Showing : Brain • reset
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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
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Job: Data science research assistant position at Johns Hopkins
RNAseq R Next-Gen Sequencing Imaging Brain Job
5.6 years ago hjaarop1 • 0
0
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1
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1.3k
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CAGEr - How to change plot axis range in CAGEr
BRAIN CAGEr BRAIN CAGEr
updated 6.6 years ago by ▴ 180 • written 10.3 years ago by ▴ 10
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2
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How to proceed with different degradation levels of RNA-seq samples?
degradation RNA-seq variability differential expression brain
updated 7.6 years ago by ★ 28k • written 7.6 years ago by ▴ 90
0
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9
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3.0k
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frma and alternative CDFs
GO cdf frma BRAIN GO cdf frma BRAIN
updated 10.3 years ago by ▴ 830 • written 10.3 years ago by ★ 13k
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Job reminder: Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
11.3 years ago _Bio - Informatics ▴ 20
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1.2k
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Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
11.4 years ago _Bio - Informatics ▴ 20
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0
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1.0k
views
Error in example from biomaRt vignette
biomaRt BRAIN biomaRt BRAIN
11.5 years ago Steffen Durinck ▴ 90
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Tukey\'s HSD after ANOVA
GO BRAIN GO BRAIN
11.6 years ago Guest User ★ 13k
0
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840
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Differentially regulated genes
BRAIN BRAIN
11.8 years ago Ali Mohammadian ▴ 290
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1
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1.4k
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log2 and rowMeans a problem?
BRAIN BRAIN
updated 12.0 years ago by ★ 4.3k • written 12.0 years ago by ▴ 20
0
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3
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1.3k
views
edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 12.4 years ago by 25k • written 12.4 years ago by 51k
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1.3k
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edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
12.4 years ago alessandro.guffanti@genomnia.com ▴ 330
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1
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1.4k
views
Three tenure track assistant professorship openings at Inst. Behavioral Genetics, University of Colorado Boulder
Genetics BRAIN Genetics BRAIN
12.7 years ago Matthew Keller ▴ 100
0
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995
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What is the difference of layout between genepix scanner & agilent scanner
limma BRAIN limma BRAIN
13.1 years ago 이선재 ▴ 30
0
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1
reply
1.3k
views
[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 13.1 years ago by ▴ 340 • written 13.1 years ago by ▴ 30
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1
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1.1k
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[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 13.2 years ago by ▴ 150 • written 13.2 years ago by ▴ 30
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7
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1.8k
views
EBS volumes with the Bioconductor AMI: how to change default behaviour
PROcess BRAIN PROcess BRAIN
13.3 years ago Dan Tenenbaum ★ 8.2k
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2
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1.4k
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EBS volumes with the Bioconductor AMI: how to change default behaviour
BRAIN BRAIN
13.3 years ago Quin Wills ▴ 80
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1
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3.2k
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2 way anova in Bioconductor
Microarray GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics BRAIN
updated 13.4 years ago by ▴ 210 • written 13.4 years ago by ▴ 110
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894
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How to: design matrices for multi organism parts experiment
Organism BRAIN Organism BRAIN
13.5 years ago Hans ▴ 10
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3
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1.4k
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How to filter a list of SNPs?
