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Proteomics
•
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1
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12
replies
12k
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Using limma for quantitative proteomics data
Microarray
Proteomics
limma
Microarray
Proteomics
limma
11.8 years ago
Yong Li
▴ 80
25
votes
9
replies
6.7k
views
voom for spectral counts
limma
voom
proteomics
spectral counts
massspectrometry
updated 9.2 years ago by
Gordon Smyth
50k • written 9.2 years ago by
Ben Neely
▴ 40
1
vote
1
reply
5.4k
views
Mfuzz: fill.NA - Warning messages: argument is not numeric or logical: returning NA
mfuzz
clustering
bioinformatics
proteomics
timecourse
updated 8.1 years ago by
Laurent Gatto
1.6k • written 8.1 years ago by
under-waterworld
• 0
1
vote
3
replies
4.7k
views
EdgeR for proteomics data
Proteomics
Normalization
edgeR
Proteomics
Normalization
edgeR
updated 17 months ago by
Divya
• 0 • written 10.2 years ago by
Phinney, Brett
▴ 10
1
vote
1
reply
4.6k
views
edgeR: pseudocounts, logConc and logFC
Proteomics
graph
edgeR
Proteomics
graph
edgeR
updated 14.0 years ago by
Mark Robinson
★ 1.1k • written 14.0 years ago by
Ann Hess
▴ 340
0
votes
0
replies
4.0k
views
Bioconductor 2.13 is released
BiocViews
aCGH
SNP
Transcription
Sequencing
miRNA
Microarray
Genetics
Proteomics
Coverage
10.5 years ago
Dan Tenenbaum
★ 8.2k
5
votes
6
replies
3.6k
views
Differential protein/biomarker expression using limma: is that possible?
Proteomics
NPX
limma
updated 9 weeks ago by
briankleiboeker
• 0 • written 3.0 years ago by
r.i.s.alnuwaysir
▴ 10
8
votes
0
replies
3.5k
views
Tutorial:
Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq
chipseq
visualization
metagenomics
proteomics
Tutorial
8.7 years ago
Martin Morgan
25k
0
votes
3
replies
3.2k
views
from RefSeq to GO terms / gene symbol to geneID
Proteomics
Coverage
Annotation
GO
Proteomics
Coverage
Annotation
GO
16.8 years ago
Simon Lin
▴ 270
1
vote
6
replies
3.1k
views
DEP package: Problems installing on macOS
software error
DEP
proteomics
updated 3.7 years ago by
Laurent Gatto
1.6k • written 3.7 years ago by
jp
• 0
0
votes
8
replies
3.1k
views
Getting data into (and out of) the MSnSet object
proteomics
MSnbase
MSnSet
readMSnSet
msmsTests
updated 4.6 years ago by
sutturka
• 0 • written 6.2 years ago by
moldach
▴ 20
2
votes
1
reply
3.0k
views
Convert UniProt Entry Names into Gene Symbols
Proteomics
ProteomicsWorkflow
UniProt.ws
updated 3.1 years ago by
James W. MacDonald
65k • written 3.2 years ago by
Dario Strbenac
★ 1.5k
0
votes
0
replies
2.9k
views
PhD student in Bioinformatics, Computational Biology at Technical University of Munich, Germany
Proteomics
Pathways
Proteomics
Pathways
12.6 years ago
Amin Moghaddasi
▴ 130
3
votes
4
replies
2.8k
views
Protein differential Expression analysis
differential expression
proteomics
updated 7 months ago by
ATpoint
★ 4.0k • written 6.2 years ago by
cardin.julie
• 0
8
votes
2
replies
2.8k
views
Statistical analysis of Spectral count data : edgeR, limma or others ?
