Vinod Scaria

Dr. Vinod Scaria FRSB (born 9 March 1981) is an Indian researcher pioneering in Precision Medicine and Clinical Genomics in India. He is best known for sequencing the first Indian genome.[1][2][3] He was also instrumental in the sequencing of The first Sri Lankan Genome, analysis of the first Malaysian Genome[4] sequencing and analysis of the Wild-type strain of Zebrafish[5] and the IndiGen programme on Genomics for Public Health in India[6][7][8]

Dr. Vinod Scaria
Born (1981-03-09) 9 March 1981
Mbinga, Tanzania
NationalityIndian
CitizenshipIndian
Alma materCalicut Medical College
University of Pune
Awards
  • CSIR Young Scientist Award (2012)
  • FRSB (2017)
Scientific career
FieldsBioinformatics, Computational Biology
InstitutionsIndraprastha Institute of Information Technology Delhi,
Institute of Genomics and Integrative Biology,
Academy of Scientific and Innovative Research
Doctoral advisorSamir K. Brahmachari
Websitevinodscaria.rnabiology.org

He is presently a scientist at CSIR Institute of Genomics and Integrative Biology and an adjunct faculty at Indraprastha Institute of Information Technology, Delhi.[9]

He along with his colleague and collaborator Sridhar Sivasuubu are widely regarded as the pioneers in the area of clinical genomics in India. They are also the co-founders of the Genomics for Understanding Rare Diseases India Alliance Network (GUaRDIAN) a large clinical network working in the area of Rare Disease Genomics in India. They were also instrumental in setting up a comprehensive fellowship programme in genomics for clinicians[10]

His research has also contributed to a number of commercially viable technologies for healthcare and public health applications.[11] This includes one of the methods for fast and accurate diagnosis and screening of mitochondrial genetic diseases.[12]

Early life

Scaria was born in Tanzania in 1981. He did his schooling in Silver Hills Public School, Kozhikode, India. He studied for pre-degree course in St. Joseph's College, Devagiri and completed his undergraduate studies in medicine and surgery from Calicut Medical College with Gold Medals in Biochemistry and Physiology. He worked as a consultant for information technology at the Pain and Palliative Care society in Kozhikode. Later, he joined the CSIR Institute of Genomics and Integrative Biology, New Delhi, where he started his career as a researcher.[13]

Research

Scaria started his research career at Calicut Medical College in the area of medical ethics and health information on Internet. After joining the CSIR Institute of Genomics and Integrative Biology in 2005, he switched to computational biology and genome informatics. His notable researches include the identification of human micro-RNA which can target HIV virus. In 2009 he and his colleagues at the Institute of Genomics and Integrative Biology announced the sequencing of the wild-type strain of zebrafish[14] and the sequencing of the first Human Genome from India. He also pioneered the use of social web for genome annotation, through mapping of TB genome.[15] Scaria and colleagues also discovered and designed enzyme silencers for mRNA, dubbed antagomirzymes. His group also pioneered the use of social web, cloud computing and students for solving complex drug discovery problems for Neglected Diseases.[16] Dr Scaria has also been involved in popularising personal genomics through meragenome.com[17] and OpenPGx.[18]

His research took a shift to Clinical Genomics in 2009 starting with the sequencing of the first Indian Genome in 2009.[19] Over years he with colleague, Sridhar Sivasubbu created a large research network in area of Clinical Genomics with focus on rare genetic diseases and pharmacogenomics. The focus has been to use genomic tools to understand the molecular basis of genetic diseases in India and use this knowledgebase to develop affordable and accessible genetic tests.[20] This initiative helped uncover the genetic basis of many inherited diseases in India[21]

His research has also led to knowhow which has been successfully licensed to a number of commercial diagnostic entities and available to clinicians across India.[22]

He has published over 150 papers in international journals.[23] He is also the Editorial Board member of many reputed International Journals including PLOS ONE, PeerJ , International Journal of Rheumatic Diseases and Journal of Translational Medicine. He was a member of senate of the Academy of Scientific and Innovative Research (AcSIR).

