Limit : all time
all time today this week this month this year
486 results • Page 1 of 10
Sort: Rank
Rank Views Votes Replies
Filtering for tag: cancer • reset
0
votes
1
reply
450
views
Where to download raw counts (RNAseq) and breakpoints coordinates (cancer related) for testing?
cancer rawcounts(RNAseq) breakpoint downloaddata
updated 9 days ago by 72k • written 18 days ago by ▴ 910
1
vote
2
replies
987
views
Interpretation of functional prediction pathogenicity scores regarding variants with multiple transcripts in ANNOVAR
annovar pathogenicity cancer CADD
8 days ago by svlachavas ▴ 730
0
votes
0
replies
80
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
ppi cancer networks genomics
14 days ago by martin.schaefer ▴ 10
0
votes
0
replies
137
views
Job: Cancer Bioinformatician @ University of East Anglia - Norwich Medical School UK
uk cancer postdoc
19 days ago by dan.brewer ▴ 120
4
votes
2
replies
371
views
Extracting specific cancer types from MAF (Mutation Annotation Format) files from TCGA(The Cancer Genome Atlas)
ENCODE mutation maf TCGA cancer
21 days ago by peter ▴ 10
13
votes
10
replies
4.5k
views
Tool: Arriba: Fast and accurate gene fusion detection from RNA-Seq data
RNA-Seq cancer variant calling gene fusion Tool
24 days ago by uhrigs ▴ 130
0
votes
0
replies
257
views
Job: PhD student in precision cancer bioinformatics | Charite, Berlin, Germany
cancer ngs berlin clinical precision Job
28 days ago by naveed.ishaque • 0
0
votes
0
replies
90
views
A database of cancer super-enhancers
ChIP-Seq super-enhancers cancer
28 days ago by MoHallal • 0
10
votes
2
replies
763
views
Tutorial: Methylation Analysis Tutorial in R_part2
methylation RNA-Seq R cancer Tutorial
4 weeks ago by Hamid Ghaedi ★ 1.3k
0
votes
0
replies
88
views
Looking for VCF files and clinical data for cancer (prostate or cll or breast)
vcf cancer somatic mutations access to data
4 weeks ago by ansakim20 • 0
0
votes
0
replies
95
views
Finding mutational burden in TCGA dataset
genome python UTR tcga cancer
5 weeks ago by Jamie Watson • 0
13
votes
0
replies
2.8k
views
Tutorial: Methylation Analysis Tutorial in R_part1
methylation cancer R Tutorial
5 weeks ago by Hamid Ghaedi ★ 1.3k
0
votes
0
replies
94
views
METABRIC sample IDs
METABRIC sample cancer mRNA ID
7 weeks ago by Sylvia • 0
2
votes
4
replies
125
views
where to find cancer data
SNP cancer next-gen data fastq
updated 8 weeks ago by 47k • written 8 weeks ago by • 0
2
votes
3
replies
135
views
VEP for cancer annotation using COSMIC
VEP COSMIC Cancer
updated 8 weeks ago by 22k • written 8 weeks ago by ▴ 30
0
votes
5
replies
189
views
development of NGS pipeline for variant calling in lung cancer
cancer NGS pipeline snp next-gen
updated 8 weeks ago by ▴ 30 • written 8 weeks ago by • 0
0
votes
0
replies
118
views
Calling UTRs in TCGA dataset
TCGA cancer UTR ORF
10 weeks ago by Jamie Watson • 0
6
votes
11
replies
5.5k
views
9 follow
RNAseq data and PAM50 method
rna-seq PAM50 Breast Cancer unsupervised
updated 11 weeks ago by 20 • written 6.9 years ago by ▴ 20
25
votes
23
replies
11k
views
14 follow
Anyone Has A Working Example On How To Run BROAD's ABSOLUTE On Exome Sequencing Data?