spectral counts
proteomics
limma
edger
deseq
updated 8.7 years ago by
Gordon Smyth
50k • written 8.7 years ago by
eleonoregravier
▴ 70
0
votes
1
reply
2.8k
views
Import Bam index (Rsamtools)
Proteomics
Rsamtools
Proteomics
Rsamtools
updated 12.0 years ago by
Martin Morgan
25k • written 12.0 years ago by
Francesco Mancuso
▴ 110
1
vote
2
replies
2.8k
views
Limma: technical and biological replicates in proteomics data
limma
proteomics
replicates
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
ivansilbern
• 0
1
vote
5
replies
2.7k
views
Using Limma for proteomics (2D DIGE) datasets
Proteomics
limma
impute
limmaGUI
Proteomics
limma
impute
limmaGUI
updated 8.7 years ago by
sm
• 0 • written 14.4 years ago by
Tom Wenseleers
▴ 60
0
votes
1
reply
2.6k
views
GenomeViz again : corrected link
Proteomics
genomes
Proteomics
genomes
updated 19.2 years ago by
A.J. Rossini
▴ 210 • written 19.2 years ago by
Rohit Ghai
▴ 80
1
vote
9
replies
2.4k
views
msnbase error when adding identification data
msnbase
proteomics
itraq
updated 9.2 years ago by
Laurent Gatto
1.6k • written 9.2 years ago by
queso012
• 0
0
votes
0
replies
2.3k
views
8. CGHCall problems (Bernard North [guest]) : Bioconductor Digest, Vol 126, Issue 7
aCGH
RNASeq
ChIPSeq
Proteomics
Annotation
Normalization
GO
Network
Cancer
ChipName
probe
10.6 years ago
Sarah JugurnauthLittle
▴ 20
0
votes
3
replies
2.3k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics
hgu95av2
GSEABase
Proteomics
hgu95av2
GSEABase
15.7 years ago
anna freni sterrantino
▴ 120
2
votes
0
replies
2.3k
views
Job:
Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics
genomics
transcriptomics
software
Job
4.5 years ago
Laurent Gatto
1.6k
0
votes
0
replies
2.3k
views
Open PhD Position - Bioinformatics in collaboration with SAP
Proteomics
Proteomics
11.9 years ago
Amin Moghaddasi
▴ 130
0
votes
16
replies
2.2k
views
liimma and Across Array Normalisation
Microarray
Proteomics
Microarray
Proteomics
updated 10.1 years ago by
Gordon Smyth
50k • written 10.1 years ago by
Saket Choudhary
▴ 130
0
votes
3
replies
2.1k
views
limma and Volcano Plots
Microarray
Proteomics
Cancer
PROcess
Microarray
Proteomics
Cancer
PROcess
updated 10.2 years ago by
Gordon Smyth
50k • written 10.2 years ago by
Saket Choudhary
▴ 130
3
votes
1
reply
2.1k
views
Tutorial:
Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry
proteomics
metabolomics
Tutorial
written 3.5 years ago by
Johannes Rainer
★ 2.0k
3
votes
0
replies
2.1k
views
Job:
Postdoctoral Scientist, Statistical Bioinformatics and Proteomics, WEHI Australia
job
proteomics
Job
statistics
4.4 years ago • updated 4.2 years ago
Gordon Smyth
50k
4
votes
9
replies
2.1k
views
Limma is doing the right way to calculate the fold change?
limma
proteomics
updated 6.8 years ago by
Laurent Gatto
1.6k • written 6.8 years ago by
Bioinformatics
▴ 30
0
votes
5
replies
2.1k
views
Package plgem for analysis of spectral counts, was 'limma for spectral counts'
Microarray
Proteomics
limma
plgem
Microarray
Proteomics
limma
plgem
updated 13.4 years ago by
Yolande Tra
▴ 120 • written 13.4 years ago by
Pavelka, Norman
▴ 70
0
votes
0
replies
2.1k
views
Job:
Abbvie -- Senior Manager/Associate Director, Exploratory Statistics
genomics
genetics
proteomics
rnaseq
microarray
Job
9.1 years ago
Feng Hong
• 0
0
votes
3
replies
2.0k
views
Problem with XCMS
xcms
metabolomics
lipidomics
proteomics
massspectrometry
8.2 years ago
Titan
• 0
1
vote
8
replies
2.0k
views
DESEQ2 and continuous data
proteomics
deseq2
8.2 years ago
carandres74
• 0
1
vote
2
replies
2.0k
views
Errors installing mzR package
proteomics
error
updated 5.0 years ago by
Laurent Gatto
1.6k • written 5.0 years ago by
pdaltron
• 0
2
votes
1
reply
2.0k
views
DESeq package
Proteomics
DESeq
Proteomics
DESeq
updated 11.5 years ago by
Bernd Fischer
▴ 550 • written 11.5 years ago by
Maia de Oliveira, Julio
▴ 20
0
votes
8
replies
2.0k
views
IPI to entrez id
Proteomics
GO
biomaRt
Proteomics
GO
biomaRt
13.1 years ago
Dick Beyer
★ 1.4k
0
votes
0
replies
1.9k
views
Post Doc position, Berlin Germany
Sequencing
Microarray
Proteomics
Pathways
Network
Cancer
Sequencing
Microarray
Proteomics
14.9 years ago
Paul Hammer
▴ 220
4
votes
5
replies
1.9k
views
How to convert a xlsx data file to MSnSet format?
