing : microarray • reset
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193
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Combining RNAseq and microarray data using edgeR/limma-voom
limma voom RNASeq edgeR Microarray
updated 6 hours ago by 67k • written 1 day ago by • 0
1
vote
5
replies
2.4k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 9.7 years ago by ▴ 10
1
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4
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3.9k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 23 months ago by • 0
2
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2
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3.4k
views
Biostatistician Position: UMass Medical School
Microarray Microarray
written 17.3 years ago by ▴ 190
0
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2
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935
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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
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
19 months ago Abdul ▴ 20
2
votes
2
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871
views
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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932
views
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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2.2k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 15 months ago by 51k • written 4.1 years ago by ▴ 20
2
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2
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900
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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826
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Aligning Clariom D against reference Genome and transcriptome pipeline
Clariom Align MicroarrayData Alignment Microarray
20 months ago agamemnon • 0
0
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1
reply
821
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
views
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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885
views
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
23 months ago Sara ▴ 20
0
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17
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2.8k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 21 months ago by 51k • written 2.0 years ago by • 0
0
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1
reply
861
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
votes
13
replies
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
views
Problem with results of Differential expression in Affymetrix microarray
limma MicroarrayData Microarray Affymetrix
2.4 years ago Mikołaj Mierzejewski • 0
1
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2
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1.3k
views
Affymetrix analysis of microarray by using Limma
limma MicroarrayData Microarray Affymetrix
2.4 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
2.4k
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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948
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 • updated 2.5 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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784
views
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
replies
8.7k
views
Oligo RMA normalization : ERROR; return code from pthread_create() is 22
microarray normalization oligo HTA
updated 2.6 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 3.1 years ago by 67k • written 3.2 years ago by ▴ 50
5
votes
2
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2.8k
views
Query regarding the use of eBayes + topTable and treat + topTreat
Microarray limma DifferentialExpression
updated 2.2 years ago by 51k • written 3.2 years ago by ▴ 10
0
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1
reply
1.3k
views
Re-normalize microarray dataset in R
microarray quantile expression R Normalization
updated 3.3 years ago by ▴ 80 • written 3.3 years ago by ▴ 10
3
votes
5
replies
2.0k
views
Use of arrayWeights with two treatment groups
Microarray arrays limma MicroarrayData
updated 3.3 years ago by 51k • written 3.4 years ago by • 0
1
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1
reply
1.6k
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
3.5 years ago Antonio • 0
0
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2
replies
2.3k
views
How to exclude outlier (Microarray ) from PCA in R
OutlierD pcaMethods MicroarrayData Microarray
3.5 years ago waiyin0923 • 0
0
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1
reply
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 • updated 3.5 years ago a.deb • 0
3
votes
3
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1.6k
views
Weird MAplot with DEGs lying along the diagonals
limma Microarray AgilentChip MA-plot Normalization
3.7 years ago • updated 3.6 years ago FedeXandeR • 0
0
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2
replies
1.9k
views
WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
3.7 years ago jpwl2 • 0
8
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4
replies
1.5k
views
Limma outputs different results for same sample?
topTable MicroarrayData ebayes limma Microarray
3.7 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
3.7 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 • updated 3.7 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
2.8k
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
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Comment: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Ai • 0
Hi Gordon, Thank you so much for answering my question and confirming that this is expected! I will go ahead note this down. Sincerely, …
Answer: Annotation for EPICv2 by icecreamlover • 0
Hello, I am also working on analyzing my data from EPICv2 using ChAMP. I used this resource as a guide: https://github.com/YuanTian1991/ChA…
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
And it doesn't matter if you're doing gene set analyses after, if the statistics are questionable to begin with.
Comment: Combining RNAseq and microarray data using edgeR/limma-voom by James W. MacDonald 67k
If you're saying that (as an example) you have treated and control in both assay types, and you want to combine and make comparisons betwee…
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k
I have contacted NCBI, and meanwhile got an an answer. See below. It turns out that the official, HGNC-approved symbols are present in the…
Votes
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
A: How does edgeR cpm function calculate log(CPM) values?
Answer: DecideTest vs topTAGs in edgeR
Comment: DESeq Input from Salmon + tximport/tximeta
Comment: DESeq Input from Salmon + tximport/tximeta
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