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0
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2
answers
3.0k
views
2
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remove microarray batch effects using Limma
microarray written 6.9 years ago by Xie, Zhi NIH/NHLBI [E] • 20 • updated 13 days ago by Gordon Smyth ♦ 31k
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4
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7 follow
4
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Removing continuous covariate effects in limma analysis
microarray limma written 2.5 years ago by Pauly Lin • 50 • updated 13 days ago by Gordon Smyth ♦ 31k
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1
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321
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1
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two-color microarray - technical replicates
microarray limma target file written 28 days ago by Sanches • 0
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1
answer
405
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1
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How can I pre-process illumina raw file
microarray illumina written 6 weeks ago by Agaz Hussain Wani • 240 • updated 6 weeks ago by James W. MacDonald ♦ 44k
1
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1
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494
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1
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Adjusting batch effects in microarray expression data using empirical Bayes methods
microarray combat batch effects written 7 weeks ago by alerodriguez • 0 • updated 7 weeks ago by James W. MacDonald ♦ 44k
0
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0
answers
492
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0
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Data format after removing batch effects using linear model vs using comBat
microarray sva combat residuals linear models written 7 weeks ago by alerodriguez • 0
7
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2
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665
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2
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Identify up and down regulated genes in affymetrix data
microarray affy limma written 8 weeks ago by j_jamal96 • 0 • updated 8 weeks ago by tg369 • 30
0
votes
2
answers
554
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2
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Annotation to probes in mogene20sttranscriptcluster.db returns "NA"
microarray mogene20sttranscriptcluster.db written 8 weeks ago by haroon.maximas • 0
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1
answer
82
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1
answer
paCalls with Clariom Chips
microarray oligo clariom written 9 weeks ago by kmvaldez2 • 0 • updated 9 weeks ago by James W. MacDonald ♦ 44k
2
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1
answer
80
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1
answer
Plotting Gene Expression Data From Multiple Batches
microarray plot batch effect written 10 weeks ago by thyagoleal • 20 • updated 10 weeks ago by Jenny Drnevich • 1.9k
3
votes
1
answer
101
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1
answer
RankProd throws "is.infinite(data)" error for type "S4" for differential expression analysis
microarray affy limma rankprod bioconductor written 10 weeks ago by Tina Chapman • 20 • updated 10 weeks ago by James W. MacDonald ♦ 44k
1
vote
1
answer
367
views
1
answer
How to get genes corresponding to a GO term from topGOData object?
microarray topgo gene ontology R written 18 months ago by rishi.dasroy • 10 • updated 11 weeks ago by mt1022 • 0
0
votes
0
answers
93
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0
answers
Jackknifing/bootstrapping input and output question
microarray R bootstrap jackknifing written 12 weeks ago by bhgyu • 0
0
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1
answer
101
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1
answer
Annotation of Probe id to Gene
microarray arabidopsis thaliana annotate bioconductor written 12 weeks ago by rkp • 0 • updated 12 weeks ago by James W. MacDonald ♦ 44k
0
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1
answer
101
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1
answer
How to know which Microarray Technique was used to processes the files
microarray R affymetrix microarrays written 12 weeks ago by ghiwa.khalil • 0 • updated 12 weeks ago by Axel Klenk • 790
6
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4
answers
171
views
4
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Identification of DEGs through limma analysis
microarray limma p values lfc degs written 3 months ago by rkp • 0
0
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0
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82
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0
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Analyzing "Hitachi human oligo chip-drug responsive genes" platform data
microarray analysis written 3 months ago by arisarkar88 • 0
2
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2
answers
141
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2
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Affymetrix miRNA4.1 / oligo package / pd.mirna.4.1
mirna microarray pdinfobuilder oligo package pd.mirna written 3 months ago by rolan.zauner • 0
0
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1
answer
102
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1
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How to extract DEG using limma at threshold value p<0.05 and fold change >1.5 ?
microarray limma R bioconductor written 3 months ago by rkp • 0 • updated 3 months ago by Aaron Lun • 16k
0
votes
1
answer
123
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1
answer
can't install GEOquery
microarray written 3 months ago by hsiaowang • 0 • updated 3 months ago by Martin Morgan ♦♦ 20k
2
votes
1
answer
157
views
1
answer
Limma Model Design
microarray limma methylation written 3 months ago by Sarah Nesbitt • 0 • updated 3 months ago by Aaron Lun • 16k
1
vote
1
answer
177
views
1
answer
Nonspecific filtering of microarray data
microarray filtering pre-filtering affymetrix microarrays nonspecific filtering written 3 months ago by n.lu • 0 • updated 3 months ago by Wolfgang Huber ♦ 13k
2
votes
1
answer
121
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1
answer
around 2000 Affy probe set IDs cannot be mapped with Ensembl IDs by BiomaRt
microarray annotation hgu133a biomart written 3 months ago by haowang0806 • 0 • updated 3 months ago by James W. MacDonald ♦ 44k
2
votes
1
answer
164
views
1
answer
Limma toptable interpretation check
microarray limma fdr results p-value written 3 months ago by bhgyu • 0 • updated 3 months ago by Aaron Lun • 16k
0
votes
1
answer
116
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1
answer
How to normalize mouse gene 1.0st arry using frma?
microarray frma written 4 months ago by aritra • 0 • updated 4 months ago by Matthew McCall • 760
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