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Showing :
questions
0
votes
0
replies
257
views
Prediction of altrered metabolites from altered gene expression
Gene
Metabolites
10 months ago by
english.server
▴ 290
1
vote
2
replies
687
views
Order of Normalization/Surrogate variable analysis(or even known batch correction)/QC
Normalization
Batch
QC
correction
effect
20 months ago by
english.server
▴ 290
0
votes
0
replies
289
views
How to calculate/visualize network robustness/vulnerability?
Erdos-Renyi
Barabasi-Albert
igraph
24 months ago by
english.server
▴ 290
4
votes
1
reply
501
views
Cancer-cell-line-specific essential genes
genes
database
essential
updated 24 months ago by
Kevin Blighe
87k • written 24 months ago by
english.server
▴ 290
3
votes
1
reply
424
views
Disease-specific SNPs. Any databases?
SNP
database
updated 2.0 years ago by
Kevin Blighe
87k • written 2.0 years ago by
english.server
▴ 290
0
votes
0
replies
411
views
Lasso for survival analysis: Expression dichotomization necessary or not?
Dichotomization
Lasso
survival
2.3 years ago by
english.server
▴ 290
1
vote
0
replies
385
views
Comparing distribution of microarray data to that of RNA-seq data
distribution
2.8 years ago by
english.server
▴ 290
1
vote
1
reply
864
views
Correcting for batch effect in survival data
batch
effect
survival
updated 3.0 years ago by
Kevin Blighe
87k • written 3.0 years ago by
english.server
▴ 290
1
vote
0
replies
853
views
TCGA methylation data analysis. beta values to differentially regulated CpGs
methylation
beta values
DMP
3.2 years ago by
english.server
▴ 290
1
vote
1
reply
3.5k
views
Comparing two different COX models in R
survival
classification
coxph
3.3 years ago by
english.server
▴ 290
0
votes
0
replies
477
views
How to find (all) transcripion factors of a certin cell type/tissue?
transciption factor
database
3.3 years ago by
english.server
▴ 290
4
votes
3
replies
1.1k
views
Clustering/Hetamap of count RNAseq data
RNA-Seq
Normalization
updated 3.4 years ago by
ATpoint
82k • written 3.4 years ago by
english.server
▴ 290
1
vote
2
replies
944
views
P-value adjustment for diffreent classes each tested individually
survival
p-value adjustment
3.5 years ago by
english.server
▴ 290
7
votes
9
replies
1.9k
views
Hazard ratio for many genes (gene signature)
survival analysis
R
3.7 years ago by
english.server
▴ 290
2
votes
3
replies
1.1k
views
Inconsistent survival times in TCGA clinicalMatrix file?
survival analysis
TCGA data
updated 3.7 years ago by
Kevin Blighe
87k • written 3.7 years ago by
english.server
▴ 290
5
votes
6
replies
1.1k
views
Too many RNAseq samples. What to do?
RNA-Seq
deseq2
edger
3.7 years ago by
english.server
▴ 290
9
votes
5
replies
3.5k
views
Differential gene expression, starting from RSEM expected count values.
rsem
expected-count
deseq2
updated 4.2 years ago by
i.sudbery
19k • written 4.2 years ago by
english.server
▴ 290
14
votes
9
replies
1.3k
views
Survival analysis: Why to categorize age?
survival
updated 4.2 years ago by
Kevin Blighe
87k • written 4.2 years ago by
english.server
▴ 290
2
votes
2
replies
985
views
DEG, wilcoxon, p value adjustment
RNA-Seq
4.3 years ago by
english.server
▴ 290
5
votes
6
replies
1.2k
views
Removing certain levels of Batch before batch effect correction
batch management
diferential expression
4.6 years ago by
english.server
▴ 290
2
votes
2
replies
2.9k
views
Are the values in geo .soft files log2 transformed or normalized?
