@article{0e1702c70b644de0a331038f8233fb40,
title = "Transcriptional network orchestrating regional patterning of cortical progenitors",
abstract = "We uncovered a transcription factor (TF) network that regulates cortical regional patterning in radial glial stem cells. Screening the expression of hundreds of TFs in the developing mouse cortex identified 38 TFs that are expressed in gradients in the ventricular zone (VZ). We tested whether their cortical expression was altered in mutant mice with known patterning defects (Emx2, Nr2f1, and Pax6), which enabled us to define a cortical regionalization TF network (CRTFN). To identify genomic programming underlying this network, we performed TF ChIP-seq and chromatin-looping conformation to identify enhancer–gene interactions. To map enhancers involved in regional patterning of cortical progenitors, we performed assays for epigenomic marks and DNA accessibility in VZ cells purified from wild-type and patterning mutant mice. This integrated approach has identified a CRTFN and VZ enhancers involved in cortical regional patterning in the mouse.",
keywords = "Cortical patterning, Epigenetics, Progenitor cells, Transcription factors",
author = "Ypsilanti, {Athena R.} and Kartik Pattabiraman and Rinaldo Catta-Preta and Olga Golonzhka and Susan Lindtner and Ke Tang and Jones, {Ian R.} and Armen Abnousi and Ivan Juric and Ming Hu and Yin Shen and Dickel, {Diane E.} and Axel Visel and Pennacchio, {Len A.} and Michael Hawrylycz and Thompson, {Carol L.} and Hongkui Zeng and Iros Barozzi and Nord, {Alex S.} and Rubenstein, {John L.}",
note = "Funding Information: ACKNOWLEDGMENTS. This work was supported by grants to J.L.R. from Nina Ireland, the National Institute of Neurological Disorders and Stroke (Grant R01 NS34661), and the National Institute of Mental Health (Grant R01 MH049428). A.R.Y. was supported by a postdoctoral fellowship from the Fondation Fyssen (Paris, France). R.C.-P and A.S.N. were supported by National Institute of General Medical Sciences (Grant R35 GM119831). Mutant mice were given by M. and S. Tsai (Nr2f) and S. McKnight (Npas3). R.C.-P. was supported by a Science without Borders Fellowship from the National Council of Scientific and Technological Development (Brazil). I.R.J. and M.H. are partially supported by NIH Grant U54DK107977. This study was supported in part by the University of California, San Francisco, Helen Diller Family Comprehensive Cancer Center Laboratory for Cell Analysis Shared Resource Facility through a grant from NIH (P30CA082103). I.B. is funded through an Imperial College Research Fellowship. Research conducted at E.O. Lawrence Berkeley National Laboratory was supported by NIH Grant R01HG003988 (to L.A.P.) and performed under Department of Energy Contract DE-AC02-05CH11231, University of California. Publisher Copyright: {\textcopyright} 2021 National Academy of Sciences. All rights reserved.",
year = "2021",
month = dec,
day = "21",
doi = "10.1073/pnas.2024795118",
language = "English (US)",
volume = "118",
journal = "Proceedings of the National Academy of Sciences of the United States of America",
issn = "0027-8424",
publisher = "National Academy of Sciences",
number = "51",
}