Showing : microarray • reset
2
votes
27
replies
2.1k
views
Applying NetAffx biological annotation to Affymetrix gene expression dataset
microarray annotation
updated 5.1 years ago by 65k • written 5.1 years ago by ▴ 10
3
votes
24
replies
3.3k
views
Problem in installing maEndToEnd package
microarray maEndToEnd
4.7 years ago • updated 4.6 years ago Jack • 0
6
votes
22
replies
3.9k
views
Oligo package: paCalls questions
microarray oligo
updated 8.9 years ago by ★ 3.9k • written 8.9 years ago by ▴ 20
0
votes
18
replies
5.8k
views
WGCNA error in network construction ?
microarray rnaseq
7.1 years ago m.azhar ▴ 10
0
votes
17
replies
2.2k
views
Advice for the analysis of microarray data with limma
Microarray MicroarrayData limma
updated 14 months ago by 50k • written 18 months ago by • 0
0
votes
17
replies
2.4k
views
IlluminaHumanMethylation450k.db: Missing probes in IlluminaHumanMethylation450kPROBELOCATION function?
Microarray illuminaHumanv2 Microarray illuminaHumanv2
updated 10.8 years ago by ★ 4.2k • written 10.8 years ago by ▴ 180
0
votes
17
replies
2.7k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Sequencing RNASeq Microarray qPCR Coverage edgeR DESeq Sequencing RNASeq Microarray qPCR
updated 11.0 years ago by ★ 13k • written 11.0 years ago by ▴ 330
0
votes
17
replies
2.5k
views
Defining Weights in marrayNorm.
Microarray Microarray
updated 20.7 years ago by ▴ 100 • written 20.7 years ago by ▴ 20
0
votes
16
replies
2.3k
views
liimma and Across Array Normalisation
Microarray Proteomics Microarray Proteomics
updated 10.2 years ago by 50k • written 10.2 years ago by ▴ 130
14
votes
16
replies
2.6k
views
Limma - discrepancy in number of significant genes
limma differential gene expression microarray linear model
updated 8.8 years ago by 65k • written 8.8 years ago by ▴ 10
0
votes
15
replies
2.6k
views
PreFiltering probe in microarray analysis
Microarray limma oligo Microarray limma oligo
updated 12.9 years ago by ▴ 220 • written 12.9 years ago by ▴ 30
8
votes
15
replies
8.6k
views
Design matrix for continuous independent variable in limma
limma microarray
8.3 years ago Linda Chaba ▴ 10
15
votes
14
replies
3.6k
views
extract similar expressed genes (SEGs) rather than DEGs
limma microarray
updated 9.2 years ago by 21k • written 9.3 years ago by ▴ 340
4
votes
14
replies
5.5k
views
Including technical and biological replicates in Limma block analysis?
limma microarray block paired linear model
9.4 years ago vas ▴ 40
7
votes
13
replies
1.8k
views
Taking into account strong batch effect in microarray differential expression analysis with limma
limma microarray hugeneST batch effect DE
updated 5.3 years ago by ★ 7.9k • written 5.3 years ago by ▴ 830
0
votes
13
replies
1.9k
views
Analysing DNA methylation microarrays in Bioconductor
Microarray Microarray
updated 13.8 years ago by ▴ 90 • written 13.8 years ago by ★ 1.3k
2
votes
13
replies
4.5k
views
Error in using r
microarray
updated 22 months ago by • 0 • written 7.5 years ago by • 0
8
votes
12
replies
4.2k
views
Interaction models in limma and multiple factor assessement regarding microarray statistical inference
limma microarray interaction model multiple factor design makeContrasts
updated 8.1 years ago by ★ 28k • written 8.1 years ago by ▴ 830
0
votes
12
replies
2.0k
views
Quick start to linking GO terms and microarray data
Microarray GO affy PROcess goTools GOstats Microarray GO affy PROcess goTools GOstats
18.2 years ago michael watson IAH-C ★ 3.4k
1
vote
12
replies
2.1k
views
Illumina array analysis
Microarray Normalization limma Microarray Normalization limma
updated 12.5 years ago by ★ 3.6k • written 12.5 years ago by ▴ 310
1
vote
12
replies
4.7k
views
EdgeR: replicated pools, yes or not?
RNASeq Microarray edgeR RNASeq Microarray edgeR
updated 10.0 years ago by ★ 7.9k • written 10.0 years ago by ★ 13k
0
votes
12
replies
2.4k
views
gProcessed Signal normalization using cyclic loess
Microarray Normalization Microarray Normalization
updated 13.4 years ago by 25k • written 13.4 years ago by ▴ 580
0
votes
12
replies
3.4k
views
Understanding limma, fdr and topTable
Microarray GO limma Microarray GO limma
updated 15.8 years ago by ▴ 10 • written 15.8 years ago by ▴ 160
4
votes
12
replies
1.6k
views
Limma model for 4 factor (2*2*2*2) design to detect the factor specific effect and their interaction effect on gene expression
limma microarray
8.5 years ago baibing7713661 • 0
0
votes
12
replies
1.5k
views
Annotating featureData to an affymetrix Xcel microarray
Microarray
2.0 years ago Adam • 0
0
votes
12
replies
5.3k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
11.2 years ago James W. MacDonald 65k
1
vote
12
replies
2.2k
views
avereps with probes mapping to multiple genes (Agilent dual color microarray)
limma avereps probe mapping microarray Agilent
updated 5.3 years ago by 50k • written 5.3 years ago by ▴ 30
0
votes
12
replies
2.3k
views
RNAseq machine learning classifier
RNASeq Microarray RNASeq Microarray
updated 10.8 years ago by ▴ 60 • written 10.8 years ago by ▴ 370
1
vote
12
replies
12k
views
Using limma for quantitative proteomics data
Microarray Proteomics limma Microarray Proteomics limma
11.9 years ago • updated 11.8 years ago Yong Li ▴ 80
6
votes
11
replies
2.1k
views
microarray data analsis with limma?