BRAIN BRAIN
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 450
0
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1
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1.8k
views
Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
updated 13.7 years ago by ▴ 80 • written 13.7 years ago by ▴ 620
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0
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1.1k
views
Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
13.9 years ago Pan Du ★ 1.2k
0
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3
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1.4k
views
Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)
Microarray BRAIN Microarray BRAIN
updated 14.1 years ago by ▴ 10 • written 14.1 years ago by ▴ 40
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0
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931
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How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.8 years ago Gordon Smyth 51k
0
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0
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865
views
How to avoid losing a sample as reference running an individual differential expression analysis (LIMMA)
Microarray limma BRAIN Microarray limma BRAIN
15.8 years ago Dmitriy Verkhoturov ▴ 10
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3
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1.3k
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problems with paired design in limma
Microarray BRAIN Microarray BRAIN
16.0 years ago Michael Walter ▴ 160
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902
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Creating a model matrix for three age groups using two-colour arrays
Microarray limma BRAIN Microarray limma BRAIN
16.0 years ago Gordon Smyth 51k
0
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4
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1.9k
views
allen brain atlas
Genetics Annotation BRAIN Genetics Annotation BRAIN
updated 16.3 years ago by 25k • written 16.3 years ago by ▴ 60
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865
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MAQC samples on Affymarix Exon array
BRAIN BRAIN
16.3 years ago Weiyin Zhou ▴ 20
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5
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1.5k
views
P-values for tissue specific genes
BRAIN BRAIN
16.4 years ago Pascal Gellert ▴ 30
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1
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1.2k
views
new lumi and miRNA array data
Microarray Normalization lumi BRAIN Microarray Normalization lumi BRAIN
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 830
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2
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1.7k
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new topGO results using GO.db very different from old ones using GO
GO annotate topGO BRAIN GO annotate topGO BRAIN
updated 16.6 years ago by ▴ 400 • written 16.6 years ago by ▴ 730
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930
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The above Feelgood Formula enshrines the common philosophy that the better you treat people, the better they will work.
Pathways PROcess BRAIN Pathways PROcess BRAIN
17.4 years ago Neddy ▴ 10
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Undergraduate Student Project Summer 2007, at EBI: the synapse and the brain
Pathways BRAIN Pathways BRAIN
17.8 years ago Wolfgang Huber ★ 13k
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0
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921
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read.maimages broken (limma 2.9.10)?
limma BRAIN limma BRAIN
17.8 years ago Gordon Smyth 51k
0
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0
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861
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read.maimages broken (limma 2.9.10)?
BRAIN BRAIN
17.8 years ago Koen Bossers ▴ 10
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1.3k
views
microarray analysis of a dose response * strain experiment
Microarray affy limma maSigPro DOSE BRAIN Microarray affy limma maSigPro DOSE BRAIN
18.1 years ago Naomi Altman ★ 6.0k
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4
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1.7k
views
microarray analysis of a dose response * strain experiment
affy DOSE BRAIN affy DOSE BRAIN
updated 18.1 years ago by 21k • written 18.1 years ago by ▴ 890
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1.0k
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4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
qPCR affy affydata vsn limma gcrma matchprobes affyPLM affyio BRAIN qPCR affy affydata
18.2 years ago k. brand ▴ 420
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1
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1.2k
views
GCRMA
Microarray Preprocessing gcrma BRAIN Microarray Preprocessing gcrma BRAIN
updated 18.8 years ago by ★ 2.0k • written 18.8 years ago by ▴ 20
0
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3
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1.6k
views
LIMMA lmscFit: difference between linear models
BRAIN BRAIN
19.2 years ago Koen Bossers ▴ 20
0
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3
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1.2k
views
limma design matrix
affy BRAIN affy BRAIN
updated 19.9 years ago by ▴ 720 • written 19.9 years ago by ▴ 250
0
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1
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1.4k
views
Cluster analysis distance measuer
Microarray Annotation Normalization Clustering Cancer affy limma AnnBuilder BRAIN Cancer
updated 20.0 years ago by ▴ 110 • written 20.0 years ago by ▴ 250
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0
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996
views
help with limma contrast matrix
BRAIN BRAIN
20.0 years ago Kimpel, Mark W ▴ 890
0
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3
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1.6k
views
human tissue specific genes
BRAIN BRAIN
updated 20.3 years ago by 21k • written 20.3 years ago by ▴ 80
0
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0
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1.6k
views
New Alzheimer's disease microarray data set available
Microarray BRAIN Microarray BRAIN
20.4 years ago Eric Blalock ▴ 250
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0
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834
views
Overriding maPrintTip method
BRAIN BRAIN
20.8 years ago Kellie J. Archer, Ph.D. ▴ 120
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0
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942
views
Q-value package now available
BRAIN BRAIN
20.9 years ago Warnes, Gregory R ▴ 460
50 results • Page 1 of 1
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Comment: WGCNA with TPM tables by ATpoint ★ 4.5k
WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0
You are an absolute lifesaver, thank you so much for the clarification!
Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k
The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…
Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 880
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 …
Votes
Comment: does anyone how to create rarefaction curves from a phyloseq object?
Answer: ANOVA like approach of edgeR
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
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