cancer exome-sequencing copynumber
updated 3 months ago by • 0 • written 7.2 years ago by ★ 3.0k
16
votes
2
replies
5.4k
views
Job: Open positions at the Center for Molecular Oncology, MSKCC, New York
python R cancer genetics sequencing Job
3 months ago by Cyriac Kandoth 5.5k
8
votes
4
replies
241
views
Pathway analysis of a list of possible cancer driver genes
pathway analysis cancer driver genes
updated 3 months ago by 72k • written 3 months ago by ▴ 190
0
votes
0
replies
169
views
Correcting variant allele fraction using tumor purity (experimentally measured)
variant calling sequencing cancer SNP next-gen
3 months ago by Luca Beltrame ▴ 220
0
votes
0
replies
492
views
Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
cancer bioinformatics postdoc biomarkers Job
3 months ago by dan.brewer ▴ 120
1
vote
2
replies
1.4k
views
targeted bam file from database for breast cancer
ngs cancer targeted
updated 3 months ago by 20 • written 3.6 years ago by ▴ 180
0
votes
0
replies
394
views
Job: FDA Postdoctoral Research Fellowship To Quantify Hotspot Myeloid Neoplasm Associated Mutations in Blood by EC-NGS
sequencing next-gen gene mutation cancer Job
4 months ago by meagan.myers • 0
70
votes
13
replies
11k
views
12 follow
Tutorial: Exploring cancer mutation data portals
Cancer Data Portal Mutation TCGA ICGC Tutorial
4 months ago by Malachi Griffith 18k
2
votes
0
replies
216
views
Tool: driveR - Prioritizing Cancer Driver Genes Using Genomics Data
driver R cancer driver gene Tool
4 months ago by egeulgen ★ 1.1k
0
votes
0
replies
522
views
Job: Staff Scientist, Ph.D., or Postdoctoral Position in Bioinformatics
RNA-Seq ChIP-Seq Cancer Epigenetics CRISPR Job
5 months ago by Gjain 5.6k
3
votes
0
replies
342
views
Job: Postdoctoral Data Scientist @ Oxford University, UK
cancer postdoc machine learning Job
5 months ago by dan.brewer ▴ 120
0
votes
3
replies
707
views
Job: Master internship in bioinformatics: Inference of single-cell miRNA-seq data in cancer (to be followed by PhD)
miRNA single cell RNA-seq R cancer Job
updated 5 months ago by • 0 • written 6 months ago by ▴ 40
4
votes
1
reply
335
views
Forum: Help with Bioinformatics Course
cancer Forum
written 6 months ago by • 0
0
votes
1
reply
581
views
Log Transformation of Raw data before Robust Z-score analysis
cells Z scores statistics Robust Z-scores cancer
updated 5 months ago by 11k • written 5 months ago by • 0
24
votes
0
replies
1.4k
views
Tutorial: Resources / databases for clinical interpretation of cancer variants
variant interpretation annotation clinical cancer Tutorial
6 months ago by Malachi Griffith 18k
133
votes
21
replies
60k
views
18 follow
Database Of Tumor Suppressors And/Or Oncogenes
cancer gene database oncogene tumor
6 months ago by Malachi Griffith 18k
8
votes
6
replies
2.9k
views
Problem Analyzing Tumor-Normal Pairs With Varscan
varscan cancer samtools next-gen
updated 6 months ago by 20 • written 8.7 years ago by ▴ 250
0
votes
0
replies
200
views
Efficiently obtaining genomic transcript levels of thousands of patient samples by cancer types
cancer RNA-Seq
6 months ago by theodore.killian ▴ 20
0
votes
4
replies
285
views
Which transcriptome assembler is recommended for short-read cancer transcriptome data?
assembly short-read RNA-Seq cancer
7 months ago by Benedek Dankó ▴ 10
5
votes
4
replies
298
views
Getting started in a career in Bioinformatics
Genomics Population data analysis Cancer
7 months ago by Anna Toussaint ▴ 20
1
vote
0
replies
185
views
How to extract list of proteins delectable by immune histochemistry?
Immune Histochemistry IHC detection cancer
8 months ago by svp ▴ 420
0
votes
0
replies
307
views
Gene copy number Alteration Interpretation
purple CNA WGS Cancer
updated 9 months ago by 20 • written 10 months ago by ▴ 130
0
votes
2
replies
224
views
Combining normal+tumor fastq files to make a diluted tumor sample
matchedNormal tumor cancer fastq dilution
9 months ago by noshadho ▴ 10
0
votes
0
replies
597
views
Job: Postdoctoral Researcher in Cancer Biology and Genomics (Boston)
Genomics Cancer Spatial Single-Cell R Job
9 months ago by rubendries ▴ 10
2
votes
0
replies
583
views
Job: Senior Postdoc/Bioinformatician Research Fellow @ UEA, Norwich, UK - NEW DEADLINE
postdoc cancer Job
9 months ago by dan.brewer ▴ 120
1
vote
2
replies
223
views
censoring time for ICGC records with no followup or date of death?
icgc survival cancer
9 months ago by mk ▴ 190
0
votes
0
replies
216
views
Aggregation and analysis of MAF files
maf cancer genomics R
9 months ago by weisekyle • 0
0
votes
0
replies
300
views
KEGG pathway for esophageal cancer and liver cancer
kegg escc liver cancer
updated 10 months ago by 20 • written 15 months ago by ★ 8.6k
0
votes
1
reply
460
views
Co-expression analysis of single cell RNA seq data to identify pathway associations
RNA-Seq R co-expression cancer
updated 10 months ago by 72k • written 10 months ago by • 0
2
votes
6
replies
541
views
I need help with some explanation
cancer WGS VAF evolution
updated 10 months ago by 20 • written 11 months ago by ★ 3.9k
1
vote
1
reply
1.9k
views
Rna-Seq Cancer Cell Line, Hg19 Or Cancer Cell Line Genome?
