Literature DB >> 32563855

Regulatory landscape in brain development and disease.

Keeley Spiess1, Hyejung Won2.   

Abstract

Although many regulatory elements in the non-coding genome are linked to brain development and disease, deciphering their function has been challenging due to the lack of a genomic toolbox. However, recent advances in high throughput sequencing techniques have allowed us to begin decoding its function, enhancing our understanding of the regulatory landscape that underpins human traits and brain disorders. Here, we review how the regulatory landscape of the human brain undergoes dynamic changes across neurodevelopment, different cell types, and human evolution. We then discuss how regulatory landscapes shed light onto the molecular basis of neuropsychiatric disorders and guide the development of specifically targeted molecular therapies. Finally, we offer some thoughts on how these discoveries might impact the direction of future studies.
Copyright © 2020 Elsevier Ltd. All rights reserved.

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Year:  2020        PMID: 32563855      PMCID: PMC7746596          DOI: 10.1016/j.gde.2020.05.007

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  66 in total

1.  Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.

Authors:  Evan Z Macosko; Anindita Basu; Rahul Satija; James Nemesh; Karthik Shekhar; Melissa Goldman; Itay Tirosh; Allison R Bialas; Nolan Kamitaki; Emily M Martersteck; John J Trombetta; David A Weitz; Joshua R Sanes; Alex K Shalek; Aviv Regev; Steven A McCarroll
Journal:  Cell       Date:  2015-05-21       Impact factor: 41.582

2.  Comprehensive Integration of Single-Cell Data.

Authors:  Tim Stuart; Andrew Butler; Paul Hoffman; Christoph Hafemeister; Efthymia Papalexi; William M Mauck; Yuhan Hao; Marlon Stoeckius; Peter Smibert; Rahul Satija
Journal:  Cell       Date:  2019-06-06       Impact factor: 41.582

3.  On the existence and functionality of topologically associating domains.

Authors:  Jonathan A Beagan; Jennifer E Phillips-Cremins
Journal:  Nat Genet       Date:  2020-01-10       Impact factor: 38.330

4.  Classification of electrophysiological and morphological neuron types in the mouse visual cortex.

Authors:  Nathan W Gouwens; Staci A Sorensen; Jim Berg; Changkyu Lee; Tim Jarsky; Jonathan Ting; Susan M Sunkin; David Feng; Costas A Anastassiou; Eliza Barkan; Kris Bickley; Nicole Blesie; Thomas Braun; Krissy Brouner; Agata Budzillo; Shiella Caldejon; Tamara Casper; Dan Castelli; Peter Chong; Kirsten Crichton; Christine Cuhaciyan; Tanya L Daigle; Rachel Dalley; Nick Dee; Tsega Desta; Song-Lin Ding; Samuel Dingman; Alyse Doperalski; Nadezhda Dotson; Tom Egdorf; Michael Fisher; Rebecca A de Frates; Emma Garren; Marissa Garwood; Amanda Gary; Nathalie Gaudreault; Keith Godfrey; Melissa Gorham; Hong Gu; Caroline Habel; Kristen Hadley; James Harrington; Julie A Harris; Alex Henry; DiJon Hill; Sam Josephsen; Sara Kebede; Lisa Kim; Matthew Kroll; Brian Lee; Tracy Lemon; Katherine E Link; Xiaoxiao Liu; Brian Long; Rusty Mann; Medea McGraw; Stefan Mihalas; Alice Mukora; Gabe J Murphy; Lindsay Ng; Kiet Ngo; Thuc Nghi Nguyen; Philip R Nicovich; Aaron Oldre; Daniel Park; Sheana Parry; Jed Perkins; Lydia Potekhina; David Reid; Miranda Robertson; David Sandman; Martin Schroedter; Cliff Slaughterbeck; Gilberto Soler-Llavina; Josef Sulc; Aaron Szafer; Bosiljka Tasic; Naz Taskin; Corinne Teeter; Nivretta Thatra; Herman Tung; Wayne Wakeman; Grace Williams; Rob Young; Zhi Zhou; Colin Farrell; Hanchuan Peng; Michael J Hawrylycz; Ed Lein; Lydia Ng; Anton Arkhipov; Amy Bernard; John W Phillips; Hongkui Zeng; Christof Koch
Journal:  Nat Neurosci       Date:  2019-06-17       Impact factor: 24.884

Review 5.  Three-dimensional chromatin in disease: What holds us together and what drives us apart?

