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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
updated 3 months ago by 53k • written 16.7 years ago by ▴ 10
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1
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1.6k
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Creating a model matrix for three age groups using two-colour arrays
Microarray BRAIN Microarray BRAIN
updated 4.7 years ago by 53k • written 16.9 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
6.5 years ago hjaarop1 • 0
0
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1
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1.4k
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CAGEr - How to change plot axis range in CAGEr
BRAIN CAGEr BRAIN CAGEr
updated 7.4 years ago by ▴ 180 • written 11.2 years ago by ▴ 10
1
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2
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2.4k
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How to proceed with different degradation levels of RNA-seq samples?
degradation RNA-seq variability differential expression brain
updated 8.5 years ago by ★ 29k • written 8.5 years ago by ▴ 90
0
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9
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3.5k
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frma and alternative CDFs
GO cdf frma BRAIN GO cdf frma BRAIN
updated 11.2 years ago by ▴ 830 • written 11.2 years ago by ★ 13k
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1.6k
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Job reminder: Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
12.2 years ago _Bio - Informatics ▴ 20
0
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1.4k
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Open position for a Core Bioinformatician in Lund, Sweden
Microarray BRAIN Microarray BRAIN
12.3 years ago _Bio - Informatics ▴ 20
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Error in example from biomaRt vignette
biomaRt BRAIN biomaRt BRAIN
12.4 years ago Steffen Durinck ▴ 90
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2.3k
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Tukey\'s HSD after ANOVA
GO BRAIN GO BRAIN
12.4 years ago Guest User ★ 13k
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943
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Differentially regulated genes
BRAIN BRAIN
12.6 years ago Ali Mohammadian ▴ 290
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1
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1.5k
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log2 and rowMeans a problem?
BRAIN BRAIN
updated 12.9 years ago by ★ 4.3k • written 12.9 years ago by ▴ 20
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3
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1.5k
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edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
updated 13.3 years ago by 25k • written 13.3 years ago by 53k
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1.4k
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edgeR and tagwise dispersion: overcorrection for multiple tests?
SAGE Regression edgeR BRAIN SAGE Regression edgeR BRAIN
13.3 years ago alessandro.guffanti@genomnia.com ▴ 330
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1
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1.5k
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Three tenure track assistant professorship openings at Inst. Behavioral Genetics, University of Colorado Boulder
Genetics BRAIN Genetics BRAIN
13.6 years ago Matthew Keller ▴ 100
0
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0
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1.1k
views
What is the difference of layout between genepix scanner & agilent scanner
limma BRAIN limma BRAIN
14.0 years ago 이선재 ▴ 30
0
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1
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1.5k
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[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 14.0 years ago by ▴ 340 • written 14.0 years ago by ▴ 30
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1
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1.2k
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[question] integration of microarray data from different sources in limma package
Microarray limma BRAIN Microarray limma BRAIN
updated 14.0 years ago by ▴ 150 • written 14.0 years ago by ▴ 30
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7
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2.1k
views
EBS volumes with the Bioconductor AMI: how to change default behaviour
PROcess BRAIN PROcess BRAIN
14.2 years ago Dan Tenenbaum ★ 8.2k
0
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2
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1.6k
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EBS volumes with the Bioconductor AMI: how to change default behaviour
BRAIN BRAIN
14.2 years ago Quin Wills ▴ 80
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1
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3.4k
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2 way anova in Bioconductor
Microarray GO genefilter limma GeneSpring ABarray preprocessCore arrayQualityMetrics BRAIN
updated 14.3 years ago by ▴ 210 • written 14.3 years ago by ▴ 110
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0
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How to: design matrices for multi organism parts experiment
Organism BRAIN Organism BRAIN
14.4 years ago Hans ▴ 10
0
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3
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1.7k
views
How to filter a list of SNPs?
