Chromatin alternates between A and B compartments at kilobase scale for subgenic organization

Autor: Hannah L. Harris, Huiya Gu, Moshe Olshansky, Ailun Wang, Irene Farabella, Yossi Eliaz, Achyuth Kalluchi, Akshay Krishna, Mozes Jacobs, Gesine Cauer, Melanie Pham, Suhas S. P. Rao, Olga Dudchenko, Arina Omer, Kiana Mohajeri, Sungjae Kim, Michael H. Nichols, Eric S. Davis, Dimos Gkountaroulis, Devika Udupa, Aviva Presser Aiden, Victor G. Corces, Douglas H. Phanstiel, William Stafford Noble, Guy Nir, Michele Di Pierro, Jeong-Sun Seo, Michael E. Talkowski, Erez Lieberman Aiden, M. Jordan Rowley

Publikováno v: Nature Communications, Vol 14, Iss 1, Pp 1-17 (2023)

Abstract Nuclear compartments are prominent features of 3D chromatin organization, but sequencing depth limitations have impeded investigation at ultra fine-scale. CTCF loops are generally studied at a finer scale, but the impact of looping on proxim

Externí odkaz: https://doaj.org/article/273c83ceac55444f8d76b4044e6d0017

Inferring diploid 3D chromatin structures from Hi-C data

Autor: Alexandra Gesine Cauer, Jean-Philippe Vert, Nelle Varoquaux, William Stafford Noble, Gürkan Yardimci

Publikováno v: 19th International Workshop on Algorithms in Bioinformatics (WABI 2019)
19th International Workshop on Algorithms in Bioinformatics (WABI 2019), 2019, ⟨10.4230/LIPIcs.WABI.2019.11⟩

The 3D organization of the genome plays a key role in many cellular processes, such as gene regulation, differentiation, and replication. Assays like Hi-C measure DNA-DNA contacts in a high-throughput fashion, and inferring accurate 3D models of chro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::02f70267a7f5db3a73868dcecf9742b5
https://doi.org/10.1101/644294

Abstract B097: Dysregulated mevalonate and cholesterol synthesis is a therapeutic vulnerability in glioblastoma

Autor: Aparna H. Kesarwala, A. Gesine Cauer, Eric Batchelor, Alan S. Halim, Qian Sun, Jayne M. Stommel, Uma Shankavaram, Diane M. Kambach, Carlos A. Tristan

Publikováno v: Molecular Cancer Therapeutics. 17:B097-B097

A hallmark of cellular transformation is the evasion of contact-dependent inhibition of growth. To find new therapeutic targets for glioblastoma, we looked for pathways that are inhibited by high cell density in normal astrocytes but have lost this r

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::33f152dae8c18d22eeeff119602c9d47
https://doi.org/10.1158/1535-7163.targ-17-b097

METB-03. DISABLED CELL DENSITY SENSING BY TUMOR SUPPRESSORS LEADS TO DYSREGULATED CHOLESTEROL SYNTHESIS IN GLIOBLASTOMA

Autor: Jayne M. Stommel, Orieta Celiku, A. Gesine Cauer, Eric Batchelor, Uma Shankavaram, Carlos A. Tristan, Diane M. Kambach

Publikováno v: Neuro-Oncology. 18:vi100-vi100

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::beb8343c122f9cfbf3fc03bff8054ba2
https://doi.org/10.1093/neuonc/now212.417