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questions
0
votes
0
replies
1.1k
views
Converting KEGG pathways to SBML with preserving compound and reaction identifiers
KEGG
KEGGTRANSLATOR
KGML
SBML
Stoichiometry matrix
5.5 years ago by
Na Sed
▴ 310
7
votes
8
replies
1.7k
views
Identification of metabolomic biomarkers
metabolomics
biomarker
metabolite
updated 6.0 years ago by
Kevin Blighe
87k • written 6.0 years ago by
Na Sed
▴ 310
0
votes
0
replies
1.2k
views
Phylogeny trees with variable indel rate
phylogeny
indel rate
alignment
HMM
6.4 years ago by
Na Sed
▴ 310
1
vote
2
replies
2.7k
views
Pathway analysis for two lists of genes
R
gene
pathway
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
2
votes
3
replies
2.1k
views
Need your help to check MsigDB (it takes less than a minute)
MSigDb
GSEBase
updated 7.2 years ago by
Biostar
20 • written 7.5 years ago by
Na Sed
▴ 310
1
vote
7
replies
5.0k
views
What is the format of *.contigs.fasta files?
next-gen
contig
fasta
updated 7.6 years ago by
GenoMax
141k • written 7.6 years ago by
Na Sed
▴ 310
4
votes
3
replies
1.4k
views
Meaning of n in an equation of reaction in KEGG
KEGG
Reaction
Equation
updated 7.6 years ago by
Devon Ryan
104k • written 7.6 years ago by
Na Sed
▴ 310
0
votes
0
replies
1.5k
views
Elementary Flux Modes in Reaction Network
reaction
metabolic
Elementary flux modes
EFM
7.7 years ago by
Na Sed
▴ 310
2
votes
1
reply
3.4k
views
How to download metabolite networks from KEGG database?
metabolite
KEGG
Reactome
updated 7.8 years ago by
EagleEye
7.5k • written 7.8 years ago by
Na Sed
▴ 310
2
votes
4
replies
1.7k
views
A quick question: the name of position
reserch assistant
research scholar
7.8 years ago by
Na Sed
▴ 310
5
votes
3
replies
2.5k
views
Metabolic network database
metabolite
network
biogrid
updated 7.8 years ago by
Egon Willighagen
5.4k • written 8.0 years ago by
Na Sed
▴ 310
3
votes
1
reply
4.9k
views
Possible normalization and transformation on GWAS data
GWAS
Normalization
Transformation
SNP
7.9 years ago by
Na Sed
▴ 310
4
votes
1
reply
1.5k
views
A simple question about Affymetrix SNP platform
SNP
Affymetrix
updated 7.9 years ago by
Jan Oosting
▴ 920 • written 7.9 years ago by
Na Sed
▴ 310
3
votes
4
replies
7.0k
views
Annotation in ExpressionSet object
R
ExpressionSet
7.9 years ago by
Na Sed
▴ 310
0
votes
3
replies
1.6k
views
Qualified Editing Service
Editing service
Native
written 8.6 years ago by
Na Sed
▴ 310
1
vote
4
replies
3.5k
views
Well-defined subtypes of cancers in TCGA database
TCGA
subtype
8.1 years ago by
Na Sed
▴ 310
0
votes
2
replies
3.4k
views
Obtaining length and %GC of genes using Biomart
biomart
GC
8.3 years ago by
Na Sed
▴ 310
2
votes
2
replies
1.8k
views
Converting tags to gene names in GPL9115
RNA-Seq
ChIP-Seq
GPL9115
RefSeq-ID
updated 20 months ago by
Ram
43k • written 8.4 years ago by
Na Sed
▴ 310
0
votes
0
replies
2.1k
views
Do we need to correct GC-content bias and/or length bias in RNA-Seq level 3 from TCGA?
mRNA
length-bias
GC-content-bias
RNA-Seq
miRNA
updated 20 months ago by
Ram
43k • written 8.4 years ago by
Na Sed
▴ 310
0
votes
1
reply
1.2k
views
Important genes in ONE category expression profile!!