geo .soft files
updated 4.6 years ago by
Biostar
20 • written 8.5 years ago by
english.server
▴ 290
0
votes
4
replies
1.2k
views
Robust rank aggregation with imprecise p values
meta-analysis
Robust rank aggregation
4.7 years ago by
english.server
▴ 290
5
votes
6
replies
1.2k
views
What is the best/mostcommon approach to model the effect of missense SNP on protein structure?
protein structure
SNP
updated 4.8 years ago by
jgreener
▴ 390 • written 5.2 years ago by
english.server
▴ 290
3
votes
2
replies
1.9k
views
Real-valued HTseq count to DESeq2
HTseq
DESeq2
updated 4.9 years ago by
Kevin Blighe
87k • written 4.9 years ago by
english.server
▴ 290
8
votes
4
replies
3.5k
views
WGCNA categorical trait with more than 2 levels.
wgcna
categorical trait
updated 4.9 years ago by
Agustin Gonzalez-Vicente
▴ 80 • written 5.4 years ago by
english.server
▴ 290
6
votes
10
replies
1.4k
views
Differentially expressed genes from expression table (RNAseq)
DEG
expression table
RNA-seq
GEO
updated 4.9 years ago by
ATpoint
82k • written 4.9 years ago by
english.server
▴ 290
6
votes
12
replies
1.6k
views
Good tutorials/textbooks/articles to introduce biomarker discovery to a biologist?
r
biomarker
updated 13 months ago by
Ram
43k • written 5.3 years ago by
english.server
▴ 290
6
votes
8
replies
3.2k
views
In WGCNA, how to perform block-wise network construction but show the results using only 1 graph (1 dendrogram)?
wgcna
blockwise network construction
5.4 years ago by
english.server
▴ 290
2
votes
2
replies
3.3k
views
Graphical output of Blast. What are grey and black lines?
blast
gaphical output
updated 5.5 years ago by
sangram_keshari
▴ 260 • written 5.5 years ago by
english.server
▴ 290
2
votes
2
replies
1.9k
views
Reference needed for interpretation of correlation matrix heatmap.
correlation matrix heatmap
microarray
updated 5.5 years ago by
Biostar
20 • written 5.9 years ago by
english.server
▴ 290
2
votes
4
replies
1.6k
views
Draw gene-transcroption factor network starting from a list of gene
transcription factor
5.5 years ago by
english.server
▴ 290
1
vote
2
replies
2.2k
views
Galaxy differential expression starting from raw FASTQ files
galaxy
RNA-Seq
differential expression
updated 5.5 years ago by
GenoMax
141k • written 5.5 years ago by
english.server
▴ 290
2
votes
5
replies
1.6k
views
Microarray background correction.(affymetrix)
microarray
background correction
updated 5.7 years ago by
Biostar
20 • written 5.7 years ago by
english.server
▴ 290
6
votes
2
replies
1.2k
views
Predicting new values from a model.
lm
predict
R
5.9 years ago by
english.server
▴ 290
5
votes
3
replies
2.1k
views
In SOM, (how) can I extract rows in each cluster?
som
cluster members
updated 5.9 years ago by
Kevin Blighe
87k • written 6.0 years ago by
english.server
▴ 290
3
votes
10
replies
2.5k
views
affymetrix miRNA microarray analysis,
R
microarray
miR
annotation package
6.1 years ago by
english.server
▴ 290
2
votes
2
replies
1.5k
views
Boxplot from GEO2R vs my own script
R
boxplot
updated 6.2 years ago by
Sean Davis
26k • written 6.2 years ago by
english.server
▴ 290
1
vote
2
replies
1.2k
views
Rationality of normalization of arrays, when the 'new' mean is out of 95% cI of initial expression level?
Normalization
statistics
boutiqe
6.6 years ago by
english.server
▴ 290
3
votes
5
replies
3.4k
views
Expand a DNA sequence with IUPAC codes into multiple sequence in R
R
sequence
6.8 years ago by
english.server
▴ 290
5
votes
6
replies
3.5k
views
Tophat's Mean Inner Distance between Mate Pairs
tophat
RNA-seq
updated 8 months ago by
Ram
43k • written 8.5 years ago by
english.server
▴ 290
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