rna-seq hg19 cancer
updated 10 months ago by 20 • written 7.0 years ago by ★ 2.4k
1
vote
6
replies
446
views
Conversion of Vep.vcf to MAF format?
cancer vep maf snp genome
10 months ago by Thind amarinder ▴ 130
486 results • Page 1 of 10
Recent Votes
C: how to choose hub genes in wgcna
C: Variant Calls: Freebayes vs GATK
C: Variant Calls: Freebayes vs GATK
A: FreeBayes vs GATK's HaplotypeCaller
Comment: why my volcano plot looks strange?
Answer: What Tools/Libraries Do You Use To Visualize Genomic Feature Data?
Answer: How to get GO terms to specific to perticular biological process
Recent Locations • All
Argentina, just now
University Park, USA, 1 minute ago
Mo I Rana, 2 minutes ago
Lithuania, 2 minutes ago
Norway, 3 minutes ago
Spain, 3 minutes ago
India, 4 minutes ago
Recent Awards • All
Scholar to JC 12k
Commentator to 5heikki 9.7k
Scholar to bernatgel ★ 2.9k
Scholar to Joe 19k
Scholar to Devon Ryan 98k
Scholar to igor 12k
Appreciated to Jean-Karim Heriche 24k
Recent Replies
Comment: FreeBayes vs GATK's HaplotypeCaller by cicindel ▴ 70
I think file size, based on the following sentence.
Comment: How to perform multiple alignment using MAFFT? by Ram 32k
I don't see `GENE` being assigned values, so I'm guessing there is yet another loop wrapping the code above. Write the value of `GENE` to s…
Comment: What Tools/Libraries Do You Use To Visualize Genomic Feature Data? by cicindel ▴ 70
Interesting, I did not think about it like that. Tablet has several colour schemes in the 2nd tab (I think) to visualize different features…
Answer: Trimmomatic-0.36 not finding adapter directory by Istvan Albert 87k
Download the adapters and use them by passing the actual path, existing paths to the adapter file. See the adapters here https://git…
Comment: What Tools/Libraries Do You Use To Visualize Genomic Feature Data? by Istvan Albert 87k
in all fairness, Tablet did not exist when this thread was started. It is quite impressive that Tablet is still operational though, I gave …
Comment: Trimmomatic-0.36 not finding adapter directory by GenoMax 99k
Order of `fastq` file names is important for `trimmomatic`. Make sure that is correct.<br> Does `ls -lh /usr/local/bin/Trimmomatic-0.36/` …
Answer: What Tools/Libraries Do You Use To Visualize Genomic Feature Data? by cicindel ▴ 70
No love for [Tablet][1]? I'm quite surprised to not see it mentioned here. Of course, IGV is the classic, and Tablet is a bit simpler than …
Comment: How to download raw sequence data from GEO/SRA by cicindel ▴ 70
I tried to use the SRA toolkit a few months ago, I succesfully installed it and used `prefetch` to get the data, as per their tutorial, but…
Comment: Concatenating fasta files based on prefix ? by cpad0112 15k
If each group has `._1_1.txt.fa` and the pattern is exactly same as in OP, try this: ls *1_1.txt.fa | while read line; do echo ${line%…
Comment: Bioinformatics startup market analysis by grant.hovhannisyan ★ 2.1k
good luck!
Comment: Bioinformatics startup market analysis by gtechbio ▴ 30
Dear @juanjo75es, thank you for your input. We do agree that NGS data/metadata should be more accessible to public, in part also due to ini…
Comment: Bioinformatics startup market analysis by gtechbio ▴ 30
Dear @grant.hovhannisyan, thank you for the advice. In fact we are already in touch with two local genomics facilities, though as you have …
Answer: No annotation peaks when running homer by geneticatt ▴ 120
Try raising your p-value to make sure that they aren't all just being filtered out by that threshold (which seems pretty low). Edit: I may…
Comment: How to perform multiple alignment using MAFFT? by anikcropscience ▴ 40
It looks like the following: system(paste0("mafft --anysymbol --maxiterate 1000 Alignment_output/",GENE,".fa > ",GENE,".mafft.fa")) GE…
Comment: How to perform multiple alignment using MAFFT? by anikcropscience ▴ 40
Yes, I am using the following loop first in R to process all the files. This is the code that I am running first: blastn.filelist <- s…
Traffic: 2515 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6