Evidence map›Paper›PMID 33996146›Full record

ArticleVirus evolution2021

LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data.

Ahmed Al Qaffas, Jenna Nichols, Andrew J Davison, Amine Ourahmane, Laura Hertel, Michael A McVoy, Salvatore Camiolo

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Virus evolution, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
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

7 authors.

Ahmed Al QaffasDepartment of Pediatrics, Virginia Commonwealth University, Richmond, VA, USA.
Jenna NicholsMRC-University of Glasgow Centre for Virus Research, Glasgow, UK.
Andrew J DavisonMRC-University of Glasgow Centre for Virus Research, Glasgow, UK.
Amine OurahmaneDepartment of Pediatrics, Virginia Commonwealth University, Richmond, VA, USA.
Laura HertelDepartment of Pediatrics, School of Medicine, University of California San Francisco, Oakland, CA, USA.
Michael A McVoyDepartment of Pediatrics, Virginia Commonwealth University, Richmond, VA, USA.
Salvatore CamioloMRC-University of Glasgow Centre for Virus Research, Glasgow, UK.ORCID https://orcid.org/0000-0001-7265-5960

Funding

Cytomegalovirus Tropisms for Oral Cells: Key to a Vaccine to Prevent Maternal InfectionR01AI128912 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI HERTEL, LAURA, MCVOY, MICHAEL A · 2017 to 2020
$2.0M
Medical Research Council MC_UU_12014/3NIAID NIH HHS R01 AI128912Wellcome Trust 204870/Z/16/Z
6 · The paper itself

Abstract

Long-read, single-molecule DNA sequencing technologies have triggered a revolution in genomics by enabling the determination of large, reference-quality genomes in ways that overcome some of the limitations of short-read sequencing. However, the greater length and higher error rate of the reads generated on long-read platforms make the tools used for assembling short reads unsuitable for use in data assembly and motivate the development of new approaches. We present LoReTTA (Long Read Template-Targeted Assembler), a tool designed for performing

Indexed as

de novo assemblylong read assemblerPacBioviral genomics

Identifiers

PMID33996146
PMCPMC8111061

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.