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Considerations and caveats for analyzing chromatin compartments.
Kalluchi A, Harris HL, Reznicek TE, Rowley MJ. Kalluchi A, et al. Among authors: harris hl. Front Mol Biosci. 2023 Apr 5;10:1168562. doi: 10.3389/fmolb.2023.1168562. eCollection 2023. Front Mol Biosci. 2023. PMID: 37091873 Free PMC article. Review.
Chromatin alternates between A and B compartments at kilobase scale for subgenic organization.
Harris HL, Gu H, Olshansky M, Wang A, Farabella I, Eliaz Y, Kalluchi A, Krishna A, Jacobs M, Cauer G, Pham M, Rao SSP, Dudchenko O, Omer A, Mohajeri K, Kim S, Nichols MH, Davis ES, Gkountaroulis D, Udupa D, Aiden AP, Corces VG, Phanstiel DH, Noble WS, Nir G, Di Pierro M, Seo JS, Talkowski ME, Aiden EL, Rowley MJ. Harris HL, et al. Nat Commun. 2023 Jun 6;14(1):3303. doi: 10.1038/s41467-023-38429-1. Nat Commun. 2023. PMID: 37280210 Free PMC article.
Predicting A/B compartments from histone modifications using deep learning.
Zheng S, Thakkar N, Harris HL, Liu S, Zhang M, Gerstein M, Aiden EL, Rowley MJ, Noble WS, Gürsoy G, Singh R. Zheng S, et al. Among authors: harris hl. iScience. 2024 Mar 27;27(5):109570. doi: 10.1016/j.isci.2024.109570. eCollection 2024 May 17. iScience. 2024. PMID: 38646172 Free PMC article.
Understanding the function of Pax5 in development of docetaxel-resistant neuroendocrine-like prostate cancers.
Bhattacharya S, Harris HL, Islam R, Bodas S, Polavaram N, Mishra J, Das D, Seshacharyulu P, Kalluchi A, Pal A, Kohli M, Lele SM, Muders M, Batra SK, Ghosh PM, Datta K, Rowley MJ, Dutta S. Bhattacharya S, et al. Among authors: harris hl. Cell Death Dis. 2024 Aug 25;15(8):617. doi: 10.1038/s41419-024-06916-y. Cell Death Dis. 2024. PMID: 39183332 Free PMC article.
HiCrayon reveals distinct layers of multi-state 3D chromatin organization.
Nolan B, Harris HL, Kalluchi A, Reznicek TE, Cummings CT, Rowley MJ. Nolan B, et al. Among authors: harris hl. NAR Genom Bioinform. 2024 Dec 18;6(4):lqae182. doi: 10.1093/nargab/lqae182. eCollection 2024 Dec. NAR Genom Bioinform. 2024. PMID: 39703428 Free PMC article.
49 results