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saezlab
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footprints
Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"
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Raw data series filter
#28
Nickluas
opened
1 month ago
0
Rewrite perturbation recall paragraph
#27
mschubert
closed
6 years ago
0
Improve paper discussion
#26
mschubert
closed
7 years ago
1
Revert scaling in input experiments?
#25
mschubert
closed
7 years ago
0
Modeling of pathway cross-talk
#24
mschubert
closed
6 years ago
0
Rename report scripts so they are logically ordered
#23
mschubert
opened
7 years ago
0
TCGA survival with discretized values currently broken
#22
mschubert
closed
7 years ago
0
Add RPPA in addition to pathway methods for comparisons?
#21
mschubert
closed
7 years ago
1
tcga-mutations: pancan plots w/o tissue covariate
#20
mschubert
closed
8 years ago
1
Drug association figure: condition both ways?
#19
mschubert
closed
8 years ago
1
Check list
#18
mschubert
closed
8 years ago
0
empirical p-values for glmnet multivariate results
#17
mschubert
opened
9 years ago
1
need perturbation recall on external data set
#16
mschubert
closed
8 years ago
1
Pathway comparisons need to include state-of-the-art methods
#15
mschubert
closed
9 years ago
0
TCGA batch effects
#14
mschubert
closed
9 years ago
0
CNA alterated genes in speed sigs
#13
mschubert
opened
9 years ago
0
survival assocs, t=0
#12
mschubert
closed
9 years ago
1
Clustering
#11
mschubert
closed
8 years ago
1
TNFa/NFkB perturbations preferred over BRCA-EGFR survival
#10
mschubert
closed
8 years ago
1
20k gene assoc not better than 5k
#9
mschubert
closed
9 years ago
0
Analysis ideas
#8
mschubert
opened
9 years ago
2
z-scores are not distributed around 0
#7
mschubert
closed
9 years ago
0
Multivariate associations
#6
mschubert
closed
8 years ago
1
Benchmark
#5
mschubert
closed
8 years ago
1
Univariate associations
#4
mschubert
closed
8 years ago
1
Modelling
#3
mschubert
closed
8 years ago
1
Array processing
#2
mschubert
closed
8 years ago
0
Pathway curation
#1
mschubert
closed
7 years ago
0