Moderator: Gjain

gravatar for Gjain
Gjain5.5k
Reputation:
5,540
Status:
Trusted
Location:
Munich, Germany
Website:
http://www.linkedin.co...
Twitter:
@gauravjain49
Last seen:
2 days, 15 hours ago
Joined:
9 years, 4 months ago
Email:
g***********@gmail.com

Bioinformatician with extensive experience in genomics and epigenomics. In-depth knowledge of computational biology and machine learning methodologies. 

Specialties: 
• Languages: Python, Perl, R, HTML/HTML5, PHP, Javascript, AJAX, Shell scripting, C/C++, Octave
 
• Big Data: Next generation sequencing, Statistical and bioinformatics data analysis, Machine learning algorithms

• High-throughput Assays: Chromosome Conformation Capture (3C)-based techniques (5C, Hi-C), ChIPseq, RNAseq

• Databases: MySQL, Oracle

• Other: UNIX/Linux, High performance cluster computing (HPCC), Linux server management, Vector graphics/illustration tools

Posts by Gjain

<prev • 338 results • page 1 of 34 • next >
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Comment: C: Scientific Conference poster Template
... Hello Optimist! We believe that this post does not fit the main topic of this site. The post does not provide any details or fit the site in general. For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you di ...
written 26 days ago by Gjain5.5k
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Comment: C: Identification of piRNA/siRNAs from small RNA-seq data
... An important point here is to make sure you do not loose reads with multi mapping as many piRNAs are similar sequences. ...
written 6 weeks ago by Gjain5.5k
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Comment: C: Create table of gene expression for multiple samples
... You can either use featurecounts or multiBamSummary from deeptools to generate the gene expression table. ...
written 12 weeks ago by Gjain5.5k
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Comment: C: peak summit in macs not the highest point
... Can you please show an example of such peak (Preferably an IGV screenshot) where the summit is not the highest point? ...
written 5 months ago by Gjain5.5k
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Answer: A: Convolution and deconvolution in gene expression
... This is a good paper to go through Wang, X., Park, J., Susztak, K., Zhang, N. R., & Li, M. (2019). Bulk tissue cell type deconvolution with multi-subject single-cell expression reference. Nature communications, 10(1), 1-9. Link: [https://www.nature.com/articles/s41467-018-08023-x][1] ![enter ...
written 8 months ago by Gjain5.5k
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Comment: C: How to decide the parameters and parameter values when running ChIP-seq Peak Cal
... What issues are you facing? ...
written 8 months ago by Gjain5.5k
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Comment: C: Why does BedTools Map operation produce all dots as output?
... This helped me even after 5 years ... tried various sorting but this one works perfectly .... thanks sort -k1,1 -k2n file > sortedFile Works great. ...
written 10 months ago by Gjain5.5k
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Comment: C: HOMER HiC interactions
... Thanks for the paper and the link. I was not aware of that so that is good to know. I think you can try the standard HiC pipelines and a nice tutorial can be found here: [https://hms-dbmi.github.io/hic-data-analysis-bootcamp/#1][1] I hope this helps. [1]: https://hms-dbmi.github.io/hic-data-a ...
written 11 months ago by Gjain5.5k
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Comment: C: HOMER HiC interactions
... Maybe you can try with bedtools to check if they are overlapping or not? ...
written 11 months ago by Gjain5.5k
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Comment: C: HOMER HiC interactions
... Are you sure you got different interactions and not duplicates? ...
written 11 months ago by Gjain5.5k

Latest awards to Gjain

Teacher 14 months ago, created an answer with at least 3 up-votes. For A: Greatest Achievements In Bioinformatics Other Than Human Genome
Scholar 16 months ago, created an answer that has been accepted. For A: Sorting Chrs In [R]
Good Answer 16 months ago, created an answer that was upvoted at least 5 times. For A: Database Of Essential Genes
Great Question 16 months ago, created a question with more than 5,000 views. For Chromosome Position From Ucsc Genome Browser
Appreciated 21 months ago, created a post with more than 5 votes. For A: Database Of Essential Genes
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Greatest Achievements In Bioinformatics Other Than Human Genome
Scholar 2.1 years ago, created an answer that has been accepted. For A: What Are The Exact Algorithms For Motif Discovery?
Appreciated 2.3 years ago, created a post with more than 5 votes. For A: Database Of Essential Genes
Good Answer 2.3 years ago, created an answer that was upvoted at least 5 times. For A: Database Of Essential Genes
Scholar 2.9 years ago, created an answer that has been accepted. For A: What Are The Exact Algorithms For Motif Discovery?
Scholar 2.9 years ago, created an answer that has been accepted. For A: What Are The Exact Algorithms For Motif Discovery?
Great Question 3.3 years ago, created a question with more than 5,000 views. For Chromosome Position From Ucsc Genome Browser
Scholar 3.5 years ago, created an answer that has been accepted. For A: Web Based Interactive Resources To Learn Programming And/Or Bioinformatics
Appreciated 3.8 years ago, created a post with more than 5 votes. For A: Database Of Essential Genes
Good Answer 3.8 years ago, created an answer that was upvoted at least 5 times. For A: Database Of Essential Genes
Appreciated 3.8 years ago, created a post with more than 5 votes. For A: Database Of Essential Genes
Scholar 3.8 years ago, created an answer that has been accepted. For A: How to read Hi-C result from paper 'Bing Ren'
Teacher 4.0 years ago, created an answer with at least 3 up-votes. For A: Greatest Achievements In Bioinformatics Other Than Human Genome
Popular Question 4.1 years ago, created a question with more than 1,000 views. For Chromosome Position From Ucsc Genome Browser
Appreciated 5.2 years ago, created a post with more than 5 votes. For A: Database Of Essential Genes
Teacher 5.2 years ago, created an answer with at least 3 up-votes. For A: Greatest Achievements In Bioinformatics Other Than Human Genome
Good Answer 5.2 years ago, created an answer that was upvoted at least 5 times. For A: Database Of Essential Genes
Student 5.6 years ago, asked a question with at least 3 up-votes. For Can Biostar Be Affected By Sopa?

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