Evidence map›Paper›PMID 33758846›Full record

ArticlebioRxiv : the preprint server for biology2021

Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants.

Elizabeth Jaworski, Rose M Langsjoen, Brooke Mitchell, Barbara Judy, Patrick Newman, Jessica A Plante, Kenneth S Plante, Aaron L Miller, Yiyang Zhou, Daniele Swetnam and 14 more

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

Article in bioRxiv : the preprint server for biology, 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, 8 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

24 authors at 1 institution in 1 country.

Elizabeth JaworskiDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Rose M LangsjoenDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Brooke MitchellWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Barbara JudyDepartment of Pediatrics, University of Texas Medical Branch, Galveston, TX, USA.
Patrick NewmanDepartment of Pathology, University of Texas Medical Branch, Galveston TX, USA.
Jessica A PlanteWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Kenneth S PlanteWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Aaron L MillerDepartment of Pediatrics, University of Texas Medical Branch, Galveston, TX, USA.
Yiyang ZhouDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Daniele SwetnamDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Stephanea SotcheffDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Victoria MorrisDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Nehad SaadaWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Rafael MachadoWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Allan McConnellWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Steve WidenDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
Jill ThompsonNext-Generation Sequencing Core, The University of Texas Medical Branch, Galveston, TX, USA.
Jianli DongDepartment of Pediatrics, University of Texas Medical Branch, Galveston, TX, USA.
Ping RenDepartment of Microbiology and Immunology, The University of Texas Medical Branch, Galveston, TX, USA.
Rick B PylesDepartment of Pediatrics, University of Texas Medical Branch, Galveston, TX, USA.
Thomas KsiazekWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Vineet D MenacheryWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Scott C WeaverWorld Reference Center for Emerging Viruses and Arboviruses, University of Texas Medical Branch, Galveston, TX, USA.
Andrew RouthDepartment of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, TX, USA.
The University of Texas Medical Branch at Galveston · US

Funding

X-ray Crystallographic Fragment Screening CoreU54AI150472 · NIAID · SEATTLE CHILDREN'S HOSPITAL · PI OLSON, ARTHUR J. · 2019 to 2021
$15.7M
West African Center for Emerging Infectious DiseasesU01AI151801 · NIAID · UNIVERSITY OF TEXAS MED BR GALVESTON · PI Robert W Cross, Scott C Weaver · 2020 to 2026
$10.1M
World Reference Center for Emerging Viruses and Arboviruses (WRCEVA)R24AI120942 · NIAID · UNIVERSITY OF TEXAS MED BR GALVESTON · PI WEAVER, SCOTT C · 2016 to 2024
$8.5M
UTMB Clinical and Translational Science AwardTL1TR001440 · NCATS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI HOMMEL, JONATHAN DEAN · 2015 to 2024
$3.4M
Identifying host and viral correlates for coronavirus pathogenesisR01AI153602 · NIAID · UNIVERSITY OF TEXAS MED BR GALVESTON · PI JOHNSON, BRYAN A · 2020 to 2023
$2.0M
Defective viral RNAs promote a pro-viral stress response via host non-coding RNAsR21AI151725 · NIAID · UNIVERSITY OF TEXAS MED BR GALVESTON · PI ROUTH, ANDREW LAURENCE · 2020 to 2021
$435k
NCATS NIH HHS TL1 TR001440NIAID NIH HHS R01 AI153602NIAID NIH HHS R21 AI151725NIAID NIH HHS R24 AI120942NIAID NIH HHS U01 AI151801NIAID NIH HHS U54 AI150472
6 · The paper itself

Abstract

High-throughput genomics of SARS-CoV-2 is essential to characterize virus evolution and to identify adaptations that affect pathogenicity or transmission. While single-nucleotide variations (SNVs) are commonly considered as driving virus adaption, RNA recombination events that delete or insert nucleic acid sequences are also critical. Whole genome targeting sequencing of SARS-CoV-2 is typically achieved using pairs of primers to generate cDNA amplicons suitable for Next-Generation Sequencing (NGS). However, paired-primer approaches impose constraints on where primers can be designed, how many amplicons are synthesized and requires multiple PCR reactions with non-overlapping primer pools. This imparts sensitivity to underlying SNVs and fails to resolve RNA recombination junctions that are not flanked by primer pairs. To address these limitations, we have designed an approach called '

Identifiers

PMID33758846
PMCPMC7987005
OpenAlexW3133980622

What OpenQuestion holds

Textmetadata
LicenceCC BY-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.