Authors:  Daniel M Ibrahim; Stefan Mundlos
Journal:  Curr Opin Cell Biol       Date:  2020-02-06       Impact factor: 8.382

6.  Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data.

Authors:  Hannah A Pliner; Jonathan S Packer; José L McFaline-Figueroa; Darren A Cusanovich; Riza M Daza; Delasa Aghamirzaie; Sanjay Srivatsan; Xiaojie Qiu; Dana Jackson; Anna Minkina; Andrew C Adey; Frank J Steemers; Jay Shendure; Cole Trapnell
Journal:  Mol Cell       Date:  2018-08-02       Impact factor: 17.970

7.  Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer's disease.

Authors:  Elizabeta Gjoneska; Andreas R Pfenning; Hansruedi Mathys; Gerald Quon; Anshul Kundaje; Li-Huei Tsai; Manolis Kellis
Journal:  Nature       Date:  2015-02-19       Impact factor: 49.962

8.  Early brain development in infants at high risk for autism spectrum disorder.

Authors:  Heather Cody Hazlett; Hongbin Gu; Brent C Munsell; Sun Hyung Kim; Martin Styner; Jason J Wolff; Jed T Elison; Meghan R Swanson; Hongtu Zhu; Kelly N Botteron; D Louis Collins; John N Constantino; Stephen R Dager; Annette M Estes; Alan C Evans; Vladimir S Fonov; Guido Gerig; Penelope Kostopoulos; Robert C McKinstry; Juhi Pandey; Sarah Paterson; John R Pruett; Robert T Schultz; Dennis W Shaw; Lonnie Zwaigenbaum; Joseph Piven
Journal:  Nature       Date:  2017-02-15       Impact factor: 49.962

9.  Mutations in Human Accelerated Regions Disrupt Cognition and Social Behavior.

Authors:  Ryan N Doan; Byoung-Il Bae; Beatriz Cubelos; Cindy Chang; Amer A Hossain; Samira Al-Saad; Nahit M Mukaddes; Ozgur Oner; Muna Al-Saffar; Soher Balkhy; Generoso G Gascon; Marta Nieto; Christopher A Walsh
Journal:  Cell       Date:  2016-09-22       Impact factor: 41.582

10.  Whole-Genome and RNA Sequencing Reveal Variation and Transcriptomic Coordination in the Developing Human Prefrontal Cortex.

Authors:  Donna M Werling; Sirisha Pochareddy; Jinmyung Choi; Joon-Yong An; Brooke Sheppard; Minshi Peng; Zhen Li; Claudia Dastmalchi; Gabriel Santpere; André M M Sousa; Andrew T N Tebbenkamp; Navjot Kaur; Forrest O Gulden; Michael S Breen; Lindsay Liang; Michael C Gilson; Xuefang Zhao; Shan Dong; Lambertus Klei; A Ercument Cicek; Joseph D Buxbaum; Homa Adle-Biassette; Jean-Leon Thomas; Kimberly A Aldinger; Diana R O'Day; Ian A Glass; Noah A Zaitlen; Michael E Talkowski; Kathryn Roeder; Matthew W State; Bernie Devlin; Stephan J Sanders; Nenad Sestan
Journal:  Cell Rep       Date:  2020-04-07       Impact factor: 9.423

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  3 in total

1.  Temporally divergent regulatory mechanisms govern neuronal diversification and maturation in the mouse and marmoset neocortex.

Authors:  Wen Yuan; Sai Ma; Juliana R Brown; Kwanho Kim; Vanessa Murek; Lucia Trastulla; Alexander Meissner; Simona Lodato; Ashwin S Shetty; Joshua Z Levin; Jason D Buenrostro; Michael J Ziller; Paola Arlotta
Journal:  Nat Neurosci       Date:  2022-08-01       Impact factor: 28.771

Review 2.  Focus on your locus with a massively parallel reporter assay.

Authors:  Jessica C McAfee; Jessica L Bell; Oleh Krupa; Nana Matoba; Jason L Stein; Hyejung Won
Journal:  J Neurodev Disord       Date:  2022-09-09       Impact factor: 4.074

3.  Limited Association between Schizophrenia Genetic Risk Factors and Transcriptomic Features.

Authors:  Alice W Yu; J David Peery; Hyejung Won
Journal:  Genes (Basel)       Date:  2021-07-12       Impact factor: 4.096

  3 in total

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