Literature DB >> 33973215

Retrieval and Investigation of Data on SARS-CoV-2 and COVID-19 Using Bioinformatics Approach.

Muhamad Fahmi1,2, Viol Dhea Kharisma3,4,5, Arif Nur Muhammad Ansori6,7, Masahiro Ito8,9.   

Abstract

Sudden emergence and a rapid outbreak of SARS-CoV-2 accompanied by a devastating impact on the economy and public health has driven extensive scientific mobilization to study and elucidate the various associated concerns about SARS-CoV-2. Bioinformatics plays a crucial role in addressing and providing solutions to questions about SARS-CoV-2. It helps shorten the duration for the vaccine development process and the discovery of potential clinical interventions through the simulation and information retrieval, and the development of well-ordered information hubs and resources, which are essential to derive data and meaningful findings from the current massive information about SARS-CoV-2. Advanced algorithms in this field also provide approaches that are essential to elucidate the relationship, origin, and evolutionary process of SARS-CoV-2. Here, we report essential bioinformatics entities, such as database and platform development, molecular evolution and phylogenetic analyses, and vaccine designs, that are useful to solve the SARS-CoV-2 conundrum.

Entities:  

Keywords:  COVID-19; Databases; Information hubs; Molecular evolution; Phylogenetic inference; SARS-CoV-2; Vaccine design

Mesh:

Year:  2021        PMID: 33973215     DOI: 10.1007/978-3-030-63761-3_47

Source DB:  PubMed          Journal:  Adv Exp Med Biol        ISSN: 0065-2598            Impact factor:   2.622


  60 in total

Review 1.  Here a virus, there a virus, everywhere the same virus?

Authors:  Mya Breitbart; Forest Rohwer
Journal:  Trends Microbiol       Date:  2005-06       Impact factor: 17.079

Review 2.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

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Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

3.  Threat to Humans from Virus Infections of Non-human Primates.

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Journal:  Rev Med Virol       Date:  1997-12       Impact factor: 6.989

4.  Keep up with the latest coronavirus research.

Authors:  Qingyu Chen; Alexis Allot; Zhiyong Lu
Journal:  Nature       Date:  2020-03       Impact factor: 49.962

Review 5.  Protein Data Bank (PDB): The Single Global Macromolecular Structure Archive.

Authors:  Stephen K Burley; Helen M Berman; Gerard J Kleywegt; John L Markley; Haruki Nakamura; Sameer Velankar
Journal:  Methods Mol Biol       Date:  2017

6.  Amino acids 270 to 510 of the severe acute respiratory syndrome coronavirus spike protein are required for interaction with receptor.

Authors:  Gregory J Babcock; Diana J Esshaki; William D Thomas; Donna M Ambrosino
Journal:  J Virol       Date:  2004-05       Impact factor: 5.103

Review 7.  Mechanisms of coronavirus cell entry mediated by the viral spike protein.

Authors:  Sandrine Belouzard; Jean K Millet; Beth N Licitra; Gary R Whittaker
Journal:  Viruses       Date:  2012-06-20       Impact factor: 5.048

8.  NCBI viral genomes resource.

Authors:  J Rodney Brister; Danso Ako-Adjei; Yiming Bao; Olga Blinkova
Journal:  Nucleic Acids Res       Date:  2014-11-26       Impact factor: 16.971

9.  Genomic characterization of the 2019 novel human-pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan.

Authors:  Jasper Fuk-Woo Chan; Kin-Hang Kok; Zheng Zhu; Hin Chu; Kelvin Kai-Wang To; Shuofeng Yuan; Kwok-Yung Yuen
Journal:  Emerg Microbes Infect       Date:  2020-01-28       Impact factor: 7.163

10.  The proximal origin of SARS-CoV-2.

Authors:  Kristian G Andersen; Andrew Rambaut; W Ian Lipkin; Edward C Holmes; Robert F Garry
Journal:  Nat Med       Date:  2020-04       Impact factor: 87.241

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  3 in total

1.  Whole genome sequencing analysis of SARS-CoV-2 from Malaysia: From alpha to Omicron.

Authors:  Choo Yee Yu; Sie Yeng Wong; Nancy Woan Charn Liew; Narcisse Joseph; Zunita Zakaria; Isa Nurulfiza; Hui Jen Soe; Rachna Kairon; Syafinaz Amin-Nordin; Hui Yee Chee
Journal:  Front Med (Lausanne)       Date:  2022-09-23

2.  Molecular docking and dynamic simulation of conserved B cell epitope of SARS-CoV-2 glycoprotein Indonesian isolates: an immunoinformatic approach.

Authors:  Fedik Abdul Rantam; Viol Dhea Kharisma; Christrijogo Sumartono; Jusak Nugraha; Andi Yasmin Wijaya; Helen Susilowati; Suryo Kuncorojakti; Alexander Patera Nugraha
Journal:  F1000Res       Date:  2021-08-16

3.  A high scale SARS-CoV-2 profiling by its whole-genome sequencing using Oxford Nanopore Technology in Kazakhstan.

Authors:  Ulykbek Kairov; Amina Amanzhanova; Daniyar Karabayev; Saule Rakhimova; Akbota Aitkulova; Diana Samatkyzy; Ruslan Kalendar; Ulan Kozhamkulov; Askhat Molkenov; Aidana Gabdulkayum; Dos Sarbassov; Ainur Akilzhanova
Journal:  Front Genet       Date:  2022-09-02       Impact factor: 4.772

  3 in total

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