Results 151 to 160 of about 77,159 (253)

H4K16 acylations destabilize chromatin architecture and facilitate transcriptional response during metabolic perturbations. [PDF]

Mol Cell
Nitsch S, Coraor AE, Schauer T, Wu Y, Sun J, Möritz N, Funke J, Nagpal H, Chua GNL, Battistini F, Lauberth SM, Richard E, Orozco M, Liu S, Desviat LR, Fierz B, Dietz H, Roeder RG, de Pablo JJ, Schneider R.   +19 more
europepmc   +1 more source

PlantGFM: A Genomic Foundation Model for Discovery and Creation of Plant Genes

Advanced Science, EarlyView.
A plant genomic foundation model pre‐trained on 12 species enables both accurate gene prediction and de novo gene design. Through AI‐human knowledge screening, seven designed sequences showed transcriptional activity in plants, with two expressing stable proteins—demonstrating the first DNA‐RNA‐protein expression of LLM‐generated genes in plants and ...
Changhao Li, Qizhe Zhang, Hanchen Chen, Kepeng Lin, Chengfang Luo, Mengying Yang, Wei Xu, Fan Yao, Jianbing Yan, Qing‐Yong Yang, Xuehai Hu   +10 more
wiley   +1 more source

A Non‐Canonical Role of SMAD4 in Regulating 3D Genome Architecture to Inhibit Lung Squamous Cell Carcinoma Development

Advanced Science, EarlyView.
SMAD4 is identified as a guardian of 3D genome architecture in lung squamous cell carcinoma. Loss of SMAD4 unleashes EP300 at chromatin loop anchors, strengthening enhancer–promoter looping and H3K27ac at the SOX2 locus to drive aberrant SOX2 activation and tumor cell proliferation.
Qian Tang, Chen Lian, Xinyan Han, Xuhan Zhang, Zihan Wang, Boyu Wang, Taoyu Zhu, Xinrui Lin, Xiaolei Wang, Yaping Xu, Manyu Xiao, Zijin Wang, Junming Li, Silin Chen, Yunze Wang, Yufei Liu, Songsong Li, Zuolin Shen, Xi Lu, Xueqi Han, Yilu Zhou, Mingyang Xiao, Jiayi Ran, Xiaoran Cao, Xinyi Xu, Hugo Sámano‐Sánchez, Alfredo Rodríguez, Lian Wang, Shuifang Chen, Zhanyu Xu, Shirong Zhang, Nuo Yang, Yong Tang, Jian Liu   +33 more
wiley   +1 more source

Gene-scale in vitro reconstitution reveals histone acetylation directly controls chromatin architecture. [PDF]

Sci Adv
Fukai YT, Kujirai T, Wakamori M, Kanamura S, Yamauchi L, Zeraati S, Morita S, Tanegashima C, Kadota M, Shirouzu M, Kurumizaka H, Umehara T, Kawaguchi K.   +12 more
europepmc   +1 more source

Interplay Between 3D Chromatin Architecture and Gene Regulation at the <i>APOE</i> Locus Contributes to Alzheimer's Disease Risk. [PDF]

Int J Mol Sci
Lee EG, Leong L, Chen S, Tulloch J, Yu CE.   +4 more
europepmc   +1 more source

CEBPG‐Mediated Palmitic Acid Adaptation of Cancer‐Associated Fibroblasts Drives Metastasis of Oral Squamous Cell Carcinoma

Advanced Science, EarlyView.
This study reveals a metabolic signaling axis in the OSCC microenvironment where palmitic acid (PA) drives the activation of CAFs. PA uptake triggers CEBPG‐dependent epigenetic remodeling to upregulate ERN1 and TMBIM6, thereby mitigating ER stress. This adaptive program sustains CAF survival and the pro‐metastatic phenotype, establishing this pathway ...
Yiling Duan, Yitong Li, Yufei Wu, Xiao Yang, Rui Li, Hui Zhao, Zhengjun Shang   +6 more
wiley   +1 more source

Chamber-specific chromatin architecture guides functional interpretation of disease-associated Cis-regulatory elements in human cardiomyocytes. [PDF]

Nat Commun
Haydar S, Bednarz R, Laurette P, Sobitov I, Díaz I Pedrosa N, Videm P, Lueneburg T, Kuß S, Lahm H, Dreßen M, Krane M, Schmidt C, Grüning BA, Voigt N, Streckfuss-Bömeke K, Gilsbach R.   +15 more
europepmc   +1 more source

Intramolecular Interactions between Folded and Disordered Regions Shape Ubiquilin Structure and Function

Advanced Science, EarlyView.
Ubiquilin (UBQLN), like many other human proteins, contains both well‐folded and disordered regions. Here, we show that intramolecular interactions between disordered regions and folded domains modulate between open and closed topologies of UBQLN proteins, altering their structure and function.
Jessica K. Niblo, Nirbhik Acharya, Maxwell B. Watkins, Carlos A. Castañeda, Shahar Sukenik   +4 more
wiley   +1 more source

Adversarial attack of sequence-free enhancer prediction identifies chromatin architecture. [PDF]

Bioinformatics
Gafur J, Lang OW, Lai WKM.
europepmc   +1 more source

stMixer for Scalable Mosaic Integration and Label Transfer in Spatial Histology and Multi‐Omics

Advanced Science, EarlyView.
stMixer is an unsupervised framework for scalable integration and label transfer across spatial histology and multi‐slide multi‐omics data with incomplete modality overlap. It combines self‐looped cross‐attention, multimodal metric learning, and graph‐guided cluster voting to align heterogeneous sections, correct batch effects, and propagate ...
Qixing Yang, Yan Wang, Luonan Chen, Chunman Zuo   +3 more
wiley   +1 more source