User: Prateek
Prateek • 1000
- Reputation:
- 1,000
- Status:
- Trusted
- Location:
- Boston, MA
- Last seen:
- 4 years, 1 month ago
- Joined:
- 7 years, 4 months ago
- Email:
- p******@gmail.com
Bioinformatics Engineer
Posts by Prateek
<prev
• 54 results •
page 1 of 6 •
next >
1
vote
0
answers
682
views
0
answers
... Hi
Does COSMIC database has ploidy information for samples / variants in their database? Can anyone suggest a way to obtain that?
Thanks
...
written 4.1 years ago by
Prateek • 1000
0
votes
1
answer
1.3k
views
1
answers
... See NextBio: http://www.nextbio.com - use their curated studies tab at the top and enter your search query. You can apply filters / check attributes like GWAS studies etc. using advanced option - or you can download all and then manually select those directly relevant. for example, prostate cancer y ...
written 5.6 years ago by
Prateek • 1000
1
vote
2
answers
5.7k
views
2
answers
... TCGA hosts canacer sequencing data: https://tcga-data.nci.nih.gov/tcga/
COSMIC again is a database of cancer mutations but also includes those identified as germline mutations: http://www.sanger.ac.uk/genetics/CGP/cosmic/biomart/martview/ ...
written 6.0 years ago by
Prateek • 1000
0
votes
0
answers
926
views
0
answers
... I am trying to configure a portal using biomart 0.8 release and want to set some attributes as checked by default in the interface (for example, the way in which ensembl biomart has transcript ID , gene ID already checked in attributes->features).
martconfigurator (portal view) has a "default" p ...
written 6.0 years ago by
Prateek • 1000
1
vote
1
answer
1.8k
views
1
answers
... This paper describes Ensembl's variation schema and API. http://www.biomedcentral.com/1471-2105/11/238
You could also set up a local version of ensembl biomart's variation database and use its API to populate it with your own variation data. ...
written 6.0 years ago by
Prateek • 1000
0
votes
3
answers
2.3k
views
3
answers
... @Michael - clustering can be done on 1-d data too, but yes - not sure what biological question it serves in this case. ...
written 6.0 years ago by
Prateek • 1000
0
votes
20
answers
28k
views
20
answers
... Great work Brad - I was wondering if you plan to add functionality for being able to create capture and capture pools from libraries to be transferred into individual lanes. Am I right that this is not there yet or did I miss it? ...
written 6.1 years ago by
Prateek • 1000
61
votes
8
answers
17k
views
30 follow
8
answers
... Do you know of any CNV detection tools for NGS paired-end exome data - coverage method (window based) or paired-end mapping method (clustering based)?
I am aware its a tough problem to solve and have looked at some tools for whole genome but couldn't find one for exome.
I would also welcome discus ...
0
votes
4
answers
6.2k
views
4
answers
Comment:
C: Predicted Impact Of Indels?
... nice alternative to ANNOVAR ...
written 6.6 years ago by
Prateek • 1000
0
votes
2
answers
3.6k
views
2
answers
... @Chris - you were right. A lot of them are from dbSNP. However, I still need to find out how and why so many of them can be tolerated in a single individual! ...
written 6.6 years ago by
Prateek • 1000
Latest awards to Prateek
Guru
4.1 years ago,
received more than 100 upvotes.
Supporter
4.1 years ago,
voted at least 25 times.
Good Question
6.5 years ago,
asked a question that was upvoted at least 5 times.
For What Are The 'Copy Number Detection' Tools Out There For Exome Capture Ngs Data.
Student
6.7 years ago,
asked a question with at least 3 up-votes.
For How Many Is Too Many? Germline And Somatic Coding Indels And Snps In Cancer Exome Capture.
Teacher
7.4 years ago,
created an answer with at least 3 up-votes.
For A: The Best Question To Ask In A Bioinformatics Seminar
Appreciated
7.4 years ago,
created a post with more than 5 votes.
For A: The Best Question To Ask In A Bioinformatics Seminar
Good Answer
7.4 years ago,
created an answer that was upvoted at least 5 times.
For A: The Best Question To Ask In A Bioinformatics Seminar
Popular Question
7.4 years ago,
created a question with more than 1,000 views.
For How To Obtain Chromosome Locus From Coordinates
Appreciated
7.4 years ago,
created a post with more than 5 votes.
For A: How To Run Clustalw Using Commands From An Input File
Good Answer
7.4 years ago,
created an answer that was upvoted at least 5 times.
For A: How To Run Clustalw Using Commands From An Input File
Teacher
7.4 years ago,
created an answer with at least 3 up-votes.
For A: How To Run Clustalw Using Commands From An Input File
Good Question
7.4 years ago,
asked a question that was upvoted at least 5 times.
For Algorithms Predicting Effects Of Snps / Aa Substitution On Protein
Student
7.4 years ago,
asked a question with at least 3 up-votes.
For Algorithms Predicting Effects Of Snps / Aa Substitution On Protein
Appreciated
7.4 years ago,
created a post with more than 5 votes.
For Algorithms Predicting Effects Of Snps / Aa Substitution On Protein
Popular Question
7.4 years ago,
created a question with more than 1,000 views.
For Algorithms Predicting Effects Of Snps / Aa Substitution On Protein
Student
7.4 years ago,
asked a question with at least 3 up-votes.
For What Is More Relevant In Bioinformatics: Databases Or Algorithms
Popular Question
7.4 years ago,
created a question with more than 1,000 views.
For What Is More Relevant In Bioinformatics: Databases Or Algorithms
Teacher
7.4 years ago,
created an answer with at least 3 up-votes.
For A: Getting Watson Snps From Biomart
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1096 users visited in the last hour