Evidence map›Paper›PMID 33948451›Full record

ArticleArXiv2021

Unlocking capacities of viral genomics for the COVID-19 pandemic response.

Sergey Knyazev, Karishma Chhugani, Varuni Sarwal, Ram Ayyala, Harman Singh, Smruthi Karthikeyan, Dhrithi Deshpande, Zoia Comarova, Angela Lu, Yuri Porozov and 12 more

Abstract readPreprint
PubMed Full text at PMC
In one paragraph

Article in ArXiv, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

22 authors.

Sergey KnyazevDepartment of Computer Science, College of Art and Science, Georgia State University, 1 Park Place, Room 618, Atlanta, GA 30303, USA.ORCID 0000-0003-0385-1831
Karishma ChhuganiDepartment of Pharmacology and Pharmaceutical Sciences, School of Pharmacy, University of Southern California, 1985 Zonal Avenue, Room 713. Los Angeles, CA 90089, USA.ORCID 0000-0003-1328-5028
Varuni SarwalDepartment of Computer Science, University of California Los Angeles, 580 Portola Plaza, Los Angeles, CA 90095, USA.ORCID 0000-0001-7563-9835
Ram AyyalaDepartment of Neuroscience, College of Life Sciences, University of California Los Angeles, 580 Portola Plaza, Los Angeles, CA 90095, USA.ORCID 0000-0001-7275-271X
Harman SinghDepartment of Electrical Engineering, Indian Institute of Technology, Hauz Khas, New Delhi, 110016, India.ORCID 0000-0002-3970-6276
Smruthi KarthikeyanDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
Dhrithi DeshpandeDepartment of Pharmacology and Pharmaceutical Sciences, School of Pharmacy, University of Southern California, 1985 Zonal Avenue, Room 713. Los Angeles, CA 90089, USA.ORCID 0000-0003-3794-7364
Zoia ComarovaParadigm Environmental, 3911 Old Lee Highway, Fairfax, VA 22030.
Angela LuDepartment of Pharmacology and Pharmaceutical Sciences, School of Pharmacy, University of Southern California, 1985 Zonal Avenue, Room 713. Los Angeles, CA 90089-9121, USA.
Yuri PorozovWorld-Class Research Center "Digital biodesign and personalized healthcare", I.M. Sechenov First Moscow State Medical University, Moscow, Russia.
Aiping WuCenter for Systems Medicine, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, 100005, China.
Malak S AbedalthagafiGenomics Research Department, Saudi Human Genome Project, King Fahad Medical City and King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.ORCID 0000-0003-1786-3366
Shivashankar H NagarajCentre for Genomics and Personalised Health, Queensland University of Technology, Brisbane, QLD 4059, Australia.
Adam L SmithAstani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089.
Pavel SkumsDepartment of Computer Science, College of Art and Science, Georgia State University, 1 Park Place, Floor 6, Atlanta, GA 30303, USA.
Jason LadnerThe Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ 86011.
Tommy Tsan-Yuk LamState Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong.
Nicholas C WuDepartment of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.ORCID 0000-0002-9078-6697
Alex ZelikovskyDepartment of Computer Science, College of Art and Science, Georgia State University, 1 Park Place, Floor 6, Atlanta, GA 30303, USA.ORCID 0000-0003-4424-4691
Rob KnightDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
Keith A CrandallComputational Biology Institute and Department of Biostatistics & Bioinformatics, Milken Institute School of Public Health, George Washington University, Washington, DC 20052.
Serghei MangulDepartment of Clinical Pharmacy, School of Pharmacy, University of Southern California, 1540 Alcazar Street, Los Angeles, CA 90033, USA.ORCID 0000-0003-4770-3443

Funding

QUBBD: VIRAL EVOLUTION AND SPREAD OF INFECTIOUS DISEASE IN COMPLEX NETWORK: BIG DATA ANALYSIS AND MODELINGR01EB025022 · NIBIB · GEORGIA STATE UNIVERSITY · PI SKUMS, PAVEL, VANNBERG, FREDRIK · 2017 to 2019
$891k
NIBIB NIH HHS R01 EB025022
6 · The paper itself

Abstract

More than any other infectious disease epidemic, the COVID-19 pandemic has been characterized by the generation of large volumes of viral genomic data at an incredible pace due to recent advances in high-throughput sequencing technologies, the rapid global spread of SARS-CoV-2, and its persistent threat to public health. However, distinguishing the most epidemiologically relevant information encoded in these vast amounts of data requires substantial effort across the research and public health communities. Studies of SARS-CoV-2 genomes have been critical in tracking the spread of variants and understanding its epidemic dynamics, and may prove crucial for controlling future epidemics and alleviating significant public health burdens. Together, genomic data and bioinformatics methods enable broad-scale investigations of the spread of SARS-CoV-2 at the local, national, and global scales and allow researchers the ability to efficiently track the emergence of novel variants, reconstruct epidemic dynamics, and provide important insights into drug and vaccine development and disease control. Here, we discuss the tremendous opportunities that genomics offers to unlock the effective use of SARS-CoV-2 genomic data for efficient public health surveillance and guiding timely responses to COVID-19.

Identifiers

PMID33948451
PMCPMC8095210

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.