User: Hussain Ather

gravatar for Hussain Ather
Hussain Ather880
Reputation:
880
Status:
Trusted
Location:
National Institutes of Health, Bethesda, MD
Website:
http://hussainather.com/
Twitter:
shussainather
Last seen:
3 months ago
Joined:
10 months, 2 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 3 months ago by Hussain Ather880
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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 3 months ago by Hussain Ather880
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Answer: A: Differential Expression from Quantile-Norm Data
... You should normalize them to a housekeeping gene. ...
written 3 months ago by Hussain Ather880
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Answer: A: Differential ChIP-Seq Analysis
... Look into deepTools bigWigCompare for comparing bigWig files based on the gene mapping ...
written 3 months ago by Hussain Ather880
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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 3 months ago by Hussain Ather880
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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 3 months ago by Hussain Ather880
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Comment: C: Assessing differentially expressed proteins between two samples
... 3 replicates for each test should be enough. ...
written 3 months ago by Hussain Ather880
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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 3 months ago by Hussain Ather880
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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 4 months ago by Hussain Ather880
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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 4 months ago by Hussain Ather880

Latest awards to Hussain Ather

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
Popular Question 4 months ago, created a question with more than 1,000 views. For Google announces DeepVariant
Scholar 7 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 7 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 7 months ago, created 100 posts.
Teacher 8 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 8 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 8 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 8 months ago, created a post with more than 5 votes. For Google announces DeepVariant
Scholar 8 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 8 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 8 months ago, created 50 posts within first three months of joining.
Teacher 8 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 8 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
Autobiographer 8 months ago, has more than 80 characters in the information field of the user's profile.
Supporter 9 months ago, voted at least 25 times.

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