Accolades

He was conferred the CSIR Young Scientist Award for biological sciences for developing computational tools to analyse genomic data, by the Prime Minister of India in September 2012.[24][25][26]

He is a Kavli Frontiers of Science Fellow of the US National Academy of Sciences[27] and an elected Fellow of the Royal Society of Biology.[28]

Precision Medicine and Pharmacogenomics

He specialises in genome-scale data for Precision Medicine with reference to Pharmacogenetics. He was one of the pioneers to be able to systematically analyse personal genome data to derive pharmacogenetic maps.[4] His research into population-specific genome scale data has provided one of the initial pharmacoepigenetic maps for Malaysia [29] and Qatar.[30]

Genomics for Understanding Rare Diseases India Alliance Network (GUaRDIAN)

Scaria has been pioneering the application of genomics to diagnose and solve rare genetic diseases in India, including discovering novel variants.[31] He, with his colleague Sridhar Sivasubbu co-founded a national network (GUaRDIAN)[32] of clinicians and researchers working on rare disease genomics. He also co-authored a handbook on exome sequencing and analysis for clinicians.[33] The GUaRDIAN consortium includes over 250 clinicians and researchers from over 70 medical and research centers making it one of the largest clinical genomics research networks in India working in the area of Rare Genetic Diseases.[34] The research network has been quite successful in understanding variants associated with rare genetic diseases and be able to prevent them.[35]

Genomics and other Omics Technologies to enable Medical Decisions (GOMED) Scaria has been involved in creating a unique programme along with his colleague Dr Mohammed Faruq which enable clinicians from across the country to tap into the rich expertise of CSIR Institute of Genomics and Integrative Biology in the area of genomics to enable fast and effective diagnosis of genetic diseases.[36] This programme today has been widely utilized by hospitals across the country.[37]

IndiGen programme on Population Genomics for Public Health

The IndiGen programme[38] on population Genomics for public health was initiated in 2019 with an attempt to start understanding the genetic diversity of the country by sequencing over an thousand Indian individuals.[39]"The outcomes of IndiGen will have applications in a number of areas including faster and efficient diagnosis of rare genetic diseases,” said Union Science Minister, Harsh Vardhan, at the press conference announcing the programme.[40] The programme has accelerated the commercial adaptation and application of genomics in India by working closely with various industrial partners.[11] The summary data from the programme is available for researchers and clinicians.[41]

Genomics of Arab and Middle Eastern Populations

Scaria has been pioneering the analysis of genomic data from Arab, Middle Eastern populations. His lab contributed to understanding the genetic landscape of Pharmacogenetics in Qatar.[42][43] He also pioneered the use of whole genome data to understand the genetic epidemiology of prevalent diseases in the region, including Familial Mediterranean Fever.[44]

His lab also created one of the largest and comprehensive allele frequency resource for Arab populations.[45] This database al mena [46](alleles for Middle East and North Africa) provides information on over 26 million variants indexing a number of whole genome and exome datasets from the region. He is also pioneering the creation of a comprehensive resource for disease variants in the Arab population, in collaboration with multiple researchers from the region.[47]

COVID-19 Open Research, Data and Resources

The COVID-19 Open Research, Data and Resources is an initiative to make relevant Data, Research and Resources[48] at the Vinod Scaria Lab at the CSIR Institute of Genomics and Integrative Biology (CSIR-IGIB) in an open format to ensure that they are widely accessible as well as relevant. The initiative provides ready access to genomic,[49][50][51] epidemiological data-sets[52] and protocols[53] pertaining to the COVID-19 epidemic in India. The research also contributed to the understanding of a new clade (I/A3i) of SARS-CoV-2 genomes from India.[54][55] His group also contributed to uncovering the first reports of COVID-19 reinfection in India[56] and a comprehensive resource on reinfections[57]

