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Protein pathway analysis -- Classify, organize, and cluster a list of proteins / discovering relations between a set of proteins and linking them to …
protein
disease
pathway analysis
pathways
5.7 years ago
ረ
• 0
0
votes
1
reply
1.1k
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Correlate drugs to diseases using DrugVsDisease data
drugvsdisease
drug
disease
updated 6.8 years ago by
saezrodriguez
• 0 • written 6.9 years ago by
bioinformatics
▴ 10
3
votes
5
replies
2.2k
views
How to Find Common Dysregulated Genes in Two or More Sets of Microarray Data?
disease
genetics
micro array data
microarray
updated 9.1 years ago by
Gordon Smyth
50k • written 9.1 years ago by
pankajnarula84
▴ 20
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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James W. MacDonald
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shepherl
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Gordon Smyth
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