The recent declaration of COVID-19 as a global pandemic by the World Health Organisation has prompted us to make the relevant Data, Research and Resources at the Vinod Scaria Lab at 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 programme would embrace the concepts of open-source and open access.

Research at the COVID-19 Open 
featured in News and Media

COVID-19 Genome Analysis Summaries

  • The Genome Analysis Summaries provides systematic analysis summaries of  genetic sequence variants in SARS-nCoV-2 genomes from across the world to understand whether the efficiency of diagnostics could be impacted by genetic variants. [COVID-19 GENOME WATCHPOST
  • Genomic variants in SARS-CoV-2 isolates from India and its impact on diagnostic assays - what we need to know We catalogued a total of 132 primers or probes sequences from the literature and the public domain. Our analysis revealed a total of 125 unique genetic variants in 80 either ...
    Posted Aug 20, 2020, 11:34 PM by Vinod Scaria
  • GENETIC DIVERSITY OF INDIAN SARS-NCOV-2 ISOLATES 15/05/2020 Credits:  Inforgraphics: Bani Jolly Data Source: GISAID Acknowledge data submitted from NIMHANS Bengaluru, NCDC Delhi, ICMR NIV Pune, NIBMG Kalyani, GBRC Gandhinagar and Gandhi Medical College, Secunderabad Methods and Resources ...
    Posted May 14, 2020, 8:20 AM by Vinod Scaria
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Gupta, V., Bhoyar, R. C., Jain, A., Srivastava, et al, Asymptomatic reinfection in two healthcare workers from India with genetically distinct SARS-CoV-2. Clinical Infectious Diseases (2020) ciaa1451, 

Govindaraj GM, Krishnakumar P, Scaria V, Athulya E, Ajithkumar VT, Dongre AR. Building on an Ad Hoc Covid-19 Response to Enhance Community-based Care for Vulnerable Children in Kerala, India. NEJM Catal Innov Care Deliv. (2020) doi: 10.1056/CAT.20.0543.

Banu S, Jolly B, Mukherjee M, Singh P, Khan S, Zaveri L, Shambhavi S, Gaur N, Mishra RK, Scaria V, Sowpati DT A distinct phylogenetic cluster of Indian SARS-CoV-2 isolates Open Forum Infectious Diseases, (2020), ofaa434,

Poojary M, Shantaraman A, Jolly B, Scaria V Computational Protocol for Assembly and Analysis of SARS-nCoV-2 Genomes Research Reports (2020) Accepted

Jain A, Rophina M, Mahajan S, Krishnan BB, Sharma M, Mandal S, Fernandez T, Sultanji S, Mathew S, Sivasubbu S, Scaria V Analysis of the potential impact of genomic variants in global SARS-CoV-2 genomes on molecular diagnostic assays International Journal of Infectious Diseases 

bioRxiv 2020.08.10.242677; doi: [Preprint] 

Radhakrishnan C, Divakar MK, Jain A et al, 
Initial insights into the genetic epidemiology of SARS-CoV-2 isolates from Kerala suggest local spread from limited introductions bioRxiv 2020.09.09.289892; doi: [Preprint]

Yadav SP, Thakkar D, Bhoyar RC, Jain A, Wadhwa T, Imran M, Jolly B, Divakar MK, Kapoor R, Rastogi N, Sharma D, Sehgal P, Ranjan G, Sivasubbu S, Sarma S, Scaria V Asymptomatic reactivation of SARS-CoV-2 in a child with neuroblastoma characterised by whole genome sequencing, IDCases (2020), e01018,

Rophina, M., Pandhare, K., Mangla, M., Shamnath, A., Jolly, B., Sethi, M., & Scaria, V. FaviCoV -a comprehensive manually curated resource for functional genetic variants in SARS-CoV-2. OSF Preprints (2020, November 17).  [Preprint]

Jolly B, Rophina M, Shamnath A, Imran M, Bhoyar RC, Divakar M, Rani PR, Ranjan G, Sehgal P,  Chandrasekhar P, Afsar S, Vijaya Lakshmi J, Surekha A, Sivasubbu S, Scaria V Genetic epidemiology of variants associated with immune escape from global SARS-CoV-2 genomes bioRxiv 2020.12.24.424332; doi: [Preprint]

The following Projects are open and currently underway. The datasets and results are also listed appropriately. 

Genomics of COVID-19 Re-Infections
The COVID-19 Reinfections observatory aims to compile information on COVID-19 reinfections from across the world as a ready reference. The programme also provides an opportunity to refer potential cases for genomic verification. 
Genomics and Biology of Long COVID
The LongCOVID India initiative provides a platform for participatory and collaborative research on LongCOVID in India.  
The aim of the project would be to compile all primers/probes for screening and diagnosis of SARS CoV-2 infection from across the world. [Project Data and Details]
The aim of the project is to use public data of SARS CoV-2 genomes for understanding the genetic epidemiology of the epidemic.
The aim of the project is to develop methods and approaches to accurately model the epidemic in India and also assess the impact of early interventions. [Project Data and Details]
COVID19CONNECT is an application integrating recent information, resources and a platform to connect citizens, patients, clinicians and researchers during the COVID19 epidemic in India. [Mobile App for Android[Web Application]
The COVID-19 and Rare Diseases initiative aims to quantify the effect of COVID-19 on Rare Disease patients. [Blog Post] [Questionnaire]


KERALA INITIATIVE ON ANALYTICS, AI AND OPEN SCIENCE FOR RESPONDING TO EPIDEMICS (KAISER) is a citizen science initiative relying on open science to be able to prepare, understand and respond to epidemics. This initiative also endeavours to build the much required skill base, resources, data and technologies to be able to help and cater to similar requirements nationally and globally.