Leveraging single-cell ATAC-seq and RNA-seq to identify disease-critical fetal and adult brain cell types
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DOI: 10.1038/s41467-024-44742-0
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- Mykhailo Y. Batiuk & Araks Martirosyan & Jérôme Wahis & Filip de Vin & Catherine Marneffe & Carola Kusserow & Jordan Koeppen & João Filipe Viana & João Filipe Oliveira & Thierry Voet & Chris P. Pontin, 2020. "Identification of region-specific astrocyte subtypes at single cell resolution," Nature Communications, Nature, vol. 11(1), pages 1-15, December.
- Amos Tanay & Aviv Regev, 2017. "Scaling single-cell genomics from phenomenology to mechanism," Nature, Nature, vol. 541(7637), pages 331-338, January.
- Hyo Jung Kang & Yuka Imamura Kawasawa & Feng Cheng & Ying Zhu & Xuming Xu & Mingfeng Li & André M. M. Sousa & Mihovil Pletikos & Kyle A. Meyer & Goran Sedmak & Tobias Guennel & Yurae Shin & Matthew B., 2011. "Spatio-temporal transcriptome of the human brain," Nature, Nature, vol. 478(7370), pages 483-489, October.
- Joseph Nasser & Drew T. Bergman & Charles P. Fulco & Philine Guckelberger & Benjamin R. Doughty & Tejal A. Patwardhan & Thouis R. Jones & Tung H. Nguyen & Jacob C. Ulirsch & Fritz Lekschas & Kristy Mu, 2021. "Genome-wide enhancer maps link risk variants to disease genes," Nature, Nature, vol. 593(7858), pages 238-243, May.
- Martin Kircher & Chenling Xiong & Beth Martin & Max Schubach & Fumitaka Inoue & Robert J. A. Bell & Joseph F. Costello & Jay Shendure & Nadav Ahituv, 2019. "Saturation mutagenesis of twenty disease-associated regulatory elements at single base-pair resolution," Nature Communications, Nature, vol. 10(1), pages 1-15, December.
- Ryan S. Ziffra & Chang N. Kim & Jayden M. Ross & Amy Wilfert & Tychele N. Turner & Maximilian Haeussler & Alex M. Casella & Pawel F. Przytycki & Kathleen C. Keough & David Shin & Derek Bogdanoff & Ana, 2021. "Single-cell epigenomics reveals mechanisms of human cortical development," Nature, Nature, vol. 598(7879), pages 205-213, October.
- Won-Suk Chung & Laura E. Clarke & Gordon X. Wang & Benjamin K. Stafford & Alexander Sher & Chandrani Chakraborty & Julia Joung & Lynette C. Foo & Andrew Thompson & Chinfei Chen & Stephen J. Smith & Be, 2013. "Astrocytes mediate synapse elimination through MEGF10 and MERTK pathways," Nature, Nature, vol. 504(7480), pages 394-400, December.
- Trygve E. Bakken & Jeremy A. Miller & Song-Lin Ding & Susan M. Sunkin & Kimberly A. Smith & Lydia Ng & Aaron Szafer & Rachel A. Dalley & Joshua J. Royall & Tracy Lemon & Sheila Shapouri & Kaylynn Aion, 2016. "A comprehensive transcriptional map of primate brain development," Nature, Nature, vol. 535(7612), pages 367-375, July.
- Carles A. Boix & Benjamin T. James & Yongjin P. Park & Wouter Meuleman & Manolis Kellis, 2021. "Regulatory genomic circuitry of human disease loci by integrative epigenomics," Nature, Nature, vol. 590(7845), pages 300-307, February.
- Vassily Trubetskoy & Antonio F. Pardiñas & Ting Qi & Georgia Panagiotaropoulou & Swapnil Awasthi & Tim B. Bigdeli & Julien Bryois & Chia-Yen Chen & Charlotte A. Dennison & Lynsey S. Hall & Max Lam & K, 2022. "Mapping genomic loci implicates genes and synaptic biology in schizophrenia," Nature, Nature, vol. 604(7906), pages 502-508, April.
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