Evidence map›Paper›PMID 36519762›Full record

ArticleHuman molecular genetics2023

Novel correlative analysis identifies multiple genomic variations impacting ASD with macrocephaly.

Chen Fu, Justine Ngo, Shanshan Zhang, Leina Lu, Alexander Miron, Simon Schafer, Fred H Gage, Fulai Jin, Fredrick R Schumacher, Anthony Wynshaw-Boris

Open access · greenAbstract read
In one paragraph

Article in Human molecular genetics, 2023. 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
0.6field-weighted citation impact, top 35% 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

3 citing papers in PubMed, 5 citations in OpenAlex.

  1. Review
  2. Review
  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

10 authors at 3 institutions in 1 country.

Chen FuDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Justine NgoDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Shanshan ZhangDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Leina LuDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Alexander MironDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Simon SchaferThe Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Fred H GageThe Salk Institute for Biological Studies, La Jolla, CA 92037, USA.
Fulai JinDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Fredrick R SchumacherDepartment of Population and Quantitative Health Sciences, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.
Anthony Wynshaw-BorisDepartment of Genetics and Genomic Science, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA.ORCID 0000-0002-2780-1540
University School · USSalk Institute for Biological Studies · USCase Western Reserve University · US

Funding

Robust mapping of chromatin loops from sparse or single cell Hi-C data with DeepLoopR01HG009658 · NHGRI · CASE WESTERN RESERVE UNIVERSITY · PI Fulai Jin · 2017 to 2026
$5.1M
Elucidating human beta cell transcriptional regulome with low-input genomic technologiesR01DK113185 · NIDDK · CASE WESTERN RESERVE UNIVERSITY · PI Yan Li · 2018 to 2026
$4.0M
A conserved transcriptional cascade involved in brain overgrowth, social behavior and autismR01MH113106 · NIMH · CASE WESTERN RESERVE UNIVERSITY · PI WYNSHAW-BORIS, ANTHONY J. · 2017 to 2021
$2.9M
STAG2 mutations and 3D genome organization in glioblastoma multiformeR01CA267872 · NCI · GEORGETOWN UNIVERSITY · PI Fulai Jin, TODD A WALDMAN · 2022 to 2026
$2.7M
Mapping heritable chromatin loop variants with allele-specific Hi-C analysisR01HG012384 · NHGRI · CASE WESTERN RESERVE UNIVERSITY · PI Alan D Attie, Fulai Jin · 2023 to 2026
$2.6M
Understanding the variation of induced β-cell differentiation.R01DK131437 · NIDDK · CASE WESTERN RESERVE UNIVERSITY · PI JIN, FULAI, LI, YAN · 2022 to 2025
$2.4M
Simultaneous mapping of somatic mosaicism and kb-resolution 3D genome in single cells.UG3NS132061 · NINDS · CASE WESTERN RESERVE UNIVERSITY · PI JIN, FULAI, LI, YAN · 2023 to 2024
$805k
NCI NIH HHS R01 CA267872NHGRI NIH HHS R01 HG009658NHGRI NIH HHS R01 HG012384NIDDK NIH HHS R01 DK131437NIMH NIH HHS R01 MH113106NINDS NIH HHS UG3 NS132061
6 · The paper itself

Abstract

Autism spectrum disorders (ASD) display both phenotypic and genetic heterogeneity, impeding the understanding of ASD and development of effective means of diagnosis and potential treatments. Genes affected by genomic variations for ASD converge in dozens of gene ontologies (GOs), but the relationship between the variations at the GO level have not been well elucidated. In the current study, multiple types of genomic variations were mapped to GOs and correlations among GOs were measured in ASD and control samples. Several ASD-unique GO correlations were found, suggesting the importance of co-occurrence of genomic variations in genes from different functional categories in ASD etiology. Combined with experimental data, several variations related to WNT signaling, neuron development, synapse morphology/function and organ morphogenesis were found to be important for ASD with macrocephaly, and novel co-occurrence patterns of them in ASD patients were found. Furthermore, we applied this gene ontology correlation analysis method to find genomic variations that contribute to ASD etiology in combination with changes in gene expression and transcription factor binding, providing novel insights into ASD with macrocephaly and a new methodology for the analysis of genomic variation.

Indexed as

Autism Spectrum DisorderMegalencephalyGenomicsHumans

Identifiers

PMID36519762
PMCPMC10162433
OpenAlexW4311589879

What OpenQuestion holds

Textmetadata
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.