User: Deepak Tanwar

gravatar for Deepak Tanwar
Deepak Tanwar3.9k
Reputation:
3,930
Status:
Trusted
Location:
ETH Zürich, Switzerland
Website:
https://www.linkedin.c...
Twitter:
d_k_tanwar
Last seen:
1 day, 8 hours ago
Joined:
4 years, 6 months ago
Email:
d*******@hotmail.com

I received my Bachelor in Technology with major in Bioinformatics from Amity University Rajasthan, India in 2014. I did my Bachelor thesis at University of Jena, Germany, where I worked on a Sepsis patient data set and got my thesis published with GRIN publishers. I took my first job as a Visiting Scientist at University of Alabama at Birmingham, USA in 2014. I worked on Cancer patient datasets obtained from TCGA, ICGC and Cosmic consortiums. My findings suggest that mitochondria directed therapies can impact survival of epithelial ovarian cancer patients, which is published in Oncotarget. I have also worked on Proteomes from Pfam and Uniprot databases, aiming to create a N-gram language models of protein domain architecture to investigate evolution and to derive a new method of phylogenetic tree construction. My background and training is in Bioinformatics (Data Science) and am currently pursuing a PhD. at ETH Zürich, Switzerland.

Posts by Deepak Tanwar

<prev • 160 results • page 1 of 16 • next >
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Comment: C: How to create own SRAdb
... Sorry, I updated mine comment! ...
written 3 days ago by Deepak Tanwar3.9k
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Comment: C: How to create own SRAdb
... *The ideal situation would be to pull the data in real time from SRA:* Yes! I was looking for the code which Sean Davis and his team wrote to make this database. But, couldn't find it (that would have been an easy solution)... ...
written 3 days ago by Deepak Tanwar3.9k
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Comment: C: How to create own SRAdb
... As far as I understood, Sean Davis seems to be working on a replacement of SRAdb. As I have already set up the tool to work with SRAdb, I would like to have an updated one. ...
written 3 days ago by Deepak Tanwar3.9k
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Comment: C: How to create own SRAdb
... https://github.com/seandavi/SRAdb/issues/24 ...
written 3 days ago by Deepak Tanwar3.9k
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How to create own SRAdb
... Hello, As SRAdb is outdated, I would like to create my own SRAdb. What is the best way to do that? I am aware of the files I would need to make one: ftp://ftp.ncbi.nlm.nih.gov/sra/reports/ But, I am not an expert in `SQL` and don't know how to deal with `XML` files. ...
geo sra sradb written 3 days ago by Deepak Tanwar3.9k • updated 3 days ago by Sean Davis25k
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How to perform GSEAPreranked analysis in a proper manner?
... Hello! I want to perform GSEA analysis on a list of genes. Out of the following two options, which one should I use and why? 1. List of all genes with their **log-fold-change** values. 2. filtered list of genes with their **log-fold-change** values. Here, the filter could be ***p-value***, ***FDR ...
gsea written 4 months ago by Deepak Tanwar3.9k • updated 4 months ago by mikhael.manurung0
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Query based on PMIDs
... Hello! I have a list of PMIDs and would like to query `GEOquery` and `SRAdb` to see if there is data submitted from these papers, and if submitted, I would like to download. As I haven't received any response on https://support.bioconductor.org/p/115547/, I am posting my question here. ...
geoquery sradb written 6 months ago by Deepak Tanwar3.9k • updated 6 months ago by Ahill1.5k
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Comment: C: Co-expression network integration
... Put the code that you used for doing analysis and the step where you got error. ...
written 23 months ago by Deepak Tanwar3.9k
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Test files to test pipeline
... Hello everyone, I would like to create some small test fastq files and small reference genomes to test my pipeline. **What I have?** Few `bam` files. **What I want?** 1. Short `fastq` files from my `bam files`. 2. Short `reference genome` to align those `fastq` files. ...
chip-seq written 23 months ago by Deepak Tanwar3.9k
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Comment: C: Row label in heatmap
... Can you show the code and output you are getting? ...
written 2.2 years ago by Deepak Tanwar3.9k

Latest awards to Deepak Tanwar

Popular Question 8 weeks ago, created a question with more than 1,000 views. For Graph viewer for Reactome Pathways
Popular Question 4 months ago, created a question with more than 1,000 views. For Graph viewer for Reactome Pathways
Popular Question 4 months ago, created a question with more than 1,000 views. For Are protein domains indivisible?
Popular Question 8 months ago, created a question with more than 1,000 views. For Graph viewer for Reactome Pathways
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Interships in Bioinformatcs
Epic Question 8 months ago, created a question with more than 10,000 views. For Bioinformatics courses, workshops or training
Popular Question 10 months ago, created a question with more than 1,000 views. For Graph viewer for Reactome Pathways
Popular Question 10 months ago, created a question with more than 1,000 views. For Using markdown for two or more programming languages
Popular Question 14 months ago, created a question with more than 1,000 views. For Using markdown for two or more programming languages
Popular Question 15 months ago, created a question with more than 1,000 views. For Using markdown for two or more programming languages
Great Question 18 months ago, created a question with more than 5,000 views. For Bioinformatics courses, workshops or training
Appreciated 22 months ago, created a post with more than 5 votes. For A: GO term enrichment
Student 23 months ago, asked a question with at least 3 up-votes. For Which is the best smoothing technique for replacing zeros from data?
Student 2.2 years ago, asked a question with at least 3 up-votes. For Which is the best smoothing technique for replacing zeros from data?
Appreciated 2.2 years ago, created a post with more than 5 votes. For Using markdown for two or more programming languages
Appreciated 2.2 years ago, created a post with more than 5 votes. For A: GO term enrichment
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Interships in Bioinformatcs
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Bioinformatics courses, workshops or training.
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Bioinformatics courses, workshops or training.
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Bioinformatics courses, workshops or training.
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Bioinformatics courses, workshops or training.
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Mapping genome region to gene symbols in CNV files from TCGA
Commentator 2.2 years ago, created a comment with at least 3 up-votes. For C: Can someone tell me journal with 1 impactfactor with minimum charge around INR 6
Appreciated 2.2 years ago, created a post with more than 5 votes. For A: pathway analysis tools and KEGG gene sets from MSigDB
Great Question 2.4 years ago, created a question with more than 5,000 views. For Bioinformatics courses, workshops or training

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