Chromatin and gene-regulatory dynamics of the developing human cerebral cortex at single-cell resolution
Alexandro E. Trevino,Fabian Müller,Fabian Müller,Jimena Andersen,Laksshman Sundaram,Arwa Kathiria,Anna Shcherbina,Kyle Kai-How Farh,Howard Y. Chang,Howard Y. Chang,Anca M. Pașca,Anshul Kundaje,Sergiu P. Pașca,William J. Greenleaf +13 more
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TLDR
In this paper, the activity of gene-regulatory elements was mapped to identify genomic regions crucial to corticogenesis, generating a single-cell atlas of gene expression and chromatin accessibility both independently and jointly.About:
This article is published in Cell.The article was published on 2021-09-16 and is currently open access. It has received 137 citations till now. The article focuses on the topics: Regulation of gene expression & Chromatin.read more
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A single-cell atlas of chromatin accessibility in the human genome
Kai Zhang,Kai Zhang,James D. Hocker,James D. Hocker,Michael Miller,Xiaomeng Hou,Joshua Chiou,Olivier Poirion,Yunjiang Qiu,Yang Eric Li,Yang Eric Li,Kyle J. Gaulton,Allen Wang,Sebastian Preissl,Bing Ren +14 more
TL;DR: In this article, single-cell chromatin accessibility assays to 30 adult human tissue types from multiple donors were used to profile the activity of gene regulatory elements in diverse cell types and tissues in the human body.
Journal ArticleDOI
Maturation and circuit integration of transplanted human cortical organoids
Omer Revah,Felicity May Gore,Kevin W. Kelley,Jimena Andersen,Noriaki Sakai,Xiaoyu Chen,Min-Yin Li,Fikri Birey,Xiao Yang,Nay L. Saw,Sam W. Baker,Neal D. Amin,Shravanti Kulkarni,Rachana Mudipalli,Bianxiao Cui,Seiji Nishino,Gerald A. Grant,Juliet K. Knowles,Mehrdad Shamloo,John R. Huguenard,Karl Deisseroth,Sergiu P. Paşca +21 more
TL;DR: In this article , human stem cell-derived cortical organoids transplanted into the somatosensory cortex of newborn athymic rats develop mature cell types that integrate into sensory and motivation-related circuits.
Journal ArticleDOI
Human brain organogenesis: Toward a cellular understanding of development and disease.
Kevin W. Kelley,Sergiu P. Pașca +1 more
TL;DR: This paper reviewed recent progress on uncovering the cellular and molecular principles of human brain organogenesis in vivo as well as using organoids and assembloids in vitro to model features of human evolution and disease.
Journal ArticleDOI
Human brain organogenesis: Toward a cellular understanding of development and disease
TL;DR: This article reviewed recent progress on uncovering the cellular and molecular principles of human brain organogenesis in vivo as well as using organoids and assembloids in vitro to model features of human evolution and disease.
Journal ArticleDOI
Cell-type-specific cis-eQTLs in eight human brain cell types identify novel risk genes for psychiatric and neurological disorders
Julien Bryois,Daniela Calini,Will Macnair,Lynette C. Foo,Eduard Urich,Ward A. Ortmann,Victor A. Iglesias,Suresh Selvaraj,Erik Nutma,Manuel C. Marzin,Sandra Amor,Anna Williams,Gonçalo Castelo-Branco,Vilas Menon,Philip L. De Jager,Dheeraj Malhotra +15 more
TL;DR: This article performed an eQTL analysis using single-nuclei RNA sequencing from 192 individuals in eight brain cell types derived from the prefrontal cortex, temporal cortex and white matter, and identified 7,607 eGenes, a substantial fraction (46%, 3,537/7,607) of which show cell-type-specific effects with strongest effects in microglia.
References
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Posted Content
UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction
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TL;DR: The UMAP algorithm is competitive with t-SNE for visualization quality, and arguably preserves more of the global structure with superior run time performance.
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