User: Ron
Ron • 950
- Reputation:
- 950
- Status:
- Trusted
- Location:
- United States
- Last seen:
- 6 hours ago
- Joined:
- 5 years, 5 months ago
- Email:
- r*********@yahoo.co.in
about me
Posts by Ron
<prev
• 318 results •
page 1 of 32 •
next >
0
votes
0
answers
111
views
0
answers
... Hi,
I am trying to visualize gene fusions from RNAseq data in IGV, that is detected by gene fusion software STAR-fusion and Fusion catcher.
Does anybody know of steps to do this?
I always find it complex to how to color,sort, group the reads so as to visualize the gene fusion.
This post is informa ...
written 12 days ago by
Ron • 950
0
votes
2
answers
5.1k
views
2
answers
... STAR + featurecount/htseq-count is a very good pipeline to use. ...
written 5 weeks ago by
Ron • 950
1
vote
3
answers
287
views
3
answers
... Also EBseq.
http://bioconductor.org/packages/release/bioc/html/EBSeq.html
It provides different possible patterns between multiple conditions. ...
written 7 weeks ago by
Ron • 950
0
votes
1
answer
144
views
1
answers
Comment:
C: Drugs targeting Gene Fusions
... So it is best to look at drug interactions with the gene fusion themselves ? I mean , A drug that would work for lets say ERBB2--CDK12 fusion would not work for ERBB2--PGAP3 fusion ? Or it can be considered druggable , based on how the gene fusion product is ?
On the contrary, it seems NTRK fusion ...
written 9 weeks ago by
Ron • 950
1
vote
1
answer
144
views
1
answer
... Hello ,
I wanted to know if gene fusions from RNAseq data can be said druggable based on one of the genes being druggable or it has to be druggable as a fusion ?
I would like to look into the drugs that bind to the genes from fusions,so which one would be the right way to look into the data.
This ...
0
votes
3
answers
23k
views
3
answers
... hello @Malachi Does this database (http://dgidb.org/downloads ) includes information from the resources listed above? or could you provide info on how it was created ? I read this page and http://dgidb.org/getting_started "drug-gene interactions have been mined from DrugBank, therapeutic target da ...
written 10 weeks ago by
Ron • 950
0
votes
1
answer
284
views
1
answers
... I posted the link to the data and the paper. ...
written 12 weeks ago by
Ron • 950
5
votes
1
answer
284
views
5 follow
1
answer
... Hi all,
Does somebody know which package can be used for plots like this?
> The dot plots illustrates the number of detected fusion transcripts per megabase per sample normalized by the sequencing coverage. Tumor types were sorted according to the fraction of samples with fusions.
I am tryi ...
3
votes
3
answers
2.8k
views
3
answers
... For extracting the clusters based on Columns.(ComplexHeatmaps)
mat = matrix(rnorm(80, 2), 8, 10)
mat = rbind(mat, matrix(rnorm(40,-2), 4, 10))
rownames(mat) = letters[1:12]
colnames(mat) = letters[1:10]
HM <- Heatmap(mat, km=3 , column_km = 3) HM
for (i in 1:len ...
written 3 months ago by
Ron • 950
0
votes
0
answers
207
views
0
answers
... A follow up question - I also want to count the percentage of UTR's ,exons in my bed file ,so the way would be downloading a bed file for both of them separately(UTR's ,exons) and doing the intersect with the complete bed file of interest? ...
written 4 months ago by
Ron • 950
Latest awards to Ron
Student
5 weeks ago,
asked a question with at least 3 up-votes.
For GSEA Preranked analysis on RNA-SEQ
Great Question
5 weeks ago,
created a question with more than 5,000 views.
For GSEA Preranked analysis on RNA-SEQ
Popular Question
5 weeks ago,
created a question with more than 1,000 views.
For Working with human database in Kraken
Popular Question
8 weeks ago,
created a question with more than 1,000 views.
For Working with human database in Kraken
Popular Question
9 weeks ago,
created a question with more than 1,000 views.
For Working with human database in Kraken
Great Question
3 months ago,
created a question with more than 5,000 views.
For GSEA Preranked analysis on RNA-SEQ
Teacher
3 months ago,
created an answer with at least 3 up-votes.
For A: pca analysis for differential gene expression data of microarray samples of simi
Scholar
3 months ago,
created an answer that has been accepted.
For A: How to import huge .csv files in R studio?
Great Question
3 months ago,
created a question with more than 5,000 views.
For GSEA Preranked analysis on RNA-SEQ
Epic Question
3 months ago,
created a question with more than 10,000 views.
For GSEA Preranked analysis on RNA-SEQ
Popular Question
6 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
7 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
8 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Great Question
8 months ago,
created a question with more than 5,000 views.
For GSEA Preranked analysis on RNA-SEQ
Popular Question
8 months ago,
created a question with more than 1,000 views.
For Working with human database in Kraken
Student
8 months ago,
asked a question with at least 3 up-votes.
For GSEA Preranked analysis on RNA-SEQ
Popular Question
9 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
10 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
11 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Student
11 months ago,
asked a question with at least 3 up-votes.
For GSEA Preranked analysis on RNA-SEQ
Popular Question
12 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
13 months ago,
created a question with more than 1,000 views.
For Add annotations of X or Y labels in ggplot barplot
Popular Question
13 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Popular Question
13 months ago,
created a question with more than 1,000 views.
For Validating Predictions Of Small Insertions / Deletions
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 921 users visited in the last hour