References
  1. Manoj CG (10 December 2009). "After human genome sequence, the scientist duo look ahead". The Indian Express. Retrieved 10 February 2013.
  2. Prasanth GN (10 December 2009). "Genome sequencing can be applied in clinical setting". Times of India. Retrieved 10 February 2013.
  3. Jingjing H (9 December 2009). "Scientists decode human genome for the first time in India". China News. Retrieved 10 February 2013.
  4. Salleh MZ, Teh LK, Lee LS, Ismet RI, Patowary A, Joshi K, et al. (2013). "Systematic pharmacogenomics analysis of a Malay whole genome: proof of concept for personalized medicine". PLOS ONE. 8 (8): e71554. Bibcode:2013PLoSO...871554S. doi:10.1371/journal.pone.0071554. PMC 3751891. PMID 24009664.
  5. Patowary A, Purkanti R, Singh M, Chauhan R, Singh AR, Swarnkar M, et al. (March 2013). "A sequence-based variation map of zebrafish". Zebrafish. 10 (1): 15–20. doi:10.1089/zeb.2012.0848. PMC 3629779. PMID 23590399.
  6. "The Gene Business- Business News". www.businesstoday.in. Retrieved 22 June 2020.
  7. Koshy, Jacob (25 October 2019). "CSIR offers free mapping of Indian genomes". The Hindu. ISSN 0971-751X. Retrieved 22 June 2020.
  8. "Genomics for Public Health". sites.google.com. Retrieved 22 June 2020.
  9. "Visiting and Adjunct Faculty at IIIT-D".
  10. "Genomics training for clinicians - CSIR-IGIB Sanofi Genzyme fellowship: From labs to patients". Genomics training for clinicians - CSIR-IGIB Sanofi Genzyme fellowship. Retrieved 14 March 2020.
  11. "The Gene Business- Business News". www.businesstoday.in. Retrieved 14 March 2020.
  12. Prasad, R. (10 July 2016). "Screening for rare genetic disorders at a point-of-click". The Hindu. ISSN 0971-751X. Retrieved 14 March 2020.
  13. "Vinod Scaria's profile". Institute of Genomics and Integrative Biology. Retrieved 10 February 2013.
  14. "Genome of Zebrafish Wild-type Strain (ASWT)". IGIB.in. Retrieved 17 April 2013.
  15. "Detailed map of TB genome to help treatment". The Hindustan Times. 12 April 2010. Retrieved 10 February 2013.
  16. "Crowd Computing for Cheminformatics". RNA Biology. Archived from the original on 12 January 2013. Retrieved 17 February 2013.
  17. "meragenome.com : Personal Genomics for All". Retrieved 10 April 2013.
  18. "OpenPGx". Retrieved 10 April 2013.
  19. "After human genome sequence, scientist duo looks ahead - Indian Express". archive.indianexpress.com. Retrieved 14 February 2020.
  20. Garari, Kaniza (26 December 2018). "CSIR stands tall with 10 innovations in 2018". Deccan Chronicle. Retrieved 14 February 2020.
  21. Koshy, Jacob (15 April 2017). "Interpretation of a malady: how scientists zeroed in on one family's rare and crippling disease". The Hindu. ISSN 0971-751X. Retrieved 14 February 2020.
  22. Prasad, R. (10 July 2016). "Screening for rare genetic disorders at a point-of-click". The Hindu. ISSN 0971-751X. Retrieved 14 February 2020.
  23. "Publications of Vinod Scaria". RNA Biology. Retrieved 10 February 2013.
  24. "Young Scientist Awards" (PDF). CSIR, India. Retrieved 10 February 2013.
  25. "PM gives away awards to scientists". MBCTV. 26 September 2012. Retrieved 10 February 2013.
  26. "PM gives Swaroop Bhatnagar award to 11 scientists". Outlook.com. 26 September 2012. Retrieved 10 February 2013.
  27. "Vinod Scaria".
  28. "Vinod Scaria - Vinod Scaria MBBS, PHD".
  29. Prasad R (12 June 2016). "Why Indians, SE Asian Malays respond differently to some drugs". The Hindu. Retrieved 10 October 2016.
  30. Sarant L (2016). "Qatar exome study: An advancement in precision medicine". Nature Middle East. doi:10.1038/nmiddleeast.2016.137.
  31. Vellarikkal SK, Patowary A, Singh M, Kumari R, Faruq M, Master DC, et al. (2014). "Exome sequencing reveals a novel mutation, p.L325H, in the KRT5 gene associated with autosomal dominant Epidermolysis Bullosa Simplex Koebner type in a large family from western India". Human Genome Variation. 1: 14007. doi:10.1038/hgv.2014.7. PMC 4785511. PMID 27081501.
  32. "Genomics for Understanding Rare Diseases India Alliance Network". Retrieved 25 December 2014.
  33. Scaria V, Sivasubbu S (11 February 2015). Exome Sequencing, Analysis and Interpretation : Handbook for Clinicians. India: Research In Genomics. p. 126. Retrieved 5 April 2015.
