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Comment:
Comment: Complex multifactorial DE analysis with limma/edgeR based on rnaseq data
7 months ago by
svlachavas
▴ 790
0
votes
1
reply
795
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Comment:
Comment: Complex multifactorial DE analysis with limma/edgeR based on rnaseq data
7 months ago by
svlachavas
▴ 790
2
votes
5
replies
795
views
Complex multifactorial DE analysis with limma/edgeR based on rnaseq data
R
edgeR
limma
RNA-seq
updated 7 months ago by
LChart
3.9k • written 7 months ago by
svlachavas
▴ 790
0
votes
0
replies
15k
views
Comment:
Comment: plotting a dotplot with topGO output
2.3 years ago by
svlachavas
▴ 790
0
votes
0
replies
1.8k
views
Comment:
Comment: Interpretation of functional prediction pathogenicity scores regarding variants
3.1 years ago by
svlachavas
▴ 790
2
votes
2
replies
1.8k
views
Interpretation of functional prediction pathogenicity scores regarding variants with multiple transcripts in ANNOVAR
annovar
pathogenicity
cancer
CADD
3.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
13k
views
Comment:
Comment: ENSMUSG number convert to gene name
3.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
13k
views
Comment:
Comment: ENSMUSG number convert to gene name
3.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
7.1k
views
Comment:
C: Finding the significance of the overlap between 2 or more gene sets using simula
3.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
7.1k
views
Comment:
A: Finding the significance of the overlap between 2 or more gene sets using simula
3.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
1.9k
views
Comment:
C: How to select a "representative" transcript in multiple transcript variants from
3.2 years ago by
svlachavas
▴ 790
0
votes
0
replies
1.9k
views
Comment:
C: How to select a "representative" transcript in multiple transcript variants from
3.2 years ago by
svlachavas
▴ 790
5
votes
5
replies
1.9k
views
How to select a "representative" transcript in multiple transcript variants from annotation with ANNOVAR and gencode
annovar
gencode
transcript
SNP
annotation
3.2 years ago by
svlachavas
▴ 790
0
votes
0
replies
1.1k
views
Analyze RPPA cancer data in R for clustering patients and differential protein expression
RPPA
RPPanalyzer
R
clustering
DE
3.5 years ago by
svlachavas
▴ 790
0
votes
1
reply
4.5k
views
Comment:
A: how do I find the genes which are common to and those which differ between multi
3.5 years ago by
svlachavas
▴ 790
0
votes
0
replies
706
views
Filtering somatic point mutations and CNV alterations on the gene level for multi-omics data integration
feature reduction
somatic mutations
multiomics
3.5 years ago by
svlachavas
▴ 790
2
votes
1
reply
1.4k
views
Suggested pipeline to perform variant calling for cancer exome sequencing samples of PDX models
pdx
variant calling
WES
liquid biopsy
updated 4.0 years ago by
akshayb04
▴ 30 • written 4.3 years ago by
svlachavas
▴ 790
0
votes
1
reply
942
views
Comment:
C: Possible approach to select normal tissue samples for cancer RNA-Seq data withou
4.1 years ago by
svlachavas
▴ 790
2
votes
3
replies
942
views
Possible approach to select normal tissue samples for cancer RNA-Seq data without reference data for downstream analyses
R
RNA-Seq
DE
batch-effect
GTEx
updated 25 days ago by
Ram
43k • written 4.1 years ago by
svlachavas
▴ 790
0
votes
1
reply
38k
views
Comment:
C: Survival analysis with gene expression
4.2 years ago by
svlachavas
▴ 790
1
vote
1
reply
1.8k
views
Answer:
A: normalization after merging datasets
4.2 years ago by
svlachavas
▴ 790
0
votes
1
reply
38k
views
Comment:
A: Survival analysis with gene expression
4.2 years ago by
svlachavas
▴ 790
3
votes
1
reply
1.4k
views
Answer:
A: Best way for CNV phenotype association analysis.
