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Comparing chromatin contact maps at scale: methods and insights.
Gunsalus LM, McArthur E, Gjoni K, Kuang S, Pittman M, Capra JA, Pollard KS. Gunsalus LM, et al. Among authors: pollard ks. Res Sq [Preprint]. 2023 May 23:rs.3.rs-2842981. doi: 10.21203/rs.3.rs-2842981/v1. Res Sq. 2023. PMID: 37292728 Free PMC article. Preprint.
An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype.
Shah PP, Keough KC, Gjoni K, Santini GT, Abdill RJ, Wickramasinghe NM, Dundes CE, Karnay A, Chen A, Salomon REA, Walsh PJ, Nguyen SC, Whalen S, Joyce EF, Loh KM, Dubois N, Pollard KS, Jain R. Shah PP, et al. Among authors: pollard ks. Genome Biol. 2023 Jan 23;24(1):16. doi: 10.1186/s13059-023-02849-5. Genome Biol. 2023. PMID: 36691074 Free PMC article.
Comparing chromatin contact maps at scale: methods and insights.
Gunsalus LM, McArthur E, Gjoni K, Kuang S, Pittman M, Capra JA, Pollard KS. Gunsalus LM, et al. Among authors: pollard ks. bioRxiv [Preprint]. 2023 Apr 4:2023.04.04.535480. doi: 10.1101/2023.04.04.535480. bioRxiv. 2023. PMID: 37066196 Free PMC article. Preprint.
Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells.
Mowery CT, Freimer JW, Chen Z, Casaní-Galdón S, Umhoefer JM, Arce MM, Gjoni K, Daniel B, Sandor K, Gowen BG, Nguyen V, Simeonov DR, Garrido CM, Curie GL, Schmidt R, Steinhart Z, Satpathy AT, Pollard KS, Corn JE, Bernstein BE, Ye CJ, Marson A. Mowery CT, et al. Among authors: pollard ks. Nat Genet. 2024 Jun;56(6):1156-1167. doi: 10.1038/s41588-024-01743-5. Epub 2024 May 29. Nat Genet. 2024. PMID: 38811842 Free PMC article.
Chromatin Remodeling Drives Immune-Fibroblast Crosstalk in Heart Failure Pathogenesis.
Alexanian M, Padmanabhan A, Nishino T, Travers JG, Ye L, Lee CY, Sadagopan N, Huang Y, Pelonero A, Auclair K, Zhu A, Teran BG, Flanigan W, Kim CK, Lumbao-Conradson K, Costa M, Jain R, Charo I, Haldar SM, Pollard KS, Vagnozzi RJ, McKinsey TA, Przytycki PF, Srivastava D. Alexanian M, et al. Among authors: pollard ks. bioRxiv [Preprint]. 2023 Jan 7:2023.01.06.522937. doi: 10.1101/2023.01.06.522937. bioRxiv. 2023. PMID: 36711864 Free PMC article. Preprint.
Three-dimensional genome rewiring in loci with human accelerated regions.
Keough KC, Whalen S, Inoue F, Przytycki PF, Fair T, Deng C, Steyert M, Ryu H, Lindblad-Toh K, Karlsson E; Zoonomia Consortium§; Nowakowski T, Ahituv N, Pollen A, Pollard KS. Keough KC, et al. Among authors: pollard ks. Science. 2023 Apr 28;380(6643):eabm1696. doi: 10.1126/science.abm1696. Epub 2023 Apr 28. Science. 2023. PMID: 37104607 Free PMC article.
Machine learning dissection of human accelerated regions in primate neurodevelopment.
Whalen S, Inoue F, Ryu H, Fair T, Markenscoff-Papadimitriou E, Keough K, Kircher M, Martin B, Alvarado B, Elor O, Laboy Cintron D, Williams A, Hassan Samee MA, Thomas S, Krencik R, Ullian EM, Kriegstein A, Rubenstein JL, Shendure J, Pollen AA, Ahituv N, Pollard KS. Whalen S, et al. Among authors: pollard ks. Neuron. 2023 Mar 15;111(6):857-873.e8. doi: 10.1016/j.neuron.2022.12.026. Epub 2023 Jan 13. Neuron. 2023. PMID: 36640767 Free PMC article.
Leveraging Base Pair Mammalian Constraint to Understand Genetic Variation and Human Disease.
Sullivan PF, Meadows JRS, Gazal S, Phan BN, Li X, Genereux DP, Dong MX, Bianchi M, Andrews G, Sakthikumar S, Nordin J, Roy A, Christmas MJ, Marinescu VD, Wallerman O, Xue JR, Li Y, Yao S, Sun Q, Szatkiewicz J, Wen J, Huckins LM, Lawler AJ, Keough KC, Zheng Z, Zeng J, Wray NR, Johnson J, Chen J; Zoonomia Consortium; Paten B, Reilly SK, Hughes GM, Weng Z, Pollard KS, Pfenning AR, Forsberg-Nilsson K, Karlsson EK, Lindblad-Toh K. Sullivan PF, et al. Among authors: pollard ks. bioRxiv [Preprint]. 2023 Mar 10:2023.03.10.531987. doi: 10.1101/2023.03.10.531987. bioRxiv. 2023. Update in: Science. 2023 Apr 28;380(6643):eabn2937. doi: 10.1126/science.abn2937. PMID: 36945512 Free PMC article. Updated. Preprint.
Leveraging base-pair mammalian constraint to understand genetic variation and human disease.
Sullivan PF, Meadows JRS, Gazal S, Phan BN, Li X, Genereux DP, Dong MX, Bianchi M, Andrews G, Sakthikumar S, Nordin J, Roy A, Christmas MJ, Marinescu VD, Wang C, Wallerman O, Xue J, Yao S, Sun Q, Szatkiewicz J, Wen J, Huckins LM, Lawler A, Keough KC, Zheng Z, Zeng J, Wray NR, Li Y, Johnson J, Chen J; Zoonomia Consortium§; Paten B, Reilly SK, Hughes GM, Weng Z, Pollard KS, Pfenning AR, Forsberg-Nilsson K, Karlsson EK, Lindblad-Toh K. Sullivan PF, et al. Among authors: pollard ks. Science. 2023 Apr 28;380(6643):eabn2937. doi: 10.1126/science.abn2937. Epub 2023 Apr 28. Science. 2023. PMID: 37104612 Free PMC article.
220 results