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Open Data, Standards and Tools for Translational Genomics

OpenPGx is a global collaborative endeavour to create an Open Access resource and toolkit for personal genome data analysis . We hope this would enable the application of advances in science and technology to clinical settings with the overall aim and impact of improving patient health care. (more about OpenPGx).

Crowd Computing for Scientific Research

We have been recently experimenting with crowd computing for addressing and solving various scientific problems. One of the active areas of interest have been using wisdom of the crowd to create methodologies for chemical data-mining. Read more about our projects 2C4C and 3C4TB

Forthcoming talks

  • These are a tentative list of forthcoming invited talks. The talk title, content and attendance are likely to change.
  • International Conference on Human Genetics and 39th Annual Meeting of the Indian Society of Human Genetics Conference URL: http://www.ishg2014.org/International Conference on Human Genetics and 39th Annual Meeting of the Indian Society of Human GeneticsAhmedabad Management Association, Ahmedabad, India, from 23rd - 25th ...
    Posted May 17, 2013, 4:34 AM by Vinod Scaria
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Information for Potential Interns and Summer Students

I have only limited opportunities for Interns/Summer students, usually 2 at a time. As an Institute policy the duration should be more than 3 months, and I would prefer someone for 6 months or more. Please note that all prospective Interns and Summer Students need to write a short proposal ( a paragraph would do) on an innovative idea they think could be performed during their internship. This need not be on something I generally work on. To make sure you are a legitimate applicant and not a spammer, please add "[Internship]" in your subject. I generally would not need unsolicited recommendations.

Attractive oppurtunity to participate in Collaborative Cheminformatics Research and work closely with a number of researchers across the country as part of the Open Source Drug Discovery Initiative
Could also register online at crowdomics portal


Whole Genome Sequencing Initiatives / Collaborations
Mycobacterium tuberculosis genomes
(in collaboration with Dr. Sridhar Sivasubbu, IGIB)
Pan Asian Population Genomics Initiative (PAPGI)

Recent Publications 

Ghosh S, Sengupta S* and Scaria V*
Comparative analysis of Human mitochondrial methylomes show distinct patterns of epigenetic regulation in mitochondria
Mitochondrion (2014) Accepted

Vellarikkal SK, Patowary A, Singh M, Kumari R, Faruq M, Master DC, Sivasubbu S*and Scaria V*
Exome sequencing reveals a novel mutation p.L325H in KRT5 gene associated with autosomal dominant Epidermolysis Bullosa Simplex in a large family from Western India
Human Genome Variation (2014) Accepted

Giri AK, Khan NM, Grover S, Kaur I, Basu A, Tandon N, Scaria V, Consortium IGI, INDICO*, Kukreti R, Brahmachari SK, Bharadwaj D   
Genetic epidemiology of pharmacogenetic variations in CYP2C9, CYP4F2 and VKORC1 genes associated with Warfarin dosage in Indian population
Pharmacogenomics (2014) Accepted  

Rajpathak SN, Vellarikkal SK,Patowary A, Scaria V*, Sivasubbu S* and Deobagkar DD*
Human 45,X fibroblast transcriptome reveals distinct differentially expressed genes including long noncoding RNAs potentially associated with the pathophysiology of Turner syndrome. 
PLoS ONE (2014) Accepted

Hasija Y, Khan JA, Scaria V*
Pharmacogenomics for Precision Medicine in the era of collaborative co-creation and crowdsourcing 
Current Genetic Medicine Reports (2014) Accepted

Scaria V*
Personal genomes, participatory genomics and the anonymity-privacy conundrum
J Genetics (2014) Accepted

Singh M, Bhartiya D,Maini J,Sharma M,Singh AR, Subburaj K, Rana R, Sabharwal A, Nanda S, Aravindhakshan R, Mittal A, Kapoor S, Sehgal P, Asad Z, Kaushik K, Vellarikkal SK, Jagga D, Muthulakshmi. M1, Chauhan RK,  Leonard E, Priyadarshini R, Halimani M, Malhotra S, Patowary A, Vishwakarma H, Joshi P, Bhardwaj V,  Bhaumik A,  Bhatt B, Jha A, Kumar A, Budakoti P, Lalwani MK, Meli R, Jalali S, Joshi K, Pal K, Dhiman H, Laddha SV, Jadhav V, Singh N, Pandey V, Sachidanandan C, Ekker SC, Klee EW, Scaria V* and Sivasubbu S*
The Zebrafish GenomeWiki: A crowdsourcing approach to connect the long tail for zebrafish gene annotation 
Database (2014) Accepted 

Tiwari P, Joshi K, Rehman R, Bhardwaj V, Shamsudheen KV, Sivasubbu S*, and Scaria V*
Draft genome sequence of urease producing Sporosarcina pasteurii with potential application in bio-cement production
Genome Announc. (2014) Jan 30;2(1). pii: e01256-13..

Giri AK, Khan NM, Narayanan D, INDICO, Basu A, Tandon N, Scaria V*, Bharadwaj D*
Pharmacogenetic landscape of Clopidogrel in North Indians suggest distinct inter-population differences in allele frequencies
Pharmacogenomics (2014) Accepted  

Joshi KR, Dhiman H, Scaria V*
Database (2014) 2014: bat083.

Bhartiya D, Jalali S, Ghosh S, Scaria V*
Human Mutation (2014) Feb;35(2):192-201

Salleh MZ*, Teh LK, Lee LS, Ismet RI, Patowary A, Joshi K, Pasha A, Ahmed AZ, Janor MH, Hamzah AS, Adam I, Yusoff K, Hoh BP, Hatta FM, Ismail MI, Scaria V*, Sivasubbu S*
Systematic Pharmacogenomics analysis of a Malay whole genome : Proof of concept for Personalised Medicine.
PLoS ONE (2013) Aug 23;8(8):e71554.

(*as communicating/co-communicating author)(^as member of consortium)