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Cell-type-specific 3D epigenomes in the developing human cortex.
Song M, Pebworth MP, Yang X, Abnousi A, Fan C, Wen J, Rosen JD, Choudhary MNK, Cui X, Jones IR, Bergenholtz S, Eze UC, Juric I, Li B, Maliskova L, Lee J, Liu W, Pollen AA, Li Y, Wang T, Hu M, Kriegstein AR, Shen Y. Song M, et al. Among authors: jones ir. Nature. 2020 Nov;587(7835):644-649. doi: 10.1038/s41586-020-2825-4. Epub 2020 Oct 14. Nature. 2020. PMID: 33057195 Free PMC article.
Mapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes.
Song M, Yang X, Ren X, Maliskova L, Li B, Jones IR, Wang C, Jacob F, Wu K, Traglia M, Tam TW, Jamieson K, Lu SY, Ming GL, Li Y, Yao J, Weiss LA, Dixon JR, Judge LM, Conklin BR, Song H, Gan L, Shen Y. Song M, et al. Among authors: jones ir. Nat Genet. 2019 Aug;51(8):1252-1262. doi: 10.1038/s41588-019-0472-1. Epub 2019 Jul 31. Nat Genet. 2019. PMID: 31367015 Free PMC article.
Parallel characterization of cis-regulatory elements for multiple genes using CRISPRpath.
Ren X, Wang M, Li B, Jamieson K, Zheng L, Jones IR, Li B, Takagi MA, Lee J, Maliskova L, Tam TW, Yu M, Hu R, Lee L, Abnousi A, Li G, Li Y, Hu M, Ren B, Wang W, Shen Y. Ren X, et al. Among authors: jones ir. Sci Adv. 2021 Sep 17;7(38):eabi4360. doi: 10.1126/sciadv.abi4360. Epub 2021 Sep 15. Sci Adv. 2021. PMID: 34524848 Free PMC article.
HPRep: Quantifying Reproducibility in HiChIP and PLAC-Seq Datasets.
Rosen JD, Yang Y, Abnousi A, Chen J, Song M, Jones IR, Shen Y, Hu M, Li Y. Rosen JD, et al. Among authors: jones ir. Curr Issues Mol Biol. 2021 Sep 17;43(2):1156-1170. doi: 10.3390/cimb43020082. Curr Issues Mol Biol. 2021. PMID: 34563051 Free PMC article.
Transcriptional network orchestrating regional patterning of cortical progenitors.
Ypsilanti AR, Pattabiraman K, Catta-Preta R, Golonzhka O, Lindtner S, Tang K, Jones IR, Abnousi A, Juric I, Hu M, Shen Y, Dickel DE, Visel A, Pennachio LA, Hawrylycz M, Thompson CL, Zeng H, Barozzi I, Nord AS, Rubenstein JL. Ypsilanti AR, et al. Among authors: jones ir. Proc Natl Acad Sci U S A. 2021 Dec 21;118(51):e2024795118. doi: 10.1073/pnas.2024795118. Proc Natl Acad Sci U S A. 2021. PMID: 34921112 Free PMC article.
Combinatorial transcription factor binding encodes cis-regulatory wiring of forebrain GABAergic neurogenesis.
Catta-Preta R, Lindtner S, Ypsilanti A, Price J, Abnousi A, Su-Feher L, Wang Y, Juric I, Jones IR, Akiyama JA, Hu M, Shen Y, Visel A, Pennacchio LA, Dickel D, Rubenstein JLR, Nord AS. Catta-Preta R, et al. Among authors: jones ir. bioRxiv [Preprint]. 2023 Jun 28:2023.06.28.546894. doi: 10.1101/2023.06.28.546894. bioRxiv. 2023. PMID: 37425940 Free PMC article. Preprint.
Functional characterization of Alzheimer's disease genetic variants in microglia.
Yang X, Wen J, Yang H, Jones IR, Zhu X, Liu W, Li B, Clelland CD, Luo W, Wong MY, Ren X, Cui X, Song M, Liu H, Chen C, Eng N, Ravichandran M, Sun Y, Lee D, Van Buren E, Jiang MZ, Chan CSY, Ye CJ, Perera RM, Gan L, Li Y, Shen Y. Yang X, et al. Among authors: jones ir. Nat Genet. 2023 Oct;55(10):1735-1744. doi: 10.1038/s41588-023-01506-8. Epub 2023 Sep 21. Nat Genet. 2023. PMID: 37735198 Free PMC article.
The PRC2.1 Subcomplex Opposes G1 Progression through Regulation of CCND1 and CCND2.
Longhurst AD, Wang K, Suresh HG, Ketavarapu M, Ward HN, Jones IR, Narayan V, Hundley FV, Hassan AZ, Boone C, Myers CL, Shen Y, Ramani V, Andrews BJ, Toczyski DP. Longhurst AD, et al. Among authors: jones ir. bioRxiv [Preprint]. 2024 Mar 19:2024.03.18.585604. doi: 10.1101/2024.03.18.585604. bioRxiv. 2024. PMID: 38562687 Free PMC article. Preprint.
185 results