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ERG activates a stem-like proliferation-differentiation program in prostate epithelial cells with mixed basal-luminal identity.
Feng W, Ladewig E, Salsabeel N, Zhao H, Lee YS, Gopalan A, Lange M, Luo H, Kang W, Fan N, Rosiek E, de Stanchina E, Chen Y, Carver BS, Leslie CS, Sawyers CL. Feng W, et al. Among authors: leslie cs. bioRxiv [Preprint]. 2024 Apr 6:2023.05.15.540839. doi: 10.1101/2023.05.15.540839. bioRxiv. 2024. PMID: 38585869 Free PMC article. Preprint.
An epigenetic barrier sets the timing of human neuronal maturation.
Ciceri G, Baggiolini A, Cho HS, Kshirsagar M, Benito-Kwiecinski S, Walsh RM, Aromolaran KA, Gonzalez-Hernandez AJ, Munguba H, Koo SY, Xu N, Sevilla KJ, Goldstein PA, Levitz J, Leslie CS, Koche RP, Studer L. Ciceri G, et al. Among authors: leslie cs. Nature. 2024 Feb;626(8000):881-890. doi: 10.1038/s41586-023-06984-8. Epub 2024 Jan 31. Nature. 2024. PMID: 38297124 Free PMC article.
An encyclopedia of enhancer-gene regulatory interactions in the human genome.
Gschwind AR, Mualim KS, Karbalayghareh A, Sheth MU, Dey KK, Jagoda E, Nurtdinov RN, Xi W, Tan AS, Jones H, Ma XR, Yao D, Nasser J, Avsec Ž, James BT, Shamim MS, Durand NC, Rao SSP, Mahajan R, Doughty BR, Andreeva K, Ulirsch JC, Fan K, Perez EM, Nguyen TC, Kelley DR, Finucane HK, Moore JE, Weng Z, Kellis M, Bassik MC, Price AL, Beer MA, Guigó R, Stamatoyannopoulos JA, Lieberman Aiden E, Greenleaf WJ, Leslie CS, Steinmetz LM, Kundaje A, Engreitz JM. Gschwind AR, et al. Among authors: leslie cs. bioRxiv [Preprint]. 2023 Nov 13:2023.11.09.563812. doi: 10.1101/2023.11.09.563812. bioRxiv. 2023. PMID: 38014075 Free PMC article. Preprint.
Reprogramming tumor-associated macrophages to outcompete endovascular endothelial progenitor cells and suppress tumor neoangiogenesis.
Do MH, Shi W, Ji L, Ladewig E, Zhang X, Srivastava RM, Capistrano KJ, Edwards C, Malik I, Nixon BG, Stamatiades EG, Liu M, Li S, Li P, Chou C, Xu K, Hsu TW, Wang X, Chan TA, Leslie CS, Li MO. Do MH, et al. Among authors: leslie cs. Immunity. 2023 Nov 14;56(11):2555-2569.e5. doi: 10.1016/j.immuni.2023.10.010. Immunity. 2023. PMID: 37967531
ChromaFold predicts the 3D contact map from single-cell chromatin accessibility.
Gao VR, Yang R, Das A, Luo R, Luo H, McNally DR, Karagiannidis I, Rivas MA, Wang ZM, Barisic D, Karbalayghareh A, Wong W, Zhan YA, Chin CR, Noble W, Bilmes JA, Apostolou E, Kharas MG, Béguelin W, Viny AD, Huangfu D, Rudensky AY, Melnick AM, Leslie CS. Gao VR, et al. Among authors: leslie cs. bioRxiv [Preprint]. 2023 Jul 28:2023.07.27.550836. doi: 10.1101/2023.07.27.550836. bioRxiv. 2023. PMID: 37546906 Free PMC article. Preprint.
Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project.
Dekker J, Alber F, Aufmkolk S, Beliveau BJ, Bruneau BG, Belmont AS, Bintu L, Boettiger A, Calandrelli R, Disteche CM, Gilbert DM, Gregor T, Hansen AS, Huang B, Huangfu D, Kalhor R, Leslie CS, Li W, Li Y, Ma J, Noble WS, Park PJ, Phillips-Cremins JE, Pollard KS, Rafelski SM, Ren B, Ruan Y, Shav-Tal Y, Shen Y, Shendure J, Shu X, Strambio-De-Castillia C, Vertii A, Zhang H, Zhong S. Dekker J, et al. Among authors: leslie cs. Mol Cell. 2023 Aug 3;83(15):2624-2640. doi: 10.1016/j.molcel.2023.06.018. Epub 2023 Jul 6. Mol Cell. 2023. PMID: 37419111 Review.
Discovery of Competent Chromatin Regions in Human Embryonic Stem Cells.
Pulecio J, Tayyebi Z, Liu D, Wong W, Luo R, Damodaran JR, Kaplan S, Cho H, Yan J, Murphy D, Rickert RW, Shukla A, Zhong A, González F, Yang D, Li W, Zhou T, Apostolou E, Leslie CS, Huangfu D. Pulecio J, et al. Among authors: leslie cs. bioRxiv [Preprint]. 2023 Jun 14:2023.06.14.544990. doi: 10.1101/2023.06.14.544990. bioRxiv. 2023. PMID: 37398096 Free PMC article. Preprint.
Epiphany: predicting Hi-C contact maps from 1D epigenomic signals.
Yang R, Das A, Gao VR, Karbalayghareh A, Noble WS, Bilmes JA, Leslie CS. Yang R, et al. Among authors: leslie cs. Genome Biol. 2023 Jun 6;24(1):134. doi: 10.1186/s13059-023-02934-9. Genome Biol. 2023. PMID: 37280678 Free PMC article.
101 results