differential expression
gene expression
updated 8.5 years ago by
Michael
54k • written 8.5 years ago by
Na Sed
▴ 310
8
votes
6
replies
2.5k
views
7 follow
Needed appropriate journal to submit my paper
Thomson-Reuters
Journal
updated 18 months ago by
Ram
43k • written 8.7 years ago by
Na Sed
▴ 310
5
votes
3
replies
1.7k
views
Any suggestion for combining different types of scores
GO similarity
DO similarity
updated 8.7 years ago by
Jean-Karim Heriche
27k • written 8.7 years ago by
Na Sed
▴ 310
1
vote
1
reply
2.3k
views
What is the meaning of conservation site in miRNA-mRNA pairing context?
mRNA
conservation
miRNA
updated 16 months ago by
Ram
43k • written 8.8 years ago by
Na Sed
▴ 310
7
votes
8
replies
6.9k
views
Log-transformed RNA-Seq data and linear regression
Linear-Regression
RNA-Seq
R
Log-transform
updated 16 months ago by
Ram
43k • written 8.8 years ago by
Na Sed
▴ 310
1
vote
1
reply
3.0k
views
What is the interpretation of the obtained p-value here?
p-value
pathway-analysis
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
6
votes
1
reply
2.5k
views
Two different methods for calculating p-value?!
p-value
pathway
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
0
votes
4
replies
1.6k
views
Oncomir database needed!
oncomir
miRNA
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
1
vote
2
replies
1.7k
views
List of involved genes in a specific disease
disease
gene-names
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
4
votes
6
replies
4.4k
views
Mapping genome regions to gene symbols in two ways get weird results
BiomaRt
genome-region
Homo.sapiens
R
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
4
votes
2
replies
4.0k
views
CNV data from TCGA
CNV
TCGA
updated 15 months ago by
Ram
43k • written 8.9 years ago by
Na Sed
▴ 310
0
votes
0
replies
2.5k
views
Steps to process CNV level 3 files from TCGA database
TCGA
CNV
updated 21 months ago by
Ram
43k • written 9.0 years ago by
Na Sed
▴ 310
14
votes
2
replies
5.3k
views
Mapping genome region to gene symbols in CNV files from TCGA
R
CNV
Gene symbols
genome region
updated 21 months ago by
Ram
43k • written 9.0 years ago by
Na Sed
▴ 310
2
votes
1
reply
1.6k
views
Grouping\Clustering miRNAs in non-overlapped groups
microRNA
clustering
updated 22 months ago by
Ram
43k • written 9.0 years ago by
Na Sed
▴ 310
2
votes
1
reply
3.2k
views
Installing BioGrid Plug-in 2.0 for Cytoscape 3.2.1
BioGrid
Cytoscape
JAR files
updated 22 months ago by
Ram
43k • written 9.1 years ago by
Na Sed
▴ 310
0
votes
2
replies
1.5k
views
What is the best method for selecting significant genes in one class expression profiles?
significance analysis
gene expression
updated 22 months ago by
Ram
43k • written 9.1 years ago by
Na Sed
▴ 310
9
votes
6
replies
7.5k
views
Batch ID in TCGA database
Batch-effect
TCGA
R
updated 22 months ago by
Ram
43k • written 9.1 years ago by
Na Sed
▴ 310
1
vote
1
reply
3.5k
views
Selecting group of genes using sparse group lasso and CVX package in MATLAB
MATLAB
CVX
sparse group lasso
9.1 years ago by
Na Sed
▴ 310
8
votes
4
replies
5.0k
views
Is there anyway to get BioGrid gene interaction network automatically using R?
BioGrid gene interaction network
R
updated 23 months ago by
Ram
43k • written 9.1 years ago by
Na Sed
▴ 310
2
votes
1
reply
4.9k
views
Design matrix and contrast
Gene-set-analysis
Limma
ROAST
updated 23 months ago by
Ram
43k • written 9.1 years ago by
Na Sed
▴ 310
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