Results 111 to 120 of about 357,335 (290)

PIRCh-seq: functional classification of non-coding RNAs associated with distinct histone modifications

Genome Biology, 2019
We develop PIRCh-seq, a method which enables a comprehensive survey of chromatin-associated RNAs in a histone modification-specific manner. We identify hundreds of chromatin-associated RNAs in several cell types with substantially less contamination by ...
Jingwen Fang, Qing Ma, Ci Chu, Beibei Huang, Lingjie Li, Pengfei Cai, Pedro J. Batista, Karen Erisse Martin Tolentino, Jin Xu, Rui Li, Pengcheng Du, Kun Qu, Howard Y. Chang   +12 more
doaj   +1 more source

Cell‐cycle‐specific lesion evolution rather than inhibition of double‐strand‐break repair underpins cisplatin radiosensitization

Molecular Oncology, EarlyView.
We analyze cisplatin–DNA adducts (CDAs) and double‐strand breaks (DSBs) in a cell‐cycle‐dependent manner. We find that CDAs form similarly across all cell cycle phases. DSBs arise only in S‐phase. CDAs might not directly impair DSB repair, but S‐phase DSB lesions evolve in the presence of CDAs and disrupt repair in G2, also causing radiosensitization ...
Ye Qiu, Xixi Lin, Emil Mladenov, Veronika Mladenova, Jürgen Thomale, Ali Sak, Yao Wang, Yunxuan Deng, Eleni Gkika, Martin Stuschke, George Iliakis   +10 more
wiley   +1 more source

Cooperative Binding of Heat Shock Factor to the Yeast \u3ci\u3eHSP82\u3c/i\u3e Promoter In Vivo and In Vitro [PDF]

, 1999
revious work has shown that heat shock factor (HSF) plays a central role in remodeling the chromatin structure of the yeastHSP82 promoter via constitutive interactions with its high-affinity binding site, heat shock element 1 (HSE1).
Erkine, Alexander M., Gross, David S., Magrogan, Serena F., Sekinger, Edward A.   +3 more
core   +1 more source

Metastasis on pause: How dormant tumor cells stay hidden within the tumor microenvironment and evade immune surveillance

Molecular Oncology, EarlyView.
Dormant cancer cells can hide in distant organs for years, evading treatment and the immune system. This review highlights how signals from the surrounding tissue and immune environment keep these cells inactive or trigger their reawakening. Understanding these mechanisms may help develop therapies to eliminate or control dormant cells and prevent ...
Kanishka Tiwary, Jose Javier Bravo‐Cordero   +1 more
wiley   +1 more source

Loss of IGF‐1R impairs DNA‐PKcs recruitment to chromatin leading to defective end‐joining

Molecular Oncology, EarlyView.
IGF‐1R promotes radioresistance by facilitating DNA‐PKcs recruitment to chromatin, enabling non‐homologous end‐joining (NHEJ) repair of double‐strand breaks. Inhibition or loss of IGF‐1R disrupts this recruitment to damage sites, driving compensatory reliance on microhomology‐mediated end‐joining (MMEJ) repair.
Matthew O. Ellis, Jack V. Mills, Wojciech Niedzwiedz, Valentine M. Macaulay   +3 more
wiley   +1 more source

Evidence for DNA-mediated nuclear compartmentalization distinct from phase separation. [PDF]

, 2019
RNA Polymerase II (Pol II) and transcription factors form concentrated hubs in cells via multivalent protein-protein interactions, often mediated by proteins with intrinsically disordered regions.
Darzacq, Xavier, Dugast-Darzacq, Claire, Hansen, Anders S, Hao, Yvonne, Heckert, Alec Basil, Marie-Nelly, Hervé, McSwiggen, David Trombley, Teves, Sheila S, Tjian, Robert, Umemoto, Kayla K   +9 more
core  

Epigenetic heterogeneity and plasticity in therapy‐induced tumor states through single‐cell multi‐omics

Molecular Oncology, EarlyView.
Single‐cell multi‐omics reveals epigenetic heterogeneity across therapy‐adaptive tumor states, including quiescent/dormant, drug‐tolerant persister, and EMT‐like phenotypes. By linking regulatory features with state‐associated biomarkers, these approaches inform biomarker‐guided therapeutic strategies for evolving tumors.
Hee Jung Kim, Hwiyeong Lee, Jin Hong, Daechan Park   +3 more
wiley   +1 more source

A biochemical screening platform to target chromatin states using condensates as a tool

SLAS Discovery
Chromatin states define cell fates and consequently dysfunctional chromatin states drive disease. Conventional approaches to target dysfunctional chromatin states typically rely on targeting a defined, structured binding pocket of a specific chromatin ...
Laura J. Hsieh, Tracy Lou, Muryam A. Gourdet, Emily Wong, Geeta J. Narlikar   +4 more
doaj   +1 more source

Automated FRAP microscopy for high‐throughput analysis of protein dynamics in chromatin organization and transcription

FEBS Open Bio, EarlyView.
RoboMic is an automated confocal microscopy pipeline for high‐throughput functional imaging in living cells. Demonstrated with fluorescence recovery after photobleaching (FRAP), it integrates AI‐driven nuclear segmentation, ROI selection, bleaching, and analysis.
Selçuk Yavuz, Bart Geverts, Johan A. Slotman, Andrea Sacchetti, Stefan Prekovic, Martin E. van Royen, Adriaan B. Houtsmuller   +6 more
wiley   +1 more source

Computational modeling to elucidate molecular mechanisms of epigenetic memory

, 2015
How do mammalian cells that share the same genome exist in notably distinct phenotypes, exhibiting differences in morphology, gene expression patterns, and epigenetic chromatin statuses?
Alsing, Andrews, Ang, Angel, Arnold, Bannister, Barth, Beisel, Benecke, Bhattacharya, Binder, Black, Buscaino, Bushey, Canzio, Cowieson, David-Rus, Dayarian, Deal, Dodd, Fonseca, Freddolino, Gaffney, Grauffel, Greer, Grewal, Grigoryev, Hanna, Hathaway, Henikoff, Herranz, Hodges, Jacobs, Korolev, Korolev, Kouzarides, Ku, Kulaeva, Lin, Margreitter, Margueron, Mendenhall, Muller, Papp, Pasque, Peinado, Piana, Potoyan, Prohaska, Raghavan, Rohlf, Sanbonmatsu, Sanli, Schwab, Schwammle, Sedighi, So, Sontag, Steffen, Takahashi, Teif, Thon, Wocjan, Xu, Yang, Yuan, Zee, Zhang, Zhang   +68 more
core   +1 more source