4.2 years ago by
svlachavas
▴ 790
0
votes
1
reply
1.2k
views
Comment:
C: Suggested tool or algorithm for accessing pathogenicity and prioritization of so
4.2 years ago by
svlachavas
▴ 790
3
votes
3
replies
1.2k
views
Suggested tool or algorithm for accessing pathogenicity and prioritization of somatic INDELs in cancer research
somatic variant annotation
pathogenicity
cancer
4.2 years ago by
svlachavas
▴ 790
0
votes
0
replies
877
views
Suggestion of specific tools/pipelines for the manipulation and analysis of VCF files after somatic copy number variant calling
vcf
cnv facets
CNA
VCF analysis
4.3 years ago by
svlachavas
▴ 790
0
votes
1
reply
1.8k
views
Comment:
C: Estimate tumor purity for liquid cancer biopsy samples of whole exome sequencing
4.3 years ago by
svlachavas
▴ 790
0
votes
1
reply
1.8k
views
Comment:
C: Estimate tumor purity for liquid cancer biopsy samples of whole exome sequencing
4.3 years ago by
svlachavas
▴ 790
4
votes
6
replies
1.8k
views
Estimate tumor purity for liquid cancer biopsy samples of whole exome sequencing data
variant calling
tumor purity
liquid biopsy
WES
updated 4.3 years ago by
amjad
▴ 100 • written 4.4 years ago by
svlachavas
▴ 790
0
votes
1
reply
2.1k
views
Comment:
C: Possible tools-programs for inspecting the relevance of DE genes to a specific c
updated 4.3 years ago by
Ram
43k • written 8.3 years ago by
svlachavas
▴ 790
1
vote
0
replies
2.4k
views
Comment:
C: filtering only differentially expressed genes
updated 4.4 years ago by
Ram
43k • written 8.3 years ago by
svlachavas
▴ 790
0
votes
1
reply
17k
views
Comment:
C: ggrepel: repel overlapping text labels in ggplot2
updated 4.4 years ago by
Ram
43k • written 8.3 years ago by
svlachavas
▴ 790
0
votes
0
replies
2.4k
views
Comment:
C: Microarray Multimapping/Cross-hybridizing probesets
updated 4.4 years ago by
Ram
43k • written 8.4 years ago by
svlachavas
▴ 790
0
votes
2
replies
2.4k
views
Comment:
C: Microarray Multimapping probesets
updated 4.4 years ago by
Ram
43k • written 8.5 years ago by
svlachavas
▴ 790
1
vote
1
reply
3.5k
views
Answer:
A: ReadAffy function of Affy R package
updated 4.5 years ago by
Ram
43k • written 8.5 years ago by
svlachavas
▴ 790
0
votes
1
reply
2.1k
views
Answer:
A: how the data should look like after the normalization
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
5
votes
0
replies
6.5k
views
Answer:
A: about microarray data analysis
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
1
reply
2.5k
views
Comment:
C: One gene association with cancer types
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
1
reply
2.5k
views
Comment:
C: One gene association with cancer types
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
1
reply
2.5k
views
Comment:
C: One gene association with cancer types
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
0
replies
1.9k
views
Comment:
C: Dataset normalization before gene ontology analysis
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
1
reply
1.9k
views
Answer:
A: Dataset normalization before gene ontology analysis
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
0
replies
2.2k
views
Answer:
A: gene set for pathway analysis
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
0
replies
1.5k
views
Answer:
A: How to find biological meaning of my results at probe level ?
updated 4.5 years ago by
Ram
43k • written 8.6 years ago by
svlachavas
▴ 790
0
votes
1
reply
3.3k
views
Comment:
C: Possible methodology implemented in R/Bioconductor packages to integrate and ana
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
0
votes
1
reply
3.3k
views
Comment:
C: Possible methodology implemented in R/Bioconductor packages to integrate and ana
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
1
vote
1
reply
9.1k
views
Comment:
C: Limma Contrast matrix
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
0
votes
1
reply
9.1k
views
Comment:
C: Limma Contrast matrix
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
1
vote
1
reply
9.1k
views
Comment:
C: Limma Contrast matrix
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
2
votes
2
replies
9.1k
views
Comment:
C: Limma Contrast matrix
updated 4.5 years ago by
Ram
43k • written 8.7 years ago by
svlachavas
▴ 790
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