Evidence map›Paper›PMID 39486878›Full record

ArticleGenome research2024

Leveraging the T2T assembly to resolve rare and pathogenic inversions in reference genome gaps.

Kristine Bilgrav Saether, Jesper Eisfeldt, Jesse D Bengtsson, Ming Yin Lun, Christopher M Grochowski, Medhat Mahmoud, Hsiao-Tuan Chao, Jill A Rosenfeld, Pengfei Liu, Marlene Ek and 12 more

Abstract read
In one paragraph

Article in Genome research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing 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

11 citing papers in PubMed.

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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

22 authors.

Kristine Bilgrav SaetherDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden.
Jesper EisfeldtDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden; jesper.eisfeldt@scilifelab.se anna.lindstrand@ki.se.
Jesse D BengtssonPacific Northwest Research Institute, Seattle, Washington 98122, USA.
Ming Yin LunPacific Northwest Research Institute, Seattle, Washington 98122, USA.
Christopher M GrochowskiDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.ORCID 0000-0002-3884-7720
Medhat MahmoudDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.ORCID 0000-0002-2553-4231
Hsiao-Tuan ChaoDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.ORCID 0000-0002-2854-5470
Jill A RosenfeldDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.
Pengfei LiuDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.ORCID 0000-0002-4177-709X
Marlene EkDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden.
Jakob SchuyDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden.
Adam AmeurScience for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University, 751 85 Uppsala, Sweden.ORCID 0000-0001-6085-6749
Hongzheng DaiDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.
Undiagnosed Diseases Network
James Paul HwangHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas 77030, USA.
Fritz J SedlazeckDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.
Weimin BiDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.
Ronit MaromDepartment of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.
Josephine WincentDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden.
Ann NordgrenDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden.ORCID 0000-0003-3285-4281
Claudia M B CarvalhoPacific Northwest Research Institute, Seattle, Washington 98122, USA.
Anna LindstrandDepartment of Molecular Medicine and Surgery, Karolinska Institute, 171 76 Stockholm, Sweden; jesper.eisfeldt@scilifelab.se anna.lindstrand@ki.se.ORCID 0000-0003-0806-5602

Funding

Pilot of New Technologies to Increase the Genomic Diagnosis of Undiagnosed Disease Network (UDN) PatientsU01HG007709 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI BACINO, CARLOS A., LEE, BRENDAN · 2014 to 2022
$14.3M
Clinical Sequencing Core Facility for the Undiagnosed Diseases Network (UDN)U01HG007942 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI ENG, CHRISTINE · 2014 to 2021
$10.2M
Urine-Derived Cell RNA Sequencing to Improve Diagnosis in Undiagnosed UDN Participants.U01NS134348 · NINDS · BAYLOR COLLEGE OF MEDICINE · PI Carlos A. Bacino, Brendan Lee · 2023 to 2026
$3.8M
Uncovering inversion formation in the human genome and its impact to disease.R01GM132589 · NIGMS · PACIFIC NORTHWEST RESEARCH INSTITUTE · PI FONSECA, CLAUDIA CARVALHO · 2020 to 2024
$3.5M
Shared Sequel II Systems at BCM HGSCS10OD028587 · OD · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2020 to 2020
$508k
NHGRI NIH HHS U01 HG007709NHGRI NIH HHS U01 HG007942NIGMS NIH HHS R01 GM132589NIH HHS S10 OD028587NINDS NIH HHS U01 NS134348
6 · The paper itself

Abstract

Chromosomal inversions (INVs) are particularly challenging to detect due to their copy-number neutral state and association with repetitive regions. Inversions represent about 1/20 of all balanced structural chromosome aberrations and can lead to disease by gene disruption or altering regulatory regions of dosage-sensitive genes in

Indexed as

Chromosome InversionGenome, HumanAnimalsHumansPan troglodytesWhole Genome Sequencing

Identifiers

PMID39486878
PMCPMC11610578

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Registered trials

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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.