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Showing top results for tag: Cancer • reset
2
votes
2
replies
57
views
  which genes causes breast cancer?
Breast Cancer
updated 1 hour ago by 19k • written 2 hours ago by • 0
0
votes
3
replies
256
views
  Identifying samples from COSMIC/cBioportal etc with only a specific driver mutation
cancer bioinformatics genomics
updated 6 days ago by ▴ 390 • written 8 days ago by • 0
7
votes
3
replies
242
views
  How to make a summary plot like below?
cancer classes Oncoplots
updated 11 days ago by ▴ 50 • written 13 days ago by • 0
0
votes
0
replies
70
views
  How to merge the mutations from multiple samples of one patient
MutSig2CV_NC MutSig2CV cancer mutation merge
13 days ago by Rongxin ▴ 30
20
votes
1
reply
3.4k
views
Tutorial:  Methylation Analysis Tutorial in R_part1
Tutorial cancer methylation R
updated 16 days ago by ▴ 30 • written 8 months ago by ★ 1.5k
0
votes
0
replies
169
views
Tool:  Help solve the cancer puzzle & benefit your research! SimBioSys PhenoScope for integrative multi-modal and multi-omic data analytics
multi-modal multi-omic breast analytics cancer imaging
19 days ago by johnpfeiffer • 0
0
votes
1
reply
129
views
  Important genes beyond PAM50 for breast cancer classification
genes cancer deeplearning classification pam50
21 days ago by udi • 0
0
votes
0
replies
116
views
Tool:  SimBioSys PhenoScope - a cloud-based multi-modal multi-omic data analytics platform for oncology researchers
cloud-based analytic cancer multi-modal multi-omic
21 days ago by johnpfeiffer • 0
0
votes
0
replies
124
views
Job:  Senior Staff Bioinformatician at the University of Melbourne Centre for Cancer Research
cancer genomics
6 weeks ago by Oliver • 0
1
vote
0
replies
148
views
Job:  Computational Biology Lab Head, Brain Cancer Centre, Melbourne, Australia
cancer wehi australia
6 weeks ago by Gordon Smyth ★ 2.7k
3
votes
2
replies
278
views
  Is anticancer action of HDAC inhibitors - cancer cells specific or it may cause death to other cell types ?
cancer
updated 7 weeks ago by 24k • written 8 weeks ago by • 0
0
votes
0
replies
167
views
Job:  Group Leader Computational Cancer Biology - VIB-KU Leuven, Belgium
vib groupleader cancer biology computational
7 weeks ago by leen.notebaert • 0
3
votes
2
replies
294
views
  Contradiction in Harzard ratio and Log fold change
Foldchange Cancer HR HarzardRatio LogFC
8 weeks ago by Mran ▴ 30
0
votes
4
replies
344
views
  How to plot a image like this.
plot Bioinformatics Cancer R Genome
8 weeks ago by lincaijin1994 • 0
0
votes
1
reply
528
views
  Where to download raw counts (RNAseq) and breakpoints coordinates (cancer related) for testing?
