Evidence map›Paper›PMID 32143403›Full record

ArticleGenes2020

Identification of Structural Variation in Chimpanzees Using Optical Mapping and Nanopore Sequencing.

Daniela C Soto, Colin Shew, Mira Mastoras, Joshua M Schmidt, Ruta Sahasrabudhe, Gulhan Kaya, Aida M Andrés, Megan Y Dennis

Open access · goldAbstract read
In one paragraph

Article in Genes, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
1.4field-weighted citation impact, top 19% 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

14 citing papers in PubMed, 24 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Local genetic adaptation to habitat in wild chimpanzees.bioRxiv : the preprint server for biology · 2024
    Article
  6. Article
  7. Review
  8. The evolution of the human DNA replication timing program.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  9. Article
  10. Population-scale genotyping of structural variation in the era of long-read sequencing.Computational and structural biotechnology journal · 2022
    Review
  11. Article
  12. Article
  13. Review
  14. Chromosome Painting in Cultivated Bananas and Their Wild Relatives (International journal of molecular sciences · 2020
    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

8 authors at 2 institutions in 2 countries.

Daniela C SotoGenome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, Davis, CA 95616, USA.ORCID 0000-0002-6292-655X
Colin ShewGenome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, Davis, CA 95616, USA.
Mira MastorasGenome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, Davis, CA 95616, USA.
Joshua M SchmidtUCL Genetics Institute, Department of Genetics, Evolution and Environment, University College London, London WC1E 6BT, UK.ORCID 0000-0002-5862-7389
Ruta SahasrabudheDNA Technologies Sequencing Core Facility, University of California, Davis, CA 95616, USA.
Gulhan KayaGenome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, Davis, CA 95616, USA.
Aida M AndrésUCL Genetics Institute, Department of Genetics, Evolution and Environment, University College London, London WC1E 6BT, UK.
Megan Y DennisGenome Center, MIND Institute, and Department of Biochemistry & Molecular Medicine, Davis, CA 95616, USA.ORCID 0000-0002-8502-5420
University of California, Davis · USUniversity College London · GB

Funding

The function of duplicated genes in human brain evolution and diseaseDP2MH119424 · NIMH · UNIVERSITY OF CALIFORNIA AT DAVIS · PI DENNIS, MEGAN Y · 2018 to 2018
$2.4M
Characterization of Human-Specific Duplicated Genes Implicated in NeurocognitiveR00NS083627 · NINDS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI DENNIS, MEGAN Y · 2016 to 2018
$727k
NIH Office of the Director DP2 OD025824NIMH NIH HHS DP2 MH119424NINDS NIH HHS R00 NS083627NINDS NIH HHS R00NS083627Wellcome Trust 204841/Z/16/Z
6 · The paper itself

Abstract

Recent efforts to comprehensively characterize great ape genetic diversity using short-read sequencing and single-nucleotide variants have led to important discoveries related to selection within species, demographic history, and lineage-specific traits. Structural variants (SVs), including deletions and inversions, comprise a larger proportion of genetic differences between and within species, making them an important yet understudied source of trait divergence. Here, we used a combination of long-read and -range sequencing approaches to characterize the structural variant landscape of two additional

Indexed as

AnimalsChromosome InversionGenomeGenomicsGenomic Structural VariationGorilla gorillaHominidaeHumansNanopore SequencingPan troglodytesRestriction MappingSequence Analysis, DNAchimpanzeechromatin organizationcomparative genomicsgene regulationnanopore sequencingnatural selectionoptical mappingstructural variation

Identifiers

PMID32143403
PMCPMC7140787
OpenAlexW3009293561

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.