User: Sashi Kiran Challa

Reputation:
300
Status:
Trusted
Location:
Portland, Oregon
Last seen:
2 years, 9 months ago
Joined:
8 years, 6 months ago
Email:
c************@gmail.com

Statistical Programmer, Oregon Clinical and Translational Research Institute.

Posts by Sashi Kiran Challa

<prev • 17 results • page 1 of 2 • next >
0
votes
1
answer
1.4k
views
1
answers
Comment: C: strandedness - RNASeq library preparation
... Thanks, Istvan! Very useful links. ...
written 2.9 years ago by Sashi Kiran Challa300
1
vote
1
answer
1.4k
views
1
answer
strandedness - RNASeq library preparation
...   1.        1 --->  =========================                <--- 2 2.        2 --->  =========================                <--- 1 Q1. I came across above representations here on seqanswers. What do these two scenarios tell us about paired end library preparation. Is the 2nd on ...
forum strand rna-seq myposts written 2.9 years ago by Sashi Kiran Challa300 • updated 2.9 years ago by Istvan Albert ♦♦ 77k
0
votes
1
answer
31k
views
1
answers
Comment: C: Minor Allele Frequencies Gwas
... I apologize for that. In the ABC GWAS Study that I mentioned there are around 9000 CEU samples. I was comparing the minor allele obtained for 900000SNPs in this ABC GWAS study with the minor allele obtained for the same 900000SNPs in HapMap 90 CEU samples.There were around 20000 SNPs that did not ma ...
written 7.6 years ago by Sashi Kiran Challa300
0
votes
1
answer
31k
views
1
answers
Comment: C: Minor Allele Frequencies Gwas
... David, Thanks much for your reply. Is it true that the minor allele remains the same for a given SNP for a given population? I am tryin to understand this observation: I took around 900K SNPs and compared "minor alleles" of HapMap CEU samples(90 in number) with an ABC GWA study CEU samples(9K in num ...
written 7.6 years ago by Sashi Kiran Challa300
21
votes
1
answer
31k
views
8 follow
1
answer
Minor Allele Frequencies Gwas
... Could somebody please help me understand: What is the significance of Minor Allele Frequency? how Minor Allele Frequencies are used in GWAS in the selection of SNPs? What does Minor Allele Frequency being zero signify beyond saying that the population is homozygous with dominant allele. Thanks for ...
gwas frequency allele written 7.6 years ago by Sashi Kiran Challa300 • updated 7.6 years ago by David Quigley11k
1
vote
6
answers
8.2k
views
6
answers
Answer: A: How Do I Quantify Divergence Between A Given Set Of Species?
... Please take a look here for building trees using MEGA. http://www.megasoftware.net/m_con_select.html ...
written 8.0 years ago by Sashi Kiran Challa300
0
votes
1
answer
1.8k
views
1
answers
Comment: C: Please Suggest Good Read To Understand Sff To Fasta Conversion
... thanks so much Keith. ...
written 8.0 years ago by Sashi Kiran Challa300
3
votes
8
answers
38k
views
8
answers
Answer: A: What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
... Hii, if you have too many sequences, and a lot of them cluttering up at a spot, may be you could look at multiple sequence alignment (I have used MEGA for this) and look if they are very identical. If you find lot of them identical, you could probably do clustering(CD-HIT) and then build a tree with ...
written 8.0 years ago by Sashi Kiran Challa300
8
votes
1
answer
1.8k
views
1
answer
Please Suggest Good Read To Understand Sff To Fasta Conversion
... hello all, I have earlier worked with EST sequences, tools for assembly, gene finding ,etc. I am now interested in filling gaps about my knowledge in sequencing (especially Roche 454). I just know that once sequencing is done there is a SFF file obtained and that is converted to fasta for further a ...
fasta paired written 8.0 years ago by Sashi Kiran Challa300 • updated 8.0 years ago by iw9oel_ad6.0k
0
votes
1
answer
5.0k
views
1
answers
Comment: C: Help With Downloading Sequences From Ensembl
... Thanks Andrew. Do you know how I can get all the Ensembl GeneIDs of the hits I get for a search term. Do I have to just parse the html ?? The search for "olfactory receptor Gallus gallus" in GenBank Genes database gives me more number of hits than in ensembl. (480 over 163). May I ask you which numb ...
written 8.1 years ago by Sashi Kiran Challa300

Latest awards to Sashi Kiran Challa

Supporter 2.9 years ago, voted at least 25 times.
Appreciated 5.8 years ago, created a post with more than 5 votes. For Help With Downloading Sequences From Ensembl
Good Question 5.8 years ago, asked a question that was upvoted at least 5 times. For Help With Downloading Sequences From Ensembl
Epic Question 5.8 years ago, created a question with more than 10,000 views. For Minor Allele Frequencies Gwas
Popular Question 5.8 years ago, created a question with more than 1,000 views. For How To Evaluate 454 Sequences
Popular Question 5.8 years ago, created a question with more than 1,000 views. For Help With Downloading Sequences From Ensembl
Autobiographer 5.8 years ago, has more than 80 characters in the information field of the user's profile.
Popular Question 7.6 years ago, created a question with more than 1,000 views. For Minor Allele Frequencies Gwas
Great Question 7.6 years ago, created a question with more than 5,000 views. For Minor Allele Frequencies Gwas
Teacher 8.0 years ago, created an answer with at least 3 up-votes. For A: What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
Student 8.0 years ago, asked a question with at least 3 up-votes. For Please Suggest Good Read To Understand Sff To Fasta Conversion
Student 8.0 years ago, asked a question with at least 3 up-votes. For Please Suggest Good Read To Understand Sff To Fasta Conversion
Popular Question 8.1 years ago, created a question with more than 1,000 views. For Help With Downloading Sequences From Ensembl
Appreciated 8.1 years ago, created a post with more than 5 votes. For Help With Downloading Sequences From Ensembl
Good Question 8.1 years ago, asked a question that was upvoted at least 5 times. For Help With Downloading Sequences From Ensembl
Student 8.1 years ago, asked a question with at least 3 up-votes. For Help With Downloading Sequences From Ensembl
Popular Question 8.6 years ago, created a question with more than 1,000 views. For Hierarchical Clustering, Cluster Heat Maps In Java
Student 8.6 years ago, asked a question with at least 3 up-votes. For Hierarchical Clustering, Cluster Heat Maps In Java
Student 8.6 years ago, asked a question with at least 3 up-votes. For Hierarchical Clustering, Cluster Heat Maps In Java

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 750 users visited in the last hour