cancer rawcounts(RNAseq) breakpoint downloaddata
updated 10 weeks ago by 74k • written 11 weeks ago by ▴ 910
1
vote
2
replies
1.1k
views
  Interpretation of functional prediction pathogenicity scores regarding variants with multiple transcripts in ANNOVAR
annovar pathogenicity cancer CADD
10 weeks ago by svlachavas ▴ 740
0
votes
0
replies
157
views
Job:  Postdoc in computational cancer biology at IEO, Milan, Italy
ppi cancer networks genomics
10 weeks ago by martin.schaefer ▴ 10
0
votes
0
replies
230
views
Job:  Cancer Bioinformatician @ University of East Anglia - Norwich Medical School UK
uk cancer postdoc
11 weeks ago by dan.brewer ▴ 120
4
votes
2
replies
478
views
  Extracting specific cancer types from MAF (Mutation Annotation Format) files from TCGA(The Cancer Genome Atlas)
ENCODE mutation maf TCGA cancer
12 weeks ago by peter ▴ 10
13
votes
10
replies
4.8k
views
Tool:  Arriba: Fast and accurate gene fusion detection from RNA-Seq data
RNA-Seq cancer variant calling gene fusion Tool
12 weeks ago by uhrigs ▴ 130
0
votes
0
replies
406
views
Job:  PhD student in precision cancer bioinformatics | Charite, Berlin, Germany
cancer ngs berlin clinical precision Job
3 months ago by naveed.ishaque • 0
0
votes
0
replies
131
views
  A database of cancer super-enhancers
ChIP-Seq super-enhancers cancer
3 months ago by MoHallal • 0
14
votes
2
replies
964
views
Tutorial:  Methylation Analysis Tutorial in R_part2
methylation RNA-Seq R cancer Tutorial
3 months ago by Hamid Ghaedi ★ 1.5k
0
votes
0
replies
121
views
  Looking for VCF files and clinical data for cancer (prostate or cll or breast)
vcf cancer somatic mutations access to data
3 months ago by ansakim20 • 0
0
votes
0
replies
118
views
  Finding mutational burden in TCGA dataset
genome python UTR tcga cancer
3 months ago by Jamie Watson • 0
0
votes
0
replies
129
views
  METABRIC sample IDs
METABRIC sample cancer mRNA ID
3 months ago by Sylvia • 0
2
votes
4
replies
158
views
  where to find cancer data
SNP cancer next-gen data fastq
updated 4 months ago by 50k • written 4 months ago by • 0
2
votes
3
replies
260
views
  VEP for cancer annotation using COSMIC
VEP COSMIC Cancer
updated 4 months ago by 22k • written 4 months ago by ▴ 40
0
votes
5
replies
237
views
  development of NGS pipeline for variant calling in lung cancer
cancer NGS pipeline snp next-gen
updated 4 months ago by ▴ 30 • written 4 months ago by • 0
0
votes
0
replies
157
views
  Calling UTRs in TCGA dataset
TCGA cancer UTR ORF
4 months ago by Jamie Watson • 0
6
votes
11
replies
5.6k
views
9 follow
  RNAseq data and PAM50 method
rna-seq PAM50 Breast Cancer unsupervised
updated 4 months ago by 20 • written 7.0 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 5 months ago by • 0 • written 7.4 years ago by ★ 3.0k
16
votes
2
replies
5.5k
views
Job:  Open positions at the Center for Molecular Oncology, MSKCC, New York
python R cancer genetics sequencing Job
5 months ago by Cyriac Kandoth 5.6k
8
votes
4
replies
295
views
  Pathway analysis of a list of possible cancer driver genes
pathway analysis cancer driver genes
updated 5 months ago by 74k • written 5 months ago by ▴ 200
0
votes
0
replies
208
views
  Correcting variant allele fraction using tumor purity (experimentally measured)
variant calling sequencing cancer SNP next-gen
5 months ago by Luca Beltrame ▴ 220
0
votes
0
replies
522
views
Job:  Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
cancer bioinformatics postdoc biomarkers Job
5 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 6 months ago by 20 • written 3.7 years ago by ▴ 180
0
votes
0
replies
439
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
6 months ago by meagan.myers • 0
71
votes
13
replies
12k
views
12 follow
Tutorial:  Exploring cancer mutation data portals
Cancer Data Portal Mutation TCGA ICGC Tutorial
6 months ago by Malachi Griffith 19k
2
votes
0
replies
248
views
Tool:  driveR - Prioritizing Cancer Driver Genes Using Genomics Data
driver R cancer driver gene Tool
6 months ago by egeulgen ★ 1.1k
0
votes
0
replies
567
views
Job:  Staff Scientist, Ph.D., or Postdoctoral Position in Bioinformatics
RNA-Seq ChIP-Seq Cancer Epigenetics CRISPR Job
7 months ago by Gjain 5.6k
3
votes
0
replies
380
views
Job:  Postdoctoral Data Scientist @ Oxford University, UK
cancer postdoc machine learning Job
7 months ago by dan.brewer ▴ 120
0
votes
3
replies
762
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 7 months ago by • 0 • written 8 months ago by ▴ 40
4
votes
1
reply
367
views
Forum:  Help with Bioinformatics Course
cancer Forum
written 8 months ago by • 0
0
votes
1
reply
771
views
  Log Transformation of Raw data before Robust Z-score analysis
cells Z scores statistics Robust Z-scores cancer
updated 8 months ago by 12k • written 8 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
8 months ago by Malachi Griffith 19k
134
votes
21
replies
60k
views
18 follow
  Database Of Tumor Suppressors And/Or Oncogenes
cancer gene database oncogene tumor
8 months ago by Malachi Griffith 19k
8
votes
6
replies
2.9k
views
  Problem Analyzing Tumor-Normal Pairs With Varscan
varscan cancer samtools next-gen
updated 8 months ago by 20 • written 8.8 years ago by ▴ 250
0
votes
0
replies
230
views
  Efficiently obtaining genomic transcript levels of thousands of patient samples by cancer types
cancer RNA-Seq
8 months ago by theodore.killian ▴ 20
0
votes
4
replies
322
views
  Which transcriptome assembler is recommended for short-read cancer transcriptome data?
