Search Results - "Collings, Clayton K."

Histone H3K4 monomethylation catalyzed by Trr and mammalian COMPASS-like proteins at enhancers is dispensable for development and viability by Rickels, Ryan, Herz, Hans-Martin, Sze, Christie C, Cao, Kaixiang, Morgan, Marc A, Collings, Clayton K, Gause, Maria, Takahashi, Yoh-hei, Wang, Lu, Rendleman, Emily J, Marshall, Stacy A, Krueger, Annika, Bartom, Elizabeth T, Piunti, Andrea, Smith, Edwin R, Abshiru, Nebiyu A, Kelleher, Neil L, Dorsett, Dale, Shilatifard, Ali

“…Ali Shilatifard and colleagues generate Drosophila lines expressing catalytically deficient Trr, which normally deposits H3K4me1 at enhancers. Trr mutants…”
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Resetting the epigenetic balance of Polycomb and COMPASS function at enhancers for cancer therapy by Wang, Lu, Zhao, Zibo, Ozark, Patrick A., Fantini, Damiano, Marshall, Stacy A., Rendleman, Emily J., Cozzolino, Kira A., Louis, Nundia, He, Xingyao, Morgan, Marc A., Takahashi, Yoh-hei, Collings, Clayton K., Smith, Edwin R., Ntziachristos, Panagiotis, Savas, Jeffrey N., Zou, Lihua, Hashizume, Rintaro, Meeks, Joshua J., Shilatifard, Ali

“…The lysine methyltransferase KMT2C (also known as MLL3), a subunit of the COMPASS complex, implements monomethylation of Lys4 on histone H3 (H3K4) at gene…”
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An Evolutionary Conserved Epigenetic Mark of Polycomb Response Elements Implemented by Trx/MLL/COMPASS by Rickels, Ryan, Hu, Deqing, Collings, Clayton K., Woodfin, Ashley R., Piunti, Andrea, Mohan, Man, Herz, Hans-Martin, Kvon, Evgeny, Shilatifard, Ali

“…Polycomb response elements (PREs) are specific DNA sequences that stably maintain the developmental pattern of gene expression. Drosophila PREs are well…”
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A cytoplasmic COMPASS is necessary for cell survival and triple-negative breast cancer pathogenesis by regulating metabolism by Wang, Lu, Collings, Clayton K, Zhao, Zibo, Cozzolino, Kira Alia, Ma, Quanhong, Liang, Kaiwei, Marshall, Stacy A, Sze, Christie C, Hashizume, Rintaro, Savas, Jeffrey Nicholas, Shilatifard, Ali

“…Mutations and translocations within the COMPASS (complex of proteins associated with Set1) family of histone lysine methyltransferases are associated with a…”
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PAF1 regulation of promoter-proximal pause release via enhancer activation by Chen, Fei Xavier, Xie, Peng, Collings, Clayton K., Cao, Kaixiang, Aoi, Yuki, Marshall, Stacy A., Rendleman, Emily J., Ugarenko, Michal, Ozark, Patrick A., Zhang, Anda, Shiekhattar, Ramin, Smith, Edwin R., Zhang, Michael Q., Shilatifard, Ali

“…Gene expression in metazoans is regulated by RNA polymerase II (Pol II) promoter-proximal pausing and its release. Previously,we showed that Pol II–associated…”
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Effects of DNA methylation on nucleosome stability by Collings, Clayton K, Waddell, Peter J, Anderson, John N

“…Methylation of DNA at CpG dinucleotides represents one of the most important epigenetic mechanisms involved in the control of gene expression in vertebrate…”
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Histone H3K4 methylation-dependent and -independent functions of Set1A/COMPASS in embryonic stem cell self-renewal and differentiation by Sze, Christie C, Cao, Kaixiang, Collings, Clayton K, Marshall, Stacy A, Rendleman, Emily J, Ozark, Patrick A, Chen, Fei Xavier, Morgan, Marc A, Wang, Lu, Shilatifard, Ali

“…Of the six members of the COMPASS (complex of proteins associated with Set1) family of histone H3 Lys4 (H3K4) methyltransferases identified in mammals, Set1A…”
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Links between DNA methylation and nucleosome occupancy in the human genome by Collings, Clayton K, Anderson, John N

