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1
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2
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1.3k
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Transcript feature coverage with coverage of each feature shown like e.g. UTR's CDS, exons etc
rseqc
updated 21 months ago by ▴ 200 • written 2.7 years ago by ▴ 440
0
votes
0
replies
521
views
RNA secondary structure for GRCH38 transcriptome
dot-bracket-notation human RNA-secondary-structure GRCH38
23 months ago by Saad Khan ▴ 440
5
votes
3
replies
2.7k
views
How to visualize the co-occupancy of one set of genomic data with another.
TFBS methylation co-occupancy Histone
updated 3.7 years ago by 45k • written 11.0 years ago by ▴ 440
0
votes
0
replies
1.3k
views
Is it possible to introduce mutations (SNV/Indels) in precomputed lastz alignments
FastaAlternateReferenceMaker lastz pairwise_align
6.2 years ago by Saad Khan ▴ 440
0
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2
replies
1.8k
views
Merging variant calls of whole exome and RNA-seq
GATK RNA-seq variants indels SNVs
updated 6.7 years ago by ▴ 260 • written 6.7 years ago by ▴ 440
1
vote
4
replies
2.2k
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Negative dataset selection
machine-learning sequence classification RNA DNA
6.8 years ago by Saad Khan ▴ 440
0
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1
reply
4.1k
views
How to do gene enrichment analysis using only GO-slim terma
GO-slim gene enrichment
updated 7.0 years ago by ▴ 90 • written 9.1 years ago by ▴ 440
0
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1
reply
1.8k
views
Which tool to use to get all citations of a pmid paper?
entrez eutils efetch
updated 7.1 years ago by 35k • written 7.1 years ago by ▴ 440
0
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0
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1.3k
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Tool for generating Physicochemical properties from sequence of RNA/DNA
mRNA DNA Sequence physicochemical properties
7.6 years ago by Saad Khan ▴ 440
0
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3
replies
2.4k
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Most genes with entrez id in KEGG database don't have a pathway assigned. Is there a tool already available that uses textmining to assign pathway to…
kegg reactome keggrest
7.7 years ago by Saad Khan ▴ 440
0
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6
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5.0k
views
Where all can I find Histone Modification data for certain Human and Mouse cells
histone-modification Human Mouse
updated 4.6 years ago by 45k • written 11.0 years ago by ▴ 440
1
vote
13
replies
4.0k
views
Normalization scheme to use for upstream sequences read count in (Chip-seq histones)
normalization RPKM histones
updated 3.3 years ago by 45k • written 9.8 years ago by ▴ 440
0
votes
2
replies
2.0k
views
Protein protein interaction conservation scores
PPI conservation scores
8.6 years ago by Saad Khan ▴ 440
0
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1
reply
1.9k
views
Cancer data for histone Chip-seq in human and mouse
cancer chip-seq histone GEO SRA
updated 8.7 years ago by ▴ 60 • written 8.7 years ago by ▴ 440
2
votes
4
replies
3.0k
views
Clustering using codon usage similarity
codon usage clustering
updated 8.9 years ago by 20 • written 9.1 years ago by ▴ 440
0
votes
0
replies
1.9k
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What does mm10-minimal mean in encode files
metadata encode mm10-minimal
9.0 years ago by Saad Khan ▴ 440
0
votes
0
replies
1.5k
views
Segment genes into functional subsets
gene ontology functions subsets
9.3 years ago by Saad Khan ▴ 440
1
vote
0
replies
2.1k
views
Top 20% expressed orthologus genes in two species
RNA-seq RPKM FPKM
updated 9.3 years ago by 20 • written 9.4 years ago by ▴ 440
1
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0
replies
1.9k
views
Comparing features of high expression genes vs low expression genes in two species
rpkm gene expression RNA-Seq
9.4 years ago by Saad Khan ▴ 440
1
vote
4
replies
3.5k
views
NIH roadmap epigenomics data Bam files
NIH roadmap-epigenomics
updated 9.4 years ago by ★ 5.2k • written 9.4 years ago by ▴ 440
1
vote
0
replies
1.9k
views
Statistically robust approach of assigning presence or absence of Histone peaks
Histone Peaks cross-species orthologus regions
9.7 years ago by Saad Khan ▴ 440
0
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2
replies
2.5k
views
What are some of the state of the art approaches for prediction of origins of replication in vertebrates
Machine learning ORiC origin of replication
updated 9.7 years ago by 7.8k • written 9.7 years ago by ▴ 440
0
votes
6
replies
3.4k
views
chain files for mouse mm9 to ensembl version 75
bed liftover ucsc chain-files ensembl
updated 3.3 years ago by 45k • written 9.8 years ago by ▴ 440
