Moderator: Khader Shameer

gravatar for Khader Shameer
Reputation:
17,270
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Trusted
Location:
Manhattan, NY
Twitter:
kshameer
Scholar ID:
Google Scholar Page
Last seen:
3 days, 17 hours ago
Joined:
8 years, 2 months ago
Email:
s******@gmail.com

Currently: 
Director of Bioinformatics, Data Science and Precision Medicine at Philips Healthcare. 

Previously:
Biomedical & Healthcare data scientist at The Dudley Laboratory and Harris Center for Precision Wellness at the Mount Sinai Health System, NY. Also affiliated with the Department of Genetics and Genomics Sciences, and Icahn Institute for Genomics and Multiscale Biology and Icahn School of Medicine of Medicine at the Mount Sinai


Staff scientist in Personal genomics and Genomic Medicine at Mayo Clinic; Lead bioinformatics and computational genomics of MI-GENES trial (See ClinicalTrials.gov link:NCT01936675) Post-doc leading bioinformatics and genomic data analytics, big data management and research projects for electronic Medical Records and Genomics (eMERGE) and cardiovascular genomics at Mayo Clinic; PhD in Computational Biology / Biomedical Informatics from National Centre for Biological Sciences - Tata Institute of Fundamental Research & Indian Institute of Science. Graduate student at The Computational Biology Group, NCBS-TIFR.

I developed/co-developed/lead the development of the following tools and databases during my graduate school: 

  • Harmony - Protein structure validation server 
  • PeptideMine - Identification and analyses of peptides from local interactomes
  • FASSM - Function association using sequence-specific motifs 
  • SEQ2GO: Function annotation of hypothetical proteins using sequence based filtering and domain composition of intermediate homologs.
  • PURE: Prediction of Unassigned REgions in proteins 

 

Posts by Khader Shameer

<prev • 1,185 results • page 1 of 119 • next >
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Job: Post-doctoral position at Northwell Health - Design, develop and implement biomedical big data and machine intelligence-driven intensive care unit
... **Description:** A post-doctoral position is available for candidates with experience in the application of machine intelligence methods to large-scale healthcare datasets. The candidate will be co-mentored by Dr. Negin Hajizadeh [(Center for Health Innovations and Outcomes Research (CHIOR))][1], ...
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How many human genomes have sequenced, ever?
... I am looking for a total number of human samples with some form of genomic data generation and interpretation (genotyping, gene-panel, exome, genome). I am sure I can get a rough estimate by combining the human subset from the major biological database (ENA, SRA, dbGAP, GEO, Clinical Trials etc.). ...
genomics written 8 months ago by Khader Shameer17k
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Job: Postdoctoral postion in Bioinformatics, Computational Genomics, Population Genetics, Genomic Medicine, and Biomedical and Healthcare Data Science
... **Postdoctoral postion in Bioinformatics, Computational Genomics, Population Genetics, Genomic Medicine, and Biomedical and Healthcare Data Science** **Description.** A postdoctoral position is available for eligible candidates with training in statistical genetics and computational genomics. [Ku ...
bioinformatics genetics job genomics statistics written 10 months ago by Khader Shameer17k
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Blog: Neural identity, neuroethics and neurodegeneration of AI systems
... Am sure some of BioStars are thinking of implications of biological aspects including identity, ethics, aging and probable neurological degeneration that may influence real-time AI systems. Here's my post about this topic at [LinkedIn][1] - would love to hear your thoughts. [Neural identity, neuro ...
data-science ai blog ml written 12 months ago by Khader Shameer17k
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Comment: C: Structure-Based Phylogenetic Analysis
... You can compute SDM as explained in the Methods section under: Evolutionary analysis using a structural divergence measure http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0005736 ...
written 12 months ago by Khader Shameer17k
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Answer: A: How to get complete database of matabolic network of Plasmodium falciparum
... [KBase][1] have metabolic models of [p. falciparum][2] [1]: https://kbase.us/ [2]: https://narrative.kbase.us/search/#/search/?q=plasmodium ...
written 14 months ago by Khader Shameer17k
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Comment: C: Detect trees (newick) with specific topology
... Not aware of tool to subset trees based on topology. Yes, a script/regex could help. I am wondering if you have the images of the trees? If you do, may be it's interesting to try deep learning / computer vision-based approach here? ...
written 14 months ago by Khader Shameer17k
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Comment: C: Looking for walkthrough guide on Rare Variant Association Analysis
... What specific aspect of rare variant analyses are you looking for? Burden test? ...
written 14 months ago by Khader Shameer17k
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Forum: BioStar's List of Predatory Journals and Publishers to Avoid - 2017
... I just talked to a senior investigator who fell for a predatory publisher - he lost one of his significant work in a journal with no reliability. No editorial board, no peer reviewing - all that journal had was an OA model where anyone can publish anything with few hundreds of dollars. We live in a ...
publication bioinformatics forum blog written 14 months ago by Khader Shameer17k
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News: RepurposeDB - A New Reference Database of Drug Repositioning
... Cross-posted from [The SciPreneur][1] TL;DR - Link to manuscript [here][2] and Link to RepurposeDB [here][3] A drug discovery project takes 8-12 years and costs 8-15 billion dollars. It relies on various avenues of pre-clinical development, biomedical research, medicinal chemistry, clinical trials ...
precision medicine drug-repositioning news written 14 months ago by Khader Shameer17k

Latest awards to Khader Shameer

Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Classifying Proteins As Intrinsically Disordered
Scholar 8 months ago, created an answer that has been accepted. For A: Is there any database to find the protein interfaces that already found experime
Popular Question 8 months ago, created a question with more than 1,000 views. For Pre-computed list of genes in LD with a SNP with r2 from 1000Genomes / hg19
Popular Question 8 months ago, created a question with more than 1,000 views. For Semantic similarity of non-GO ontologies
Popular Question 8 months ago, created a question with more than 1,000 views. For Search engine optimization for bioinformatics applications
Good Answer 8 months ago, created an answer that was upvoted at least 5 times. For A: Kegg Paywalled, What Do People Use?
Good Answer 8 months ago, created an answer that was upvoted at least 5 times. For A: Mapping Genes To Pathway
Good Question 8 months ago, asked a question that was upvoted at least 5 times. For Library / Module For Network Analysis
Great Question 8 months ago, created a question with more than 5,000 views. For Simple Retrieval Of 1000 Genomes Maf Using Rsids
Popular Question 12 months ago, created a question with more than 1,000 views. For Analysis Of Low-Complexity Regions
Good Answer 13 months ago, created an answer that was upvoted at least 5 times. For A: Mapping Genes To Pathway
Appreciated 14 months ago, created a post with more than 5 votes. For A: Kegg Paywalled, What Do People Use?

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