“…DNA methylation is an epigenetic modification that is enriched in heterochromatin but depleted at active promoters and enhancers. However, the debate on…”
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The SWI/SNF chromatin-remodeling subunit DPF2 facilitates NRF2-dependent antiinflammatory and antioxidant gene expression by Mas, Gloria, Man, Na, Nakata, Yuichiro, Martinez-Caja, Concepcion, Karl, Daniel, Beckedorff, Felipe, Tamiro, Francesco, Chen, Chuan, Duffort, Stephanie, Itonaga, Hidehiro, Mookhtiar, Adnan K, Kunkalla, Kranthi, Valencia, Alfredo M, Collings, Clayton K, Kadoch, Cigall, Vega, Francisco, Kogan, Scott C, Shiekhattar, Ramin, Morey, Lluis, Bilbao, Daniel, Nimer, Stephen D

“…During emergency hematopoiesis, hematopoietic stem cells (HSCs) rapidly proliferate to produce myeloid and lymphoid effector cells, a response that is critical…”
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SET1A/COMPASS and shadow enhancers in the regulation of homeotic gene expression by Cao, Kaixiang, Collings, Clayton K, Marshall, Stacy A, Morgan, Marc A, Rendleman, Emily J, Wang, Lu, Sze, Christie C, Sun, Tianjiao, Bartom, Elizabeth T, Shilatifard, Ali

“…The homeotic (Hox) genes are highly conserved in metazoans, where they are required for various processes in development, and misregulation of their expression…”
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A cryptic Tudor domain links BRWD2/PHIP to COMPASS-mediated histone H3K4 methylation by Morgan, Marc A J, Rickels, Ryan A, Collings, Clayton K, He, Xiaolin, Cao, Kaixiang, Herz, Hans-Martin, Cozzolino, Kira A, Abshiru, Nebiyu A, Marshall, Stacy A, Rendleman, Emily J, Sze, Christie C, Piunti, Andrea, Kelleher, Neil L, Savas, Jeffrey N, Shilatifard, Ali

“…Histone H3 Lys4 (H3K4) methylation is a chromatin feature enriched at gene -regulatory sequences such as promoters and enhancers. Here we identify an…”
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HIV chromatin is a preferred target for drugs that bind in the DNA minor groove by Collings, Clayton K, Little, 3rd, Donald W, Schafer, Samuel J, Anderson, John N

“…The HIV genome is rich in A but not G or U and deficient in C. This nucleotide bias controls HIV phenotype by determining the highly unusual composition of all…”
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An Mll4/COMPASS-Lsd1 epigenetic axis governs enhancer function and pluripotency transition in embryonic stem cells by Cao, Kaixiang, Collings, Clayton K, Morgan, Marc A, Marshall, Stacy A, Rendleman, Emily J, Ozark, Patrick A, Smith, Edwin R, Shilatifard, Ali

“…Chromatin regulators control cellular differentiation by orchestrating dynamic developmental gene expression programs, and hence, malfunctions in the…”
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Oligonucleotide sequence motifs as nucleosome positioning signals by Collings, Clayton K, Fernandez, Alfonso G, Pitschka, Chad G, Hawkins, Troy B, Anderson, John N

“…To gain a better understanding of the sequence patterns that characterize positioned nucleosomes, we first performed an analysis of the periodicities of the…”
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A disordered region controls cBAF activity via condensation and partner recruitment by Patil, Ajinkya, Strom, Amy R., Paulo, Joao A., Collings, Clayton K., Ruff, Kiersten M., Shinn, Min Kyung, Sankar, Akshay, Cervantes, Kasey S., Wauer, Tobias, St. Laurent, Jessica D., Xu, Grace, Becker, Lindsay A., Gygi, Steven P., Pappu, Rohit V., Brangwynne, Clifford P., Kadoch, Cigall

“…Intrinsically disordered regions (IDRs) represent a large percentage of overall nuclear protein content. The prevailing dogma is that IDRs engage in…”
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A Carcinogen-induced mouse model recapitulates the molecular alterations of human muscle invasive bladder cancer by Fantini, Damiano, Glaser, Alexander P., Rimar, Kalen J., Wang, Yiduo, Schipma, Matthew, Varghese, Nobish, Rademaker, Alfred, Behdad, Amir, Yellapa, Aparna, Yu, Yanni, Sze, Christie Ching-Lin, Wang, Lu, Zhao, Zibo, Crawford, Susan E., Hu, Deqing, Licht, Jonathan D., Collings, Clayton K., Bartom, Elizabeth, Theodorescu, Dan, Shilatifard, Ali, Meeks, Joshua J.