assembly short-read RNA-Seq cancer
9 months ago by Benedek Dankó ▴ 10
50 results • Page 1 of 1
Recent Votes
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to
The Biostar Herald for Tuesday, June 15, 2021
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to
When comparing gene expression in different species, should I assemble separate transcriptomes for each species?
A: Changing the record id in a FASTA file using BioPython
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Recent Replies
Answer: How to associate a gene to one general function? by drew.b.ferrell ▴ 40
I cannot find those terms in this package at least. I think you best bet is to map genes from the REVIGO web-tool output. I'm confused w…
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to by i.sudbery 12k
More or less, yes. There does come a point where gene expression is so low as to be indistinguishable from genomic contamination/transcript…
Answer: PSMC: fq2psmc conversion problems by Darija • 0
I seem to have the same issue. My fq.gz looks normal but mu psmcfa file contains only 1 small scaffold. Has anyone been able to solve th…
Answer: When comparing gene expression in different species, should I assemble separate by i.sudbery 12k
You've got something of a dilemma here. Almost all common DGE approaches rely on the assumption that any gene specific factors influenc…
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to by gundalav ▴ 330
@i.sudbery Thanks. So in short, any talk about gene expression is only meaningful in context of relative difference among samples (e.g. S1 …
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to by gundalav ▴ 330
@Jean-KarimHeriche Thanks. So in short, any talk about gene expression is only meaningful in context of relative difference among samples (…
Answer: How to associate a gene to one general function? by Francois Piumi ▴ 10
Thanks @drew.b.ferrell for your help. I have 258 genes to submit to REVIGO and I don't want to submit them one by one. Output of rrvgo seem…
Comment: How to associate a gene to one general function? by drew.b.ferrell ▴ 40
edit: Can you not download the reduced go terms from the REVIGO web-tool and map them to genes after? Am I maybe not understanding what …
Answer: snakemake job status monitoring by Eugene A ▴ 110
Some additions, which might be helpfull for someone - it seems that the only way to detect failed jobs in snakemake and automatically keep …
Comment: directionality of RRBS by Papyrus ▴ 920
RRBS M-bias plots in general look strange. Check out these answers by the author: [one][1] (where he does not recommend ignoring any more p…
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to by i.sudbery 12k
Here are just two ways: Example 1: Gene 1 is present at 1 copy per cell, but each mRNA copy makes 1000 protein molecules. Gene 2 is prese…
Comment: Are there any statistical method is suitable to solve by a661881 • 0
Hi, Dondrup Thanks for your clearly code, It really provide a feasible way to filter significate genes, although it may seems to be less p…
Comment: How to associate a gene to one general function? by Francois Piumi ▴ 10
I'm sorry but that's absolutely not what I asked. I don't want an enrichment analysis, there's already tons of software to do this. I w…
Comment: How to determine reasonable expression threshold for of a gene from scRNAseq to by ATpoint 50k
> Does your statement imply that even Gene1 that has magnitude lower expression than Gene2, they could be equally biologically significant?…
Answer: How to associate a gene to one general function? by drew.b.ferrell ▴ 40
There is an R package: http://www.bioconductor.org/packages/release/bioc/vignettes/rrvgo/inst/doc/rrvgo.html
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