User: Hussain Ather

gravatar for Hussain Ather
Hussain Ather920
Reputation:
920
Status:
Trusted
Location:
National Institutes of Health, Bethesda, MD
Website:
http://hussainather.com/
Twitter:
shussainather
Last seen:
3 months, 1 week ago
Joined:
1 year, 8 months 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 • 148 results • page 1 of 15 • next >
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Answer: A: rna-seq expression analysis among several nonmodel species (Next step?)
... Maybe you could try making a density plot of FPKM values? There you could probably see a significant cutoff as a result of it. ...
written 6 months ago by Hussain Ather920
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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 13 months ago by Hussain Ather920
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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 13 months ago by Hussain Ather920
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Answer: A: Differential Expression from Quantile-Norm Data
... You should normalize them to a housekeeping gene. ...
written 13 months ago by Hussain Ather920
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Answer: A: Differential ChIP-Seq Analysis
... Look into deepTools bigWigCompare for comparing bigWig files based on the gene mapping ...
written 13 months ago by Hussain Ather920
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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 13 months ago by Hussain Ather920
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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 13 months ago by Hussain Ather920
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Comment: C: Assessing differentially expressed proteins between two samples
... 3 replicates for each test should be enough. ...
written 13 months ago by Hussain Ather920
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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 13 months ago by Hussain Ather920
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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 14 months ago by Hussain Ather920

Latest awards to Hussain Ather

Scholar 6 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 13 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
Teacher 14 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 14 months ago, created a question with more than 1,000 views. For Google announces DeepVariant
Scholar 17 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 17 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 18 months ago, created 100 posts.
Teacher 18 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 18 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 18 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 18 months ago, created a post with more than 5 votes. For Google announces DeepVariant
Scholar 18 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 18 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 18 months ago, created 50 posts within first three months of joining.
Teacher 18 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 18 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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