ArticleNature2025
Spatial transcriptomics reveals human cortical layer and area specification.
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Article in Nature, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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57citing papers in PubMed
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Who cites it
57 citing papers in PubMed.
- Spatiotemporal development of sparse excitatory neuronal types within the deep mouse cortex.iScience · 2026Article
- Article
- Morphogen-guided neocortical organoids with anteroposterior areal identity.Cell stem cell · 2026Article
- PRISM: Prior-enhanced Inference for Spatial Transcriptomic Cell Type Mapping.Bioinformatics (Oxford, England) · 2026Article
- Article
- Regional Functional Molecular Profiles Within the Mammalian Cortex: A Commentary on Limbic Mesocortex.The Journal of comparative neurology · 2026Article
- A consensus atlas of human brain development defines cell type-specific maturation trajectories across the lifespan.bioRxiv : the preprint server for biology · 2026Article
- Transcriptomic profiling of subpopulations of mouse embryonic subplate neurons.Journal of anatomy · 2026Article
- Biophysical modeling of anatomically realistic prenatal cortical folding development.Nature communications · 2026Article
- Advances in the Comprehensive Tree Shrew Brain Atlas.Biomolecules · 2026Review
- Gene expression profiling enables refined parcellation of cortical layers in the heterogeneous human cerebral cortex.Genome medicine · 2026Article
- Dissecting human organ development using spatial technologies.Developmental cell · 2026Review
- The applications of single-cell and spatial transcriptomics in neuroscience and brain disorders.Neuroscience and biobehavioral reviews · 2026Review
- Imaging-Based Spatial Transcriptomics: Data Interpretation Methods and Biomedical Applications.Biology · 2026Review
- Review
- SpNeigh: spatial neighborhood and differential expression analysis for high-resolution spatial transcriptomics.NAR genomics and bioinformatics · 2026Article
- m6A target gene signatures reveal immune-related diagnostic biomarkers in systemic sclerosis-associated pulmonary arterial hypertension.Journal of thoracic disease · 2026Article
- Spatially resolved single cell analysis suggests an APOE NCF1 associated immunosuppressive niche and its prognostic signature in thyroid cancer.Discover oncology · 2026Article
- Intrinsic coordination of dynamic molecular signatures shape the human prefrontal cortex.bioRxiv : the preprint server for biology · 2026Article
- A comprehensive survey of computer vision methods for spatial transcriptomics.Briefings in bioinformatics · 2026Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
27 authors.
Xuyu Qian *Division of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA. qianxuyu@gmail.com.ORCID 0000-0001-5944-3816
Kyle Coleman *Statistical Center for Single-Cell and Spatial Genomics, Department of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Shunzhou Jiang *Statistical Center for Single-Cell and Spatial Genomics, Department of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0009-0000-7309-2389
Andrea J KrizDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Jack H MarcianoDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-0238-9916
Chunyu LuoStatistical Center for Single-Cell and Spatial Genomics, Department of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID 0009-0004-7047-0857
Chunhui CaiResearch Computing, Department of Information Technology, Boston Children's Hospital, Boston, MA, USA.
Monica Devi ManamDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Emre CaglayanDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0001-5340-8614
Abbe LaiDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
David Exposito-AlonsoDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-4950-2744
Aoi OtaniDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Urmi GhoshDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Diane D ShaoDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0003-2087-4082
Rebecca E AndersenDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-0702-3120
Jennifer E NeilDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.
Robert JohnsonUniversity of Maryland Brain and Tissue Bank, Department of Pediatrics, University of Maryland School of Medicine, Baltimore, MD, USA.
Alexandra LeFevreUniversity of Maryland Brain and Tissue Bank, Department of Pediatrics, University of Maryland School of Medicine, Baltimore, MD, USA.
Jonathan L HechtDepartment of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.