0
votes
4
replies
5.1k
views
liftover chain files for mouse mm9 to ensembl version 75
lift-over chain-file mm9 ensembl
updated 3.3 years ago by 45k • written 9.8 years ago by ▴ 440
5
votes
5
replies
4.2k
views
Where are the actual transcription factor binding sites located in the CHIP-seq peaks
CHIP-seq-peaks MACS peak-calls TFBS
updated 3.2 years ago by 45k • written 10.1 years ago by ▴ 440
23
votes
8
replies
34k
views
What is the difference between narrow peak, Broad peak and a gapped peak of a chip-seq experiment and is it okay to use all of these regions for dow…
peaks broad gapped chip-seq narrow
updated 3.2 years ago by 45k • written 10.1 years ago by ▴ 440
1
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4
replies
2.7k
views
Can something like this be done in IGV or other better browsers
coverage ggbio exome SNV
updated 3.2 years ago by 45k • written 10.1 years ago by ▴ 440
0
votes
0
replies
2.1k
views
Contact residue map of mutated protein around active sites
pymol chimera active-site contact-map
10.1 years ago by Saad Khan ▴ 440
0
votes
2
replies
1.9k
views
Visualizing multiple average profiles
histones profiles average
updated 3.1 years ago by 45k • written 10.2 years ago by ▴ 440
3
votes
6
replies
5.4k
views
Transcriptional repressors and transcriptional activators
transcription factors chhip-seq RNA-Seq TF binding
updated 3.1 years ago by 45k • written 10.3 years ago by ▴ 440
0
votes
2
replies
2.2k
views
orthologous transcription factors and their binding sites
orthologous-transcription-factors binding-sites
updated 2.9 years ago by 45k • written 10.5 years ago by ▴ 440
0
votes
1
reply
3.4k
views
How does vcf-stats give snp count
vcf snp-count
updated 3.5 years ago by 45k • written 10.5 years ago by ▴ 440
2
votes
2
replies
2.8k
views
Visualizing microRNA expression network
cytoscape expression-network microRNA
updated 2.8 years ago by 45k • written 10.5 years ago by ▴ 440
4
votes
1
reply
2.8k
views
How to combine bisulfite sequencing data with Medip seq and/or MRE-seq
DNA methylation bisulfite-sequencing medipseq
updated 2.8 years ago by 45k • written 10.6 years ago by ▴ 440
1
vote
1
reply
2.2k
views
Known transcription factor binding sites and enhancer locations in Pigs
TFBS enhancer
updated 2.8 years ago by 45k • written 10.5 years ago by ▴ 440
0
votes
1
reply
3.0k
views
How to compare multiple microarray samples of small RNA expression from myeloid tissue with small RNA-seq
myeloid microRNA small-RNA cancer
updated 2.8 years ago by 45k • written 10.5 years ago by ▴ 440
0
votes
3
replies
2.4k
views
Can anova analysis be done on one vs many microRNA count data
microrna anova cancer
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 440
0
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1
reply
2.2k
views
smallRNA-seq data for normal bone marrow in Human
normal small-RNA bonemarrow RNA-Seq
10.6 years ago by Saad Khan ▴ 440
2
votes
2
replies
2.7k
views
Where can I download old NIH research proposals (Ro1 grant)
NIH RO1
updated 10.6 years ago by 27k • written 10.6 years ago by ▴ 440
0
votes
3
replies
2.3k
views
What computational methods exist or have been used in order to study trans-acting elements in molecular biology.
trans-acting genes histones
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 440
2
votes
8
replies
3.1k
views
Differential expression of microRNA with no replicates
RNA-Seq small RNA
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 440
9
votes
30
replies
14k
views
small RNA-seq pipelines
small-RNA-seq pipelines
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 440
0
votes
2
replies
2.7k
views
SRA file looks wierd after conversion to fastq
fastq SRA fastq-dump
updated 3.6 years ago by 45k • written 10.8 years ago by ▴ 440
2
votes
3
replies
2.3k
views
Documenting all available data sets of histone modifications in GEO
GEO Histones SRA e-utils GEO parser
updated 3.6 years ago by 45k • written 10.8 years ago by ▴ 440
0
votes
1
reply
2.4k
views
How much overlap to consider when annotating a region
bed annotation
updated 3.6 years ago by 45k • written 11.0 years ago by ▴ 440
1
vote
1
reply
3.2k
views
ggbio error when autoplot on PTPN11 gene
ggbio tracks plots
updated 3.9 years ago by 45k • written 11.1 years ago by ▴ 440
0
votes
2
replies
2.9k
views
Quick way to find all the TFBS peak data for mouse and Human in GEO
peak GEO TFBS ucsc
updated 3.8 years ago by 45k • written 11.0 years ago by ▴ 440
0
votes
0
replies
2.3k
views
liftover one to one mappings
mapping liftover
updated 3.7 years ago by 45k • written 11.0 years ago by ▴ 440
0
votes
0
replies
2.3k
views
wig file change span from 150 to 300
span-size wig
updated 3.7 years ago by 45k • written 11.0 years ago by ▴ 440
0
votes
2
replies
2.6k
views
Using CEAS with canine methylation data
CEAS dog medip-seq methylation
updated 3.9 years ago by 45k • written 11.1 years ago by ▴ 440
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