  34. Sivasubbu S, Scaria V (September 2019). "Genomics of rare genetic diseases-experiences from India". Human Genomics. 14 (1): 52. doi:10.1186/s40246-019-0215-5. PMC 6760067. PMID 31554517.
  35. Isalkar U (6 October 2016). "Research on genes rules out ailment in youngest sibling". The Times of India. TNN. Retrieved 10 October 2016.
  36. "Genomics and other omics technologies to enable Medical Decisions".
  37. "Referral statistics of GOMED".
  38. "Genomics for Public Health". sites.google.com. Retrieved 13 November 2019.
  39. Koshy, Jacob (19 April 2019). "Genome sequencing to map population diversity". The Hindu. ISSN 0971-751X. Retrieved 13 November 2019.
  40. Koshy, Jacob (25 October 2019). "CSIR offers free mapping of Indian genomes". The Hindu. ISSN 0971-751X. Retrieved 13 November 2019.
  41. "IndiGenomes Resource of Population Genomes from India". clingen.igib.res.in. Retrieved 14 March 2020.
  42. Sivadas A, Sharma P, Scaria V (November 2016). "Landscape of warfarin and clopidogrel pharmacogenetic variants in Qatari population from whole exome datasets". Pharmacogenomics. 17 (17): 1891–1901. doi:10.2217/pgs-2016-0130. PMID 27767380.
  43. Sivadas A, Scaria V (July 2018). "Pharmacogenomic survey of Qatari populations using whole-genome and exome sequences". The Pharmacogenomics Journal. 18 (4): 590–600. doi:10.1038/s41397-018-0022-8. PMID 29720721. S2CID 24137943.
  44. Koshy R, Sivadas A, Scaria V (January 2018). "Genetic epidemiology of familial Mediterranean fever through integrative analysis of whole genome and exome sequences from Middle East and North Africa". Clinical Genetics. 93 (1): 92–102. doi:10.1111/cge.13070. PMID 28597968. S2CID 27609668.
  45. Koshy R, Ranawat A, Scaria V (October 2017). "al mena: a comprehensive resource of human genetic variants integrating genomes and exomes from Arab, Middle Eastern and North African populations". Journal of Human Genetics. 62 (10): 889–894. doi:10.1038/jhg.2017.67. PMID 28638141. S2CID 36515834.
  46. "al mena". clingen.igib.res.in.
  47. "Comprehensive resource of genetic variants associated with diseases in Arabs - Vinod Scaria MBBS, PhD". vinodscaria.rnabiology.org.
  48. "COVID-19 Open - Vinod Scaria MBBS, PhD". vinodscaria.rnabiology.org. Retrieved 16 April 2020.
  49. "India to have own genome data bank to decode COVID-19 virus". The New Indian Express. Retrieved 19 June 2020.
  50. "INDICOV". clingen.igib.res.in. Retrieved 19 June 2020.
  51. "COVID-19 Genomepedia , a comprehensive searchable resource of SARS-nCoV-2 genomes | CSIR Institute of Genomics and Integrative Biology (CSIR-IGIB) Delhi, India". COVID-19 Genomepedia , a comprehensive searchable resource of SARS-nCoV-2 genomes | CSIR Institute of Genomics and Integrative Biology (CSIR-IGIB) Delhi, India. Retrieved 16 April 2020.
  52. "Genomes & Genetic Epidemiology of SARS-nCoV-2 - Vinod Scaria MBBS, PhD". vinodscaria.rnabiology.org. Retrieved 16 April 2020.
  53. Poojary, Mukta; Shantaraman, Anantharaman; Jolly, Bani; Scaria, Vinod (2019). "Computational Protocol for Assembly and Analysis of SARS-nCoV-2 Genomes". Research Reports.
  54. Banu, Sofia; Jolly, Bani; Mukherjee, Payel; Singh, Priya; Khan, Shagufta; Zaveri, Lamuk; Shambhavi, Sakshi; Gaur, Namami; Mishra, Rakesh K.; Scaria, Vinod; Sowpati, Divya Tej (31 May 2020). "A distinct phylogenetic cluster of Indian SARS-CoV-2 isolates". bioRxiv: 2020.05.31.126136. doi:10.1101/2020.05.31.126136. S2CID 219535426.
  55. Banu, Sofia; Jolly, Bani; Mukherjee, Payel; Singh, Priya; Khan, Shagufta; Zaveri, Lamuk; Shambhavi, Sakshi; Gaur, Namami; Reddy, Shashikala; Kaveri, K.; Srinivasan, Sivasubramanian (2020). "A distinct phylogenetic cluster of Indian SARS-CoV-2 isolates". Open Forum Infectious Diseases. 7 (11): ofaa434. doi:10.1093/ofid/ofaa434. PMC 7543508. PMID 33200080. S2CID 222209242.
  56. Gupta, Vivek; Bhoyar, Rahul C.; Jain, Abhinav; Srivastava, Saurabh; Upadhayay, Rashmi; Imran, Mohamed; Jolly, Bani; Divakar, Mohit Kumar; Sharma, Disha; Sehgal, Paras; Ranjan, Gyan (2020). "Asymptomatic reinfection in two healthcare workers from India with genetically distinct SARS-CoV-2". Clinical Infectious Diseases. doi:10.1093/cid/ciaa1451. PMC 7543380. PMID 32964927.
  57. "COVID-19 REINFECTIONS". sites.google.com. Retrieved 30 September 2020.
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