Genetic Epidemiology of New and Emerging Infections in India

COVID-19 Genome Analysis Summaries

  • 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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GENEPI RESOURCES

COVID-19 Resources
The COVID-19 resources at GenePI are listed below. A comprehensive listing is available at the COVID-19 Open Research, Data and Resources page.

ShortURL: http://bit.ly/c19phylovis

COVID-19 Genomepedia is a c comprehensive searchable resource for SARS-nCoV-2 genomes from across the world
ShortURL: http://bit.ly/c19genomes


RELEVANT PUBLICATIONS

Gupta, V., Bhoyar, R. C., Jain, A., Srivastava, et al, 
Clinical Infectious Diseases (2020) ciaa1451, https://doi.org/10.1093/cid/ciaa1451 

Banu S, Jolly B, Mukherjee M, Singh P, Khan S, Zaveri L, Shambhavi S, Gaur N, Mishra RK, Scaria V, Sowpati DT 

Poojary M, Shantaraman A, Jolly B, Scaria V 

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
https://doi.org/10.1016/j.ijid.2020.10.086 

Bhoyar RC, et al, High throughput detection and genetic epidemiology of SARS-CoV-2 using COVIDSeq next generation sequencing bioRxiv 2020.08.10.242677; doi: https://doi.org/10.1101/2020.08.10.242677 [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: https://doi.org/10.1101/2020.09.09.289892 [Preprint]

Yadav S,Thakkar D,Bhoyar R,Jain A,Wadhwa T,Imran M,Jolly B,Divakar M,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. Authorea. October 12, 2020. DOI: 10.22541/au.160253792.25165912/v1  [Preprint]

Sivakumar S, Vimal S, Majeed SA, Kumar SS, Taju G, Madan N, Rajkumar T, Thamizhvanan S, Shamsudheen KV, Scaria V, Sivasubbu S, Hameed ASS
A new strain of white spot syndrome virus affecting Litopenaeus vannamei in Indian shrimp farms
J Fish Dis. (2018) ;1–18 DOI: 10.1111/jfd.12811

Jalali S, Kohli S, Latka C, Bhatia S, Vellarikal SK, Sivasubbu S*, Scaria V*, Ramachandran R*
Screening currency notes for microbial pathogens and antibiotic resistance genes using a shotgun metagenomic approach

Patowary A, Chauhan RK, Singh M, Shamsudheen KV, Periwal V, Kushwaha KP, Sapkal GN, Bondre VP, Gore MM, Sivasubbu S and Scaria V
De novo identification of viral pathogens from cell culture hologenomes
BMC Research Notes 2012, 5:11