BRAIN BRAIN
updated 14.4 years ago by ★ 13k • written 14.4 years ago by ▴ 450
0
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1
reply
2.0k
views
Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
updated 14.6 years ago by ▴ 80 • written 14.6 years ago by ▴ 620
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1.2k
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Modeling of methylation status using lumi
Microarray lumi BRAIN Microarray lumi BRAIN
14.8 years ago Pan Du ★ 1.2k
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3
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1.6k
views
Microarray experiments with Drosophilas (miniscule amounts of RNA, cheap organisms)
Microarray BRAIN Microarray BRAIN
updated 15.0 years ago by ▴ 10 • written 15.0 years ago by ▴ 40
0
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0
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1.1k
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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
16.7 years ago Gordon Smyth 53k
0
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3
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1.5k
views
problems with paired design in limma
Microarray BRAIN Microarray BRAIN
16.9 years ago Michael Walter ▴ 160
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0
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1.0k
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Creating a model matrix for three age groups using two-colour arrays
Microarray limma BRAIN Microarray limma BRAIN
16.9 years ago Gordon Smyth 53k
0
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4
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2.3k
views
allen brain atlas
Genetics Annotation BRAIN Genetics Annotation BRAIN
updated 17.1 years ago by 25k • written 17.1 years ago by ▴ 60
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0
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973
views
MAQC samples on Affymarix Exon array
BRAIN BRAIN
17.2 years ago Weiyin Zhou ▴ 20
0
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5
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1.8k
views
P-values for tissue specific genes
BRAIN BRAIN
17.2 years ago Pascal Gellert ▴ 30
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1
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1.4k
views
new lumi and miRNA array data
Microarray Normalization lumi BRAIN Microarray Normalization lumi BRAIN
updated 17.4 years ago by ★ 13k • written 17.4 years ago by ▴ 830
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2
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1.9k
views
new topGO results using GO.db very different from old ones using GO
GO annotate topGO BRAIN GO annotate topGO BRAIN
updated 17.5 years ago by ▴ 400 • written 17.5 years ago by ▴ 730
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1.1k
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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
18.3 years ago Neddy ▴ 10
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Undergraduate Student Project Summer 2007, at EBI: the synapse and the brain
Pathways BRAIN Pathways BRAIN
18.6 years ago Wolfgang Huber ★ 13k
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1.1k
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read.maimages broken (limma 2.9.10)?
limma BRAIN limma BRAIN
18.7 years ago Gordon Smyth 53k
0
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0
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991
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read.maimages broken (limma 2.9.10)?
BRAIN BRAIN
18.7 years ago Koen Bossers ▴ 10
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0
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1.4k
views
microarray analysis of a dose response * strain experiment
Microarray affy limma maSigPro DOSE BRAIN Microarray affy limma maSigPro DOSE BRAIN
18.9 years ago Naomi Altman ★ 6.0k
0
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4
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2.0k
views
microarray analysis of a dose response * strain experiment
affy DOSE BRAIN affy DOSE BRAIN
updated 18.9 years ago by 21k • written 18.9 years ago by ▴ 890
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0
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1.2k
views
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
19.1 years ago k. brand ▴ 420
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1
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1.3k
views
GCRMA
Microarray Preprocessing gcrma BRAIN Microarray Preprocessing gcrma BRAIN
updated 19.7 years ago by ★ 2.0k • written 19.7 years ago by ▴ 20
0
votes
3
replies
1.8k
views
LIMMA lmscFit: difference between linear models
BRAIN BRAIN
20.1 years ago • updated 20.0 years ago Koen Bossers ▴ 20
0
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3
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1.4k
views
limma design matrix
affy BRAIN affy BRAIN
updated 20.8 years ago by ▴ 720 • written 20.8 years ago by ▴ 250
0
votes
1
reply
1.6k
views
Cluster analysis distance measuer
Microarray Annotation Normalization Clustering Cancer affy limma AnnBuilder BRAIN Cancer
updated 20.9 years ago by ▴ 110 • written 20.9 years ago by ▴ 250
0
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0
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1.1k
views
help with limma contrast matrix
BRAIN BRAIN
20.9 years ago Kimpel, Mark W ▴ 890
0
votes
3
replies
1.8k
views
human tissue specific genes
BRAIN BRAIN
updated 21.2 years ago by 21k • written 21.2 years ago by ▴ 80
0
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0
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1.7k
views
New Alzheimer's disease microarray data set available
Microarray BRAIN Microarray BRAIN
21.2 years ago Eric Blalock ▴ 250
0
votes
0
replies
949
views
Overriding maPrintTip method
BRAIN BRAIN
21.6 years ago Kellie J. Archer, Ph.D. ▴ 120
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0
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1.1k
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Q-value package now available
BRAIN BRAIN
21.8 years ago Warnes, Gregory R ▴ 460
53 results • Page 1 of 2
Recent ...
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Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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