limma genepix microarray agilent microarrays
7.9 years ago Mehmet Ilyas Cosacak • 0
1
vote
11
replies
3.8k
views
oligo package requires the annotation package pd.ht.mg.430.pm - where is it?
oligo microarray annotation
updated 8.6 years ago by 65k • written 8.6 years ago by • 0
0
votes
11
replies
3.0k
views
Very low P-values in limma
miRNA Microarray Normalization GO vsn limma microRNA miRNA Microarray Normalization GO
updated 14.5 years ago by ★ 1.3k • written 14.5 years ago by 50k
3
votes
11
replies
2.4k
views
Filtering Gene Symbols and Sample Description from GSE files of GEO
gene expression geoquery GSE bioconductor microarray
updated 5.7 years ago by 21k • written 5.7 years ago by ▴ 20
0
votes
11
replies
1.3k
views
error running makeProbePackage
Microarray probe Microarray probe
updated 11.9 years ago by 65k • written 11.9 years ago by ▴ 80
3
votes
11
replies
3.9k
views
GEOquery http:// url error
geoquery error getgeo microarray geo
updated 6.3 years ago by 21k • written 7.0 years ago by • 0
8
votes
11
replies
1.9k
views
Creating design matrix in LIMMA
limma microarray R
7.3 years ago sgblackpearl • 0
0
votes
11
replies
1.8k
views
...another question about using weights on microarray analysis
Microarray limma ASSIGN Microarray limma ASSIGN
15.2 years ago Erika Melissari ▴ 250
5
votes
11
replies
4.9k
views
Duplicate gene ID's returned from limma microarray analysis
limma microarray
updated 2.0 years ago by 50k • written 7.3 years ago by ▴ 70
0
votes
10
replies
2.2k
views
Microarray data analysis
Microarray Microarray
updated 10.1 years ago by 50k • written 10.1 years ago by ★ 13k
0
votes
10
replies
1.8k
views
AgiMicroRNA and Extra columns in Agilent Mouse miRNA Microarray Release 12.0 G4471A-021828.
miRNA Microarray Cancer microRNA miRNA Microarray Cancer microRNA
13.9 years ago Neel Aluru ▴ 460
0
votes
10
replies
17k
views
Fine tuning heatmap.2 graphics
Microarray Microarray
updated 18.1 years ago by ▴ 290 • written 18.1 years ago by ▴ 70
0
votes
10
replies
2.7k
views
ANCOVA microarray time-course continuous & categorical variables / Limma extensions
RNASeq Microarray limma RNASeq Microarray limma
updated 10.5 years ago by 50k • written 10.5 years ago by ▴ 370
3
votes
10
replies
1.9k
views
Still need help identifying a good workflow for finding DEG in hugene 2.0 st
microarray hugene20 limma oligo
updated 8.2 years ago by ★ 28k • written 8.2 years ago by • 0
8
votes
10
replies
4.8k
views
Interpretation of confidence interval values for logFC returned from topTable function in limma with microarray dataset
limma topTable confidence interval effect size microarray
updated 8.1 years ago by 50k • written 8.1 years ago by ▴ 80
0
votes
10
replies
1.7k
views
exonmap RMA function
Microarray Cancer affyPLM exonmap Microarray Cancer affyPLM exonmap
updated 16.3 years ago by ▴ 250 • written 16.3 years ago by 25k
0
votes
10
replies
1.3k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Microarray Coverage Microarray Coverage
10.9 years ago Thomas Girke ★ 1.7k
0
votes
10
replies
3.0k
views
PAIR files -- feature set table
Microarray Annotation Organism annotate pdInfoBuilder Microarray Annotation Organism
updated 10.9 years ago by ★ 4.3k • written 10.9 years ago by ★ 13k
0
votes
10
replies
1.7k
views
Read single channel GenePix in limma [was: Analyze miRNA experiment in Bioconductor]
miRNA Microarray Normalization GO limma miRNA Microarray Normalization GO limma
updated 16.0 years ago by ★ 1.3k • written 16.0 years ago by 50k
0
votes
10
replies
2.7k
views
RMA/QuantileNormalization results difference between oligo and aroma.affymetrix for Hugene
Microarray Normalization cdf oligo DTA Microarray Normalization cdf oligo DTA
updated 14.2 years ago by ★ 4.3k • written 14.2 years ago by ▴ 110
0
votes
10
replies
2.1k
views
Retrieve Entrez IDs for enriched GO terms
Microarray Annotation GO limma GOstats biomaRt Microarray Annotation GO limma GOstats
updated 14.6 years ago by ★ 2.0k • written 14.6 years ago by ▴ 90
50 results • Page 1 of 1
Recent ...
Replies
Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Awards • All
Supporter to JKim • 0
Popular Question to Gordon Smyth 50k
Popular Question to Chris • 0
Supporter to Jonathan ▴ 10
Popular Question to Bine ▴ 40
Locations • All
Germany, 2 minutes ago
France, 7 minutes ago
France, 15 minutes ago
WEHI, Melbourne, Australia, 16 minutes ago
Iran, 18 minutes ago
Traffic: 931 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6