ArticleNature2023
Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain.
Open access · hybridAbstract read
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 96 papers.
0numbers the graph read from it
0cells of the map it votes in
96citing papers in PubMed
19.5field-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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
96 citing papers in PubMed, 121 citations in OpenAlex.
- Spatial chromatin architecture and accessibility co-profiling of mammalian tissues.Nature methods · 2026Article
- The lipidomic architecture of the mouse brain.Nature · 2026Article
- SMORE: joint dimension reduction and cell population discovery on single-cell methylome data.bioRxiv : the preprint server for biology · 2026Article
- Maternal immune activation disrupts epigenomic and functional maturation of cortical excitatory neurons.Molecular psychiatry · 2026Article
- MethyAnno: An Interpretable Automated Annotation Method Leveraging Multi-Scale Information and Metric Learning Framework for scDNAm Data.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Integrative analysis of single-cell multi-omics reveals heterogeneity in piriform cortex principal neurons and their selective vulnerability in Alzheimer's disease.Clinical and translational medicine · 2026Article
- Human body single-cell atlas of three-dimensional genome organization and DNA methylation.Science (New York, N.Y.) · 2026Article
- The applications of single-cell and spatial transcriptomics in neuroscience and brain disorders.Neuroscience and biobehavioral reviews · 2026Review
- Brain Spatial Genomics Atlases.Genes · 2026Review
- Review
- Cluster replicability in single-cell and single-nucleus atlases of the mouse brain.Nature communications · 2026Article
- Early postnatal DNA methylation dynamics define neuronal subtypes and are disrupted by MECP2 loss.bioRxiv : the preprint server for biology · 2026Article
- Single-nucleus multiomic atlas of ALS primary motor cortex nominates neuroprotective WDR49-expressing astrocytes.Research square · 2026Article
- From identity to function: unveiling the cellular complexity of hypothalamic feeding circuits.Reviews in endocrine & metabolic disorders · 2026Review
- Chromatin-associated intronic RNAs from long genes form introsomes that shape nuclear architecture in neuronal cells.bioRxiv : the preprint server for biology · 2026Article
- Single-cell polygenic risk scores dissect cellular and molecular heterogeneity of complex human diseases.Nature biotechnology · 2026Article
- Article
- Mechanistic Links Between DNA Methylation and Protein Translation and Their Impacts on Brain Development.Biology · 2026Review
- 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
36 more citing papers are in PubMed but not listed here.
Corrections and comments
- Update of
Authors and funding
34 authors at 5 institutions in 1 country.
Hanqing Liu *Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Qiurui Zeng *Genomic 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.
Anna BartlettGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0001-7059-4033
Bang-An WangGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Peter BerubeGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Wei TianGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Mia KenworthyGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Jordan AltshulGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Joseph R NeryGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0003-0153-5659
Huaming ChenGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0001-5289-7882
Rosa G CastanonGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0003-1791-002X
Songpeng ZuDepartment of Cellular and Molecular Medicine, University of California, San Diego School of Medicine, La Jolla, CA, USA.ORCID 0000-0001-9753-5623
Yang Eric LiDepartment of Cellular and Molecular Medicine, University of California, San Diego School of Medicine, La Jolla, CA, USA.ORCID 0000-0001-6997-6018
Jacinta LuceroComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Julia K OsteenComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Antonio Pinto-DuarteComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-2215-7653
Jasper LeeComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0003-2086-1441
Jon RinkComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0009-0007-4651-0443
Silvia ChoComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Nora EmersonComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0001-7344-4487
Michael NunnGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Carolyn O'ConnorFlow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA.
Zhanghao WuSky Computing Lab, University of California, Berkeley, Berkeley, CA, USA.
Ion StoicaSky Computing Lab, University of California, Berkeley, Berkeley, CA, USA.
Zizhen YaoAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-9361-5607
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
Chongyuan LuoDepartment of Human Genetics, University of California, Los Angeles, Los Angeles, CA, USA.
Jesse R DixonPeptide Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-6273-2181
Hongkui ZengAllen Institute for Brain Science, Seattle, WA, USA.ORCID 0000-0002-0326-5878
Bing RenDepartment of Cellular and Molecular Medicine, University of California, San Diego School of Medicine, La Jolla, CA, USA.ORCID 0000-0002-5435-1127
M Margarita BehrensComputational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-7168-8186
Joseph R EckerGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA. ecker@salk.edu.ORCID 0000-0001-5799-5895
Salk Institute for Biological Studies · USAllen Institute for Brain Science · USUniversity of California San Diego · USUniversity of California, Berkeley · USUniversity of California, Los Angeles · US
Funding
Viral Vector Core (VVC)P30CA014195 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Alan Saghatelian · 1985 to 2026
$82.8MGeneration of novel cell type specific mouse genetic toolsU19MH114830 · NIMH · ALLEN INSTITUTE · PI NGAI, JOHN J. · 2017 to 2021
$64.7MMolecular SignaturesU19MH114831 · NIMH · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI CALLAWAY, EDWARD M, ECKER, JOSEPH R · 2017 to 2021
$24.6MBD FACSAria Fusion for Flow Cytometry Core FacilityS10OD023689 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI ZHENG, YE · 2018 to 2018
$530kNCI NIH HHS P30 CA014195NIH HHS S10 OD023689NIMH NIH HHS U19 MH114830NIMH NIH HHS U19 MH114831
Abstract
Cytosine DNA methylation is essential in brain development and is implicated in various neurological disorders. Understanding DNA methylation diversity across the entire brain in a spatial context is fundamental for a complete molecular atlas of brain cell types and their gene regulatory landscapes. Here we used single-nucleus methylome sequencing (snmC-seq3) and multi-omic sequencing (snm3C-seq)
Indexed as
BrainDNA MethylationEpigenomeMultiomicsSingle-Cell AnalysisAnimalsChromatinCytosineDatasets as TopicMiceTranscription FactorsTranscription, GeneticChromatinCytosineTranscription Factors
Identifiers
What Socratic 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 Socratic graph.