Evidence map›Paper›PMID 33623833›Full record

ArticleGene reports2021

Characterizing genomic variants and mutations in SARS-CoV-2 proteins from Indian isolates.

Jayanta Kumar Das, Antara Sengupta, Pabitra Pal Choudhury, Swarup Roy

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Gene reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
1.7field-weighted citation impact, top 13% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

16 citing papers in PubMed, 27 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors at 4 institutions in 2 countries.

Jayanta Kumar DasDepartment of Pediatrics, School of Medicine, Johns Hopkins University, MD 21205, USA.
Antara SenguptaDepartment of Computer Science and Engineering, University of Calcutta, India.
Pabitra Pal ChoudhuryApplied Statistics Unit, Indian Statistical Institute, Kolkata 700108, India.
Swarup RoyNetwork Reconstruction & Analysis (NetRA Lab), Department of Computer Applications, Sikkim University, Sikkim 737102, India.
Indian Statistical Institute · INJohns Hopkins University · USSikkim University · INUniversity of Calcutta · IN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

SARS-CoV-2 is mutating and creating divergent variants by altering the composition of essential constituent proteins. Pharmacologically, it is crucial to understand the diverse mechanism of mutations for stable vaccine or anti-viral drug design. Our current study concentrates on all the constituent proteins of 469 SARS-CoV-2 genome samples, derived from Indian patients. However, the study may easily be extended to the samples across the globe. We perform clustering analysis towards identifying unique variants in each of the SARS-CoV-2 proteins. A total of 536 mutated positions within the coding regions of SARS-CoV-2 proteins are detected among the identified variants from Indian isolates. We quantify mutations by focusing on the unique variants of each SARS-CoV-2 protein. We report the average number of mutation per variant, percentage of mutated positions, synonymous and non-synonymous mutations, mutations occurring in three codon positions and so on. Our study reveals the most susceptible six (06) proteins, which are

Indexed as

AA, amino acidCodon positionCoV, coronavirusesCOVID-19CP, codon positionCTD, C-terminal domainDeleterious substitutionsFunctional domainHR, heptapeptide repeatMut, mutationNon-synonymous mutationsNS, non-synonymousNTD, N-terminal domainProtein stabilitySARS, severe acute respiratory syndromeSyn, synonymousTM, transmembrane domain

Identifiers

PMID33623833
PMCPMC7893251
OpenAlexW3129754105

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.