“…The N-butyl-N-(4-hydroxybutyl)-nitrosamine (BBN) mouse model is an attractive model system of muscle-invasive bladder cancer (MIBC) as it recapitulates the…”
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ARID1A determines luminal identity and therapeutic response in estrogen-receptor-positive breast cancer by Xu, Guotai, Chhangawala, Sagar, Cocco, Emiliano, Razavi, Pedram, Cai, Yanyan, Otto, Jordan E, Ferrando, Lorenzo, Selenica, Pier, Ladewig, Erik, Chan, Carmen, Da Cruz Paula, Arnaud, Witkin, Matthew, Cheng, Yuanming, Park, Jane, Serna-Tamayo, Cristian, Zhao, HuiYong, Wu, Fan, Sallaku, Mirna, Qu, Xuan, Zhao, Alison, Collings, Clayton K, D’Avino, Andrew R., Jhaveri, Komal, Koche, Richard, Levine, Ross L., Reis-Filho, Jorge S., Kadoch, Cigall, Scaltriti, Maurizio, Leslie, Christina S., Baselga, José, Toska, Eneda

“…Mutations in ARID1A , a subunit of the SWI/SNF chromatin remodeling complex, are the most common alterations of the SWI/SNF complex in…”
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Recurrent SMARCB1 Mutations Reveal a Nucleosome Acidic Patch Interaction Site That Potentiates mSWI/SNF Complex Chromatin Remodeling by Valencia, Alfredo M., Collings, Clayton K., Dao, Hai T., St. Pierre, Roodolph, Cheng, Yung-Chih, Huang, Junwei, Sun, Zhen-Yu, Seo, Hyuk-Soo, Mashtalir, Nazar, Comstock, Dawn E., Bolonduro, Olubusayo, Vangos, Nicholas E., Yeoh, Zoe C., Dornon, Mary Kate, Hermawan, Crystal, Barrett, Lee, Dhe-Paganon, Sirano, Woolf, Clifford J., Muir, Tom W., Kadoch, Cigall

“…Mammalian switch/sucrose non-fermentable (mSWI/SNF) complexes are multi-component machines that remodel chromatin architecture. Dissection of the subunit- and…”
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Stepwise activities of mSWI/SNF family chromatin remodeling complexes direct T cell activation and exhaustion by Battistello, Elena, Hixon, Kimberlee A., Comstock, Dawn E., Collings, Clayton K., Chen, Xufeng, Rodriguez Hernaez, Javier, Lee, Soobeom, Cervantes, Kasey S., Hinkley, Madeline M., Ntatsoulis, Konstantinos, Cesarano, Annamaria, Hockemeyer, Kathryn, Haining, W. Nicholas, Witkowski, Matthew T., Qi, Jun, Tsirigos, Aristotelis, Perna, Fabiana, Aifantis, Iannis, Kadoch, Cigall

“…Highly coordinated changes in gene expression underlie T cell activation and exhaustion. However, the mechanisms by which such programs are regulated and how…”
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SMARCE1 deficiency generates a targetable mSWI/SNF dependency in clear cell meningioma by St. Pierre, Roodolph, Collings, Clayton K., Samé Guerra, Daniel D., Widmer, Christian J., Bolonduro, Olubusayo, Mashtalir, Nazar, Sankar, Akshay, Liang, Yu, Bi, Wenya Linda, Gerkes, Erica H., Ramesh, Vijaya, Qi, Jun, Smith, Miriam J., Meredith, David M., Kadoch, Cigall

“…Mammalian SWI/SNF (mSWI/SNF) ATP-dependent chromatin remodeling complexes establish and maintain chromatin accessibility and gene expression, and are…”
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