Nicola MicaliDepartment of Neuroscience, Yale School of Medicine, New Haven, CT, USA.ORCID 0009-0002-2936-4708
Nenad SestanDepartment of Neuroscience, Yale School of Medicine, New Haven, CT, USA.ORCID 0000-0003-0966-9619
Pasko RakicDepartment of Neuroscience, Yale School of Medicine, New Haven, CT, USA.ORCID 0000-0002-6963-0508
Michael B MillerDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-6205-3314
Liang SunResearch Computing, Department of Information Technology, Boston Children's Hospital, Boston, MA, USA.
Carsen StringerJanelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA.ORCID 0000-0002-9229-4100
Mingyao LiStatistical Center for Single-Cell and Spatial Genomics, Department of Biostatistics, Epidemiology and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. mingyao@pennmedicine.upenn.edu.ORCID 0000-0001-8180-0621
Christopher A WalshDivision of Genetics and Genomics, Department of Pediatrics, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA. christopher.walsh@childrens.harvard.edu.ORCID 0000-0002-0156-2238
Funding
Cell Identity Determination In Human Brain: Somatic Mutation and Cell LineageR01NS032457 · NINDS · BOSTON CHILDREN'S HOSPITAL · PI Alice Eunjung Lee, Christopher A. Walsh · 1995 to 2026
$12.7MTRAINING GRANT IN GENETICST32GM007748 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI Anne O'Donnell-Luria, Louise Wilkins-Haug · 1985 to 2026
$12.0MGenetic Analysis and Manipulation Core (GAEC)P50HD105351 · NICHD · BOSTON CHILDREN'S HOSPITAL · PI SCOTT Loren POMEROY, MUSTAFA SAHIN · 2021 to 2026
$9.4MOrigin of Cortical Species-specific Distinctions.R01DA023999 · NIDA · YALE UNIVERSITY · PI RAKIC, PASKO · 2008 to 2019
$7.9MOrigin of Cortical Species-specific DistinctionsR37DA023999 · NIDA · YALE UNIVERSITY · PI PASKO RAKIC · 2020 to 2026
$5.6MIlluminating neurodegenerative tauopathy from somatic genomic landscapes of single human brain cellsDP2AG086138 · NIA · BRIGHAM AND WOMEN'S HOSPITAL · PI Michael B Miller · 2023 to 2026
$2.7MMechanisms of Somatic Mutation in Alzheimer's Disease Using Single Neuron AnalysisR01AG082346 · NIA · BRIGHAM AND WOMEN'S HOSPITAL · PI Michael B Miller · 2024 to 2026
$2.7MIntegrative analysis of spatial transcriptomics with histology images and single cellsR01HG013185 · NHGRI · UNIVERSITY OF PENNSYLVANIA · PI Mingyao Li · 2023 to 2026
$2.2MSomatic Mutations in Neurodevelopment and DiseaseK08NS128074 · NINDS · BOSTON CHILDREN'S HOSPITAL · PI Diane D Shao · 2022 to 2026
$1.1MDeveloping informatics tools to predict virtual spatial transcriptomics data with single-cell resolution in large-scale studiesR01LM014592 · NLM · UNIVERSITY OF PENNSYLVANIA · PI Mingyao Li · 2024 to 2026
$1.1MDevelopment of Distinct Areas in the Human Cerebral CortexK99NS135123 · NINDS · BOSTON CHILDREN'S HOSPITAL · PI QIAN, XUYU · 2024 to 2024
$127kNHGRI NIH HHS R01 HG013185NIA NIH HHS DP2 AG086138NIA NIH HHS R01 AG082346NICHD NIH HHS P50 HD105351NIDA NIH HHS R01 DA023999NIDA NIH HHS R37 DA023999NIGMS NIH HHS T32 GM007748NINDS NIH HHS K08 NS128074NINDS NIH HHS K99 NS135123NINDS NIH HHS R01 NS032457NLM NIH HHS R01 LM014592
Abstract
The human cerebral cortex is composed of six layers and dozens of areas that are molecularly and structurally distinct
Indexed as
Cerebral CortexGene Expression ProfilingTranscriptomeDeep LearningFemaleFetusHumansIn Situ Hybridization, FluorescenceMaleNeuronsSingle-Cell AnalysisVisual Cortex
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Read underepoch 390
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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.