User: Hussain Ather

gravatar for Hussain Ather
Hussain Ather860
Reputation:
860
Status:
Trusted
Location:
National Institutes of Health, Bethesda, MD
Website:
http://hussainather.com/
Twitter:
shussainather
Last seen:
6 days, 10 hours ago
Joined:
7 months, 3 weeks ago
Email:
s************@gmail.com

Post-baccalaureate researcher interested in algorithm design and genomics. 

Comments represent my own, not necessarily my employer's.

Posts by Hussain Ather

<prev • 147 results • page 1 of 15 • next >
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Comment: A: Convert list of rs IDs from one format to another
... Can you give context on the IDs? How did you get them? What's the biological context? ...
written 19 days ago by Hussain Ather860
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Answer: A: Generating pileup from .bam file
... Hmmm have you looked at samtools mpileup? http://samtools.sourceforge.net/mpileup.shtml ...
written 20 days ago by Hussain Ather860
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Answer: A: Differential Expression from Quantile-Norm Data
... You should normalize them to a housekeeping gene. ...
written 20 days ago by Hussain Ather860
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Answer: A: Differential ChIP-Seq Analysis
... Look into deepTools bigWigCompare for comparing bigWig files based on the gene mapping ...
written 22 days ago by Hussain Ather860
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Comment: A: How can I convert from bed to bed12 format?
... You need more information than what's generally provided in the bed file. What programming language would you like to use? ...
written 22 days ago by Hussain Ather860
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Answer: A: How to do correlation analyses between RNAseq and ChIPseq library?
... 1) You could try normalizing the bins with respect to some larger value. 2) You could try taking the absolute value of ChIP-Seq profile to account for enrichment and depletion. ...
written 27 days ago by Hussain Ather860
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Comment: C: Assessing differentially expressed proteins between two samples
... 3 replicates for each test should be enough. ...
written 27 days ago by Hussain Ather860
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Answer: A: Using MACS2 for peak calling
... The default parameters generally perform pretty well. You could try running MACS multiple times with various parameters and visualizing the results in IGV or UCSC Genome Browser to determine how the parameters shape the peak-calling behavior. ...
written 28 days ago by Hussain Ather860
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Answer: A: How to analyze the expression of a single gene in microarray data?
... Differential gene expression would be the best way to go. Otherwise there are methods using dupRadar, featureCounts, HTSeq for measuring values that may be of interest to you. ...
written 5 weeks ago by Hussain Ather860
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Answer: A: [Opinion] - What alignment software do you use?
... Hisat2 has given me the best results overall looking at the efficiency and results. ...
written 7 weeks ago by Hussain Ather860

Latest awards to Hussain Ather

Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Popular Question 6 weeks ago, created a question with more than 1,000 views. For Google announces DeepVariant
Scholar 4 months ago, created an answer that has been accepted. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Centurion 5 months ago, created 100 posts.
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Scholar 5 months ago, created an answer that has been accepted. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Appreciated 5 months ago, created a post with more than 5 votes. For Google announces DeepVariant
Scholar 5 months ago, created an answer that has been accepted. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Rising Star 5 months ago, created 50 posts within first three months of joining.
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: When performing Fisher's exact test, should I consider all annotated or all dete
Scholar 5 months ago, created an answer that has been accepted. For A: When performing Fisher's exact test, should I consider all annotated or all dete
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Supporter 6 months ago, voted at least 25 times.

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