Showing : affymetrixchip • reset
2
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263
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Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 3 months ago by 68k • written 3 months ago by • 0
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246
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Remove Control Probes from Affymetrix Human Gene 1.0 ST Array probeset version
AffymetrixDataTestFiles AffymetrixChip
7 months ago drexjaramel • 0
0
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4
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788
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Unable to annotate ExpressionSet object from hugene11st chip
oligo limma hugene11stprobeset.db AffymetrixChip
11 months ago Efra • 0
0
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1
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864
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Affymetrix hgu133plus2.db: How to best derive an expression value for genes that map to multiple probe ids
affydata hgu133plus2.db AffymetrixChip
updated 19 months ago by ★ 4.7k • written 19 months ago by ▴ 20
1
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2
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817
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Affymetrix analysis Chiptype hgu133plus2hsentrezg.db vs hgu133plus2.db
hgu133plus2hsentrezg.db chiptype chipster hgu133plus2.db AffymetrixChip
20 months ago alexia.brunel • 0
1
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4
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1.1k
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How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
21 months ago • updated 18 months ago richardallenfriedmanbrooklyn ▴ 30
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781
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Volcano plot
limma AffymetrixChip
22 months ago e.gunaut • 0
2
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2
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960
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Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
22 months ago Abdul ▴ 20
1
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1
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1.1k
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Strange error with RMA during Affymetrix data analysis
AffymetrixChip RMA
updated 2.3 years ago by ★ 6.6k • written 2.3 years ago by ▴ 20
2
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2
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787
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2-Way Repeated Measures ANOVA - Affymetrix
AffymetrixChip MicroarrayData Anova
2.3 years ago evan.j.williams ▴ 10
2
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2
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1.1k
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How to compute P/A calls at gene-level probeset of Human Gene 1.0 ST Array
pd.hugene.1.0.st.v1 oligo AffymetrixChip
2.7 years ago Yang Shi ▴ 10
2
votes
5
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1.4k
views
Equivalence between PSDABG and Logarithmic Intensity Error (PLIER) Estimation
pd.hugene.1.0.st.v1 oligo AffymetrixChip
2.7 years ago Yang Shi ▴ 10
2
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4
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1.5k
views
Robust Multi-array Average could get negative value or not?
pd.hg.u219 oligo AffymetrixChip
2.8 years ago Yang Shi ▴ 10
4
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10
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2.4k
views
Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array
pd.hg.u219 Microarray oligo AffymetrixChip
2.8 years ago Yang Shi ▴ 10
0
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2
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1.0k
views
How to extract probe level intensity after rma() normalization
MicroarrayData AffymetrixChip
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
0
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4
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1.2k
views
getProbeInfo and exprs return two different dimensions
CELfile MicroarrayData AffymetrixChip
2.9 years ago Haoran • 0
2
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2
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1.2k
views
Subscript out of bounds while normalising using affy::rma()
Normalization affy AffymetrixChip
3.8 years ago geoffrey ▴ 10
0
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1
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1.1k
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Microarray: Build annotation for HT MG430PM affymetrix
AffymetrixChip Microarray affymetrix
updated 3.9 years ago by ★ 4.1k • written 3.9 years ago by • 0
3
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2
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1.7k
views
Trouble getting probe ID info from mouse4302.db annotation package with a specific RefSeq ID.
annotationdbi mouse4302 affymetrixchip annotationdata R
updated 9.3 years ago by 68k • written 9.3 years ago by • 0
0
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4
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2.6k
views
HUgene 2.0 analyses heatmap
hugene20 heatmap affymetrixchip
updated 9.8 years ago by ▴ 130 • written 9.8 years ago by ▴ 10
2
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5
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3.3k
views
miRNA expression analysis : annotation
miRNA annotation affymetrixchip
9.9 years ago • updated 9.8 years ago aswathym ▴ 10
0
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0
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1.4k
views
Correst use of GeneOverlap R Package
GeneOverlap DEGgenes affymetrixchip bioconductor
9.9 years ago svlachavas ▴ 840
1
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3
replies
1.8k
views
BioNet package network analysis important questions for tutorial
BioNet bioconductor affymetrixchip network analysis
9.9 years ago svlachavas ▴ 840
5
votes
9
replies
3.7k
views
Merge different datasets regarding a common number of DE genes in R
bioconductor expresiondataset affymetrixchip differential gene expression
10.0 years ago • updated 9.9 years ago svlachavas ▴ 840
1
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4
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3.8k
views
GeneChip Human Transcriptome Array 2.0 analysis in R for identifying possible differential exon splicing events
affymetrixchip GenechipHumanTranscriptomeArray2.0 exon array analysis
10.0 years ago svlachavas ▴ 840
3
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11
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3.9k
views
Filtering on present/absent calls methodology and perfect match only arrays
bioconductor mas5 perfectmatch affymetrixchip filter
updated 10.0 years ago by 68k • written 10.0 years ago by ▴ 840
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0
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2.5k
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MAplot: Binning grid too coarse for current (small) bandwidth
affy affymetrix affymetrics affymetrixchip
10.1 years ago neverstop • 0
0
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1
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2.1k
views
Having trouble with new brainarray CDF
Microarray Annotation AnnotationData AffymetrixChip hgu133a2 cdf probe graph AnnotationDbi
updated 13.8 years ago by ★ 7.2k • written 13.8 years ago by ▴ 100
28 results • Page 1 of 1
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Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Answer: Use of limma R package with targeted proteomics for DE analysis by Gordon Smyth 52k
It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…
Comment: WGCNA by pammelala304 • 0
Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.
Comment: Does anyone have the command to download all of the core_nt using blast_db_get() by Matthew Thornton ▴ 380
Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…
Comment: normalizatino of dna methylation EPIC data by user_bioinfo • 0
yes actually that's why I did, and its all good! thank you for your response
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
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