ArticleNature2023
Single-cell analysis of chromatin accessibility in the adult mouse brain.
Open access · hybridAbstract readComparative Study
In one paragraph
Article in Nature, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 63 papers.
0numbers the graph read from it
0cells of the map it votes in
63citing papers in PubMed
13.9field-weighted citation impact, top 1% of its field
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.
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.
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Who cites it
63 citing papers in PubMed, 90 citations in OpenAlex.
- The lipidomic architecture of the mouse brain.Nature · 2026Article
- Spatial chromatin architecture and accessibility co-profiling of mammalian tissues.Nature methods · 2026Article
- Article
- Prenatal Alcohol Exposure Produces Selective Changes in Neuroimmune Gene Expression Across Brain Regions of Adult Mice.Alcohol, clinical & experimental research · 2026Article
- High-resolution reconstruction of cell-type-specific transcriptional regulatory processes from bulk sequencing samples.Nature biotechnology · 2026Article
- Cluster replicability in single-cell and single-nucleus atlases of the mouse brain.Nature communications · 2026Article
- Neuronal subtype-specific ribosomal protein mRNA expression.RNA (New York, N.Y.) · 2026Article
- From identity to function: unveiling the cellular complexity of hypothalamic feeding circuits.Reviews in endocrine & metabolic disorders · 2026Review
- CREsted: modeling genomic and synthetic cell-type-specific enhancers across tissues and species.Nature methods · 2026Article
- Spatially decoding genotype-associated epigenetic landscapes in human lymphoma FFPE tissues via epi-Patho-DBiT.Nature communications · 2026Article
- Conserved Cell-Type-Specific Transcriptomic Networks and Regulatory Programs Underlie Alcohol Dependence Across Mouse and Human.Research square · 2026Article
- A Community Standard Multispecies Cell Atlas of the Basal Ganglia.bioRxiv : the preprint server for biology · 2026Article
- A transcriptomic axis aligns with in vivo functional dynamics in hippocampal inhibitory circuits.bioRxiv : the preprint server for biology · 2026Article
- Single-nucleus multiomic profiling of the aging mouse substantia nigra reveals conserved gene alterations linked to Parkinson's disease.Genome research · 2026Article
- Article
- Single-cell epigenomics uncovers heterochromatin instability and transcription factor dysfunction during mouse brain aging.Cell reports · 2026Article
- Single-cell chromatin profiling reveals dynamic regulatory logic and enhancer elements in brain and retina development.bioRxiv : the preprint server for biology · 2026Article
- Single-cell spatial map of cis-regulatory elements for disease-related genes in the macaque cortex.Nature communications · 2026Article
- Advances in single-cell and spatial omics for studying symbiotic nitrogen fixation: comparative cellular and evolutionary perspectives.Genome biology · 2026Review
- Article
3 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
37 authors at 5 institutions in 2 countries.
Songpeng Zu *Department of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0001-9753-5623
Yang Eric Li *Department of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0001-6997-6018
Kangli Wang *Department of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0009-0008-0699-0101
Ethan J ArmandDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Sainath MamdeDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Maria Luisa AmaralDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Yuelai WangDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Andre ChuDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0009-0001-2113-0897
Yang XieDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0002-7453-6786
Michael MillerCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0003-0781-7868
Jie XuDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Zhaoning WangDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0002-0290-4746
Kai ZhangDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0003-3454-7357
Bojing JiaDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Xiaomeng HouCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Lin LinCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Qian YangCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Seoyeon LeeDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Bin LiDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Samantha KuanDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Hanqing LiuGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Jingtian ZhouGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Antonio Pinto-DuarteThe Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-2215-7653
Jacinta LuceroThe Salk Institute for Biological Studies, La Jolla, CA, USA.
Julia OsteenThe Salk Institute for Biological Studies, La Jolla, CA, USA.
Michael NunnHoward Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Kimberly A SmithAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-3142-1970
Bosiljka TasicAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-6861-4506
Zizhen YaoAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-9361-5607
Hongkui ZengAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-0326-5878
Zihan WangDepartment of Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA.
Jingbo ShangDepartment of Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA.
M Margarita BehrensThe Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-7168-8186
Joseph R EckerHoward Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0001-5799-5895
Allen WangCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.
Sebastian PreisslCenter for Epigenomics, University of California San Diego, School of Medicine, La Jolla, CA, USA.ORCID 0000-0001-8971-5616
Bing RenDepartment of Cellular and Molecular Medicine, University of California San Diego, School of Medicine, La Jolla, CA, USA. biren@health.ucsd.edu.ORCID 0000-0002-5435-1127
University of California San Diego · USSalk Institute for Biological Studies · USAllen Institute for Brain Science · USUniversity of Freiburg · DEWashington University in St. Louis · US
Funding
Generation of novel cell type specific mouse genetic toolsU19MH114830 · NIMH · ALLEN INSTITUTE · PI ZENG, HONGKUI · 2017 to 2021
$64.7MMolecular SignaturesU19MH114831 · NIMH · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI CALLAWAY, EDWARD M, ECKER, JOSEPH R · 2017 to 2021
$24.6MIllumina NovaSeq 6000 Sequencing SystemS10OD026929 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JEPSEN, KRISTEN LYNN · 2019 to 2019
$600kNIH HHS S10 OD026929NIMH NIH HHS U19 MH114830NIMH NIH HHS U19 MH114831
Abstract
Recent advances in single-cell technologies have led to the discovery of thousands of brain cell types; however, our understanding of the gene regulatory programs in these cell types is far from complete
Indexed as
BrainChromatinSingle-Cell AnalysisAnimalsCerebral CortexDeep LearningDNA Transposable ElementsGene Regulatory NetworksHumansMiceNeuronsChromatinDNA Transposable Elements
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