msnbase
msmstests
proteomics
lc-ms/ms
msnID
updated 5.1 years ago by
Laurent Gatto
1.6k • written 5.1 years ago by
fgol
▴ 10
1
vote
1
reply
1.9k
views
Job:
junior level position in proteomics/data science
proteomics
machine learning
git
docker
Job
updated 6.2 years ago by
karimse07
• 0 • written 6.5 years ago by
petyuk
▴ 70
1
vote
0
replies
1.9k
views
News:
May Institute 2018 - Computation and statistics for mass spectrometry and proteomics at Northeastern University in Boston
bioconductor
training
course
msstats
proteomics
News
6.2 years ago
mnchoi67
▴ 40
0
votes
2
replies
1.8k
views
Job:
Postdoc bioinformatics in proteomics
proteomics
job
bioinformatics
Netherlands
Job
8.8 years ago
b.nota
▴ 360
3
votes
4
replies
1.8k
views
Enrichment Analysis for Shot-gun proteomics data using the ReactomePA package: problem with identities loss
reactomepa
reactome.db
reactome
proteomics
uniprot accessions
updated 6.4 years ago by
willem.ligtenberg
▴ 150 • written 6.4 years ago by
Miguel.Cosenza
▴ 10
0
votes
9
replies
1.8k
views
RforProteomics workflow troubleshooting
proteomics
7.8 years ago
yockpingchow
• 0
5
votes
3
replies
1.7k
views
Strong upwards correlation between log fold change and average log expression in MD plot of Limma
limma
proteomics
updated 6.4 years ago by
Gordon Smyth
50k • written 6.4 years ago by
gil.hornung
• 0
1
vote
2
replies
1.7k
views
Proteomics: package/statistics to compare very different LFQ-proteomes
dep
proteomics
limma
4.2 years ago
Rob
• 0
0
votes
1
reply
1.7k
views
limma/voom for protein intensity data
limma
proteomics
voom
updated 2.5 years ago by
ATpoint
★ 4.0k • written 2.5 years ago by
Endre Sebestyén
▴ 70
0
votes
3
replies
1.7k
views
GeneSetCollection from GSEA
Proteomics
GSEABase
Proteomics
GSEABase
updated 16.1 years ago by
Martin Morgan
25k • written 16.1 years ago by
Paul ChristophSchröder
▴ 70
0
votes
0
replies
1.7k
views
Differential protein abundance testing using emPAI values?
proteomics
limma
7.7 years ago
Jenny Drnevich
★ 2.0k
0
votes
0
replies
1.7k
views
what is the difference between iBAQ or LFQ?
Proteomics
DEP
limma
written 2.7 years ago by
barrypraveen
• 0
1
vote
3
replies
1.7k
views
Isobar - generating IBSpectra object
isobar
mzid
mgf
proteomics
itraq
updated 9.2 years ago by
Laurent Gatto
1.6k • written 9.2 years ago by
queso012
• 0
50 results • Page
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Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
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50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
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by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
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by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
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DESeq2 normalization vs VST vs rlog
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Circumvent creating .ff files in the working directory when using genotype.Illumina() function
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