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0
votes
0
replies
267
views
Prediction of altrered metabolites from altered gene expression
Gene Metabolites
11 months ago by english.server ▴ 290
1
vote
2
replies
703
views
Order of Normalization/Surrogate variable analysis(or even known batch correction)/QC
Normalization Batch QC correction effect
21 months ago by english.server ▴ 290
0
votes
0
replies
301
views
How to calculate/visualize network robustness/vulnerability?
Erdos-Renyi Barabasi-Albert igraph
2.0 years ago by english.server ▴ 290
4
votes
1
reply
519
views
Cancer-cell-line-specific essential genes
genes database essential
updated 2.0 years ago by 88k • written 2.0 years ago by ▴ 290
3
votes
1
reply
433
views
Disease-specific SNPs. Any databases?
SNP database
updated 2.1 years ago by 88k • written 2.1 years ago by ▴ 290
0
votes
0
replies
419
views
Lasso for survival analysis: Expression dichotomization necessary or not?
Dichotomization Lasso survival
2.4 years ago by english.server ▴ 290
1
vote
0
replies
390
views
Comparing distribution of microarray data to that of RNA-seq data
distribution
2.9 years ago by english.server ▴ 290
1
vote
1
reply
882
views
Correcting for batch effect in survival data
batch effect survival
updated 3.1 years ago by 88k • written 3.1 years ago by ▴ 290
1
vote
0
replies
863
views
TCGA methylation data analysis. beta values to differentially regulated CpGs
methylation beta values DMP
3.3 years ago by english.server ▴ 290
1
vote
1
reply
3.6k
views
Comparing two different COX models in R
survival classification coxph
3.4 years ago by english.server ▴ 290
0
votes
0
replies
487
views
How to find (all) transcripion factors of a certin cell type/tissue?
transciption factor database
3.4 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 82k • written 3.4 years ago by ▴ 290
1
vote
2
replies
962
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
1.2k
views
Inconsistent survival times in TCGA clinicalMatrix file?
survival analysis TCGA data
updated 3.8 years ago by 88k • written 3.8 years ago by ▴ 290
5
votes
6
replies
1.1k
views
Too many RNAseq samples. What to do?
RNA-Seq deseq2 edger
3.8 years ago by english.server ▴ 290
9
votes
5
replies
3.6k
views
Differential gene expression, starting from RSEM expected count values.
rsem expected-count deseq2
updated 4.2 years ago by 19k • written 4.2 years ago by ▴ 290
14
votes
9
replies
1.3k
views
Survival analysis: Why to categorize age?
survival
updated 4.3 years ago by 88k • written 4.3 years ago by ▴ 290
2
votes
2
replies
1.0k
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
4.7 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 4.7 years ago by 20 • written 8.6 years ago by ▴ 290
0
votes
4
replies
1.3k
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 4.9 years ago by ▴ 390 • written 5.3 years ago by ▴ 290
3
votes
2
replies
1.9k
views
Real-valued HTseq count to DESeq2
HTseq DESeq2
updated 5.0 years ago by 88k • written 5.0 years ago by ▴ 290
8
votes
4
replies
3.5k
views
WGCNA categorical trait with more than 2 levels.
wgcna categorical trait
updated 5.0 years ago by ▴ 80 • written 5.4 years ago by ▴ 290
6
votes
10
replies
1.5k
views
Differentially expressed genes from expression table (RNAseq)
DEG expression table RNA-seq GEO
updated 5.0 years ago by 82k • written 5.0 years ago by ▴ 290
6
votes
12
replies
1.6k
views
Good tutorials/textbooks/articles to introduce biomarker discovery to a biologist?
r biomarker
updated 14 months ago by 43k • written 5.3 years ago by ▴ 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
3.4k
views
Graphical output of Blast. What are grey and black lines?
blast gaphical output
updated 5.5 years ago by ▴ 260 • written 5.5 years ago by ▴ 290
2
votes
2
replies
1.9k
views
Reference needed for interpretation of correlation matrix heatmap.
correlation matrix heatmap microarray
updated 5.6 years ago by 20 • written 6.0 years ago by ▴ 290
2
votes
4
replies
1.6k
views
Draw gene-transcroption factor network starting from a list of gene
transcription factor
5.6 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 5.6 years ago by 142k • written 5.6 years ago by ▴ 290
2
votes
5
replies
1.6k
views
Microarray background correction.(affymetrix)
microarray background correction
updated 5.7 years ago by 20 • written 5.8 years ago by ▴ 290
6
votes
2
replies
1.2k
views
Predicting new values from a model.
lm predict R
6.0 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 6.0 years ago by 88k • written 6.0 years ago by ▴ 290
3
votes
10
replies
2.6k
views
affymetrix miRNA microarray analysis,
R microarray miR annotation package
6.2 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 26k • written 6.2 years ago by ▴ 290
1
vote
2
replies
1.3k
views
Rationality of normalization of arrays, when the 'new' mean is out of 95% cI of initial expression level?
Normalization statistics boutiqe
6.7 years ago by english.server ▴ 290
3
votes
5
replies
3.5k
views
Expand a DNA sequence with IUPAC codes into multiple sequence in R
R sequence
6.9 years ago by english.server ▴ 290
5
votes
6
replies
3.6k
views
Tophat's Mean Inner Distance between Mate Pairs
tophat RNA-seq
updated 9 months ago by 43k • written 8.6 years ago by ▴ 290
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