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.
  • Genomics of Rare Genetic Diseases Genomics of Rare Genetic Diseases is a one-day online conference organised on the eve of rare disease day. The aim of the conference is to bring together clinicians and ...
    Posted Dec 14, 2014, 2:42 AM by Vinod Scaria
Showing posts 1 - 1 of 8. View more »

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 

Jalali S, Kapoor S, Sivadas A, Bhartiya D, Scaria V
Computational approaches towards understanding human long noncoding RNA biology
Bioinformatics (2015) Accepted

Periwal V, Patowary A, Vellarikkal SK, Gupta A, Singh M, Mittal A, Jeyapaul S, Chauhan RK, Singh AV, Singh PK, Garg P, Katoch VM, Katoch, K, OSDD Consortium, Chauhan DS*, Sivasubbu S*, Scaria V*
Comparative Whole-Genome Analysis of Clinical Isolates Reveals Characteristic Architecture of Mycobacterium tuberculosis Pangenome
PLoS ONE (2015) Accepted

Vellarikkal SK,Dhiman H, Joshi K, Hasija Y, Sivasubbu S, Scaria V
mit-o-matic: a comprehensive computational pipeline for clinical evaluation of mitochondrial variations from next-generation sequencing datasets
Human Mutation (2015) Accepted

Periwal V, Scaria V*
Insights into structural variations and genome re-arrangements in prokaryotic genomes
Bioinformatics (2015) Jan 1;31(1):1-9. Epub 2014 Sep 4.

Gupta A, Sharma YK, Vellarikkal SK, Jayarajan R, Dixit V , Verma A ,Sivasubbu S and Scaria V*
Whole-exome sequencing solves diagnostic dilemma in a rare case of sporadic acrokeratosis verruciformis
Journal of the European Academy of Dermatology and Venereology (2015) Accepted

Scaria V 
Joining the long shots: emerging evidence on the role of long noncoding RNAs in rheumatoid arthritis
Int J Rheum Dis (2015) Accepted

Behera B, Das P, Maharana J, Paria P, Mandal S, Meena D, Sharma A, Jayarajan R, Dixit V, Verma A, Vellarikkal S, Scaria V, Sivasubbu S, Rao A and Mohapatra T
Draft Genome Sequence of the extremely halophilic Bacterium Halomonas salina sp. Strain CIFRI1 isolated from East Coast of India
Genome Announc. (2015) January/February 2015 3:e01321-14; doi:10.1128/genomeA.01321-14

Ghosh S, Sati S, Sengupta S* and Scaria V*
Distinct patterns of epigenetic marks and transcription factor binding sites across promoters of sense-intronic long non-coding RNAs 
J Genetics (2015) Accepted

Ghosh S, Sengupta S* and Scaria V*
Comparative analysis of Human mitochondrial methylomes show distinct patterns of epigenetic regulation in mitochondria
Mitochondrion (2014) Sep;18:58-62. doi: 10.1016/j.mito.2014.07.007. Epub 2014 Jul 22.

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) ) 1, 14007; doi:10.1038/hgv.2014.7

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) Jul;15(10):1337-54. doi: 10.2217/pgs.14.88.

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