Evidence map›Paper›PMID 37292880›Full record

ArticlebioRxiv : the preprint server for biology2023

Novel and improved

Nicolas D Moya, Lewis Stevens, Isabella R Miller, Chloe E Sokol, Joseph L Galindo, Alexandra D Bardas, Edward S H Koh, Justine Rozenich, Cassia Yeo, Maryanne Xu and 1 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. 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

11 authors.

Nicolas D MoyaDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Lewis StevensDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Isabella R MillerDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Chloe E SokolDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Joseph L GalindoDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Alexandra D BardasDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Edward S H KohDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Justine RozenichDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Cassia YeoDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Maryanne XuDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.
Erik C AndersenDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA.

Funding

Developing Capacity to Evaluate Training Programs via Development of Human, Institutional and Social CapitalT32GM008449 · NIGMS · NORTHWESTERN UNIVERSITY · PI LEONARD, JOSHUA NATHANIEL · 1993 to 2023
$7.8M
Discovery of conserved molecular mechanisms underlying population-wide variation in toxin responsesR01ES029930 · NIEHS · NORTHWESTERN UNIVERSITY · PI ANDERSEN, ERIK CHRISTIAN, BAUGH, LARRY RYAN · 2019 to 2023
$3.2M
Genetic and genomic tools for C. briggsae researchR21OD030067 · OD · OHIO STATE UNIVERSITY · PI ANDERSEN, ERIK CHRISTIAN, CHAMBERLIN, HELEN M · 2022 to 2023
$431k
NIEHS NIH HHS R01 ES029930NIGMS NIH HHS T32 GM008449NIH HHS R21 OD030067
6 · The paper itself

Abstract

Background: The nematode Results: We designed a detailed workflow to train a team of nine students to manually curate genes using RNA read alignments and predicted gene models. We manually inspected the gene models using the genome annotation editor, Apollo, and proposed corrections to the coding sequences of over 8,000 genes. Additionally, we modeled thousands of putative isoforms and untranslated regions. We exploited the conservation of protein sequence length between Conclusions: Community-based, manual curation using transcriptome data is an effective approach to improve the quality of software-derived protein-coding genes. Comparative genomic analysis using a related species with high-quality reference genome(s) and gene models can be used to quantify improvements in gene model quality in a newly sequenced genome. The detailed protocols provided in this work can be useful for future large-scale manual curation projects in other species. The chromosome-level reference genome for the

Identifiers

PMID37292880
PMCPMC10245686

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.