Results 111 to 120 of about 837,599 (281)

Genomic Looping: A Key Principle of Chromatin Organization

Microbial Physiology, 2014
The effective volume occupied by the genomes of all forms of life far exceeds that of the cells in which they are contained. Therefore, all organisms have developed mechanisms for compactly folding and functionally organizing their genetic material. Through recent advances in fluorescent microscopy and 3C-based technologies, we finally have a first ...
Ramon A, van der Valk, Jocelyne, Vreede, Frédéric, Crémazy, Remus T, Dame   +3 more
openaire   +2 more sources

Non-specific interactions are sufficient to explain the position of heterochromatic chromocenters and nucleoli in interphase nuclei [PDF]

, 2009
The organization of the eukaryote nucleus into functional compartments arises by self-organization both through specific protein–protein and protein–DNA interactions and non-specific interactions that lead to entropic effects, such as e.g.
Nooijer, S., de, Bisseling, T., Wellink, J., Mulder, B.   +3 more
core   +1 more source

Transcription Factor HOXC11 Drives Colorectal Cancer Progression and Metastasis via CAMK2A‐Dependent CXCL5 Upregulation

Advanced Science, EarlyView.
HOXC11 drives colorectal cancer progression by transcriptionally activating CAMK2A, which triggers NF‐κB–dependent CXCL5 upregulation. CXCL5–CXCR2 signaling further reinforces HOXC11 expression through the ERK1/2–SP1 axis, forming a prometastatic positive feedback loop that is effectively disrupted by combined CAMK2A and CXCR2 inhibition.
Qingyang Sun, Hengjie Xu, Sheng Yang, Jiahui Zhou, Chuanxin Tian, Hongxu Nie, Chi Jin, Tuo Wang, Zhihao Chen, Junwei Tang, Yifei Feng, Xiaowei Wang, Yueming Sun   +12 more
wiley   +1 more source

Loop extrusion provides mechanical robustness to chromatin

Chromosomes are complex biopolymers folded into dynamic loops via a loop extrusion process and may experience various mechanical forces in vivo . We develop a force-dependent model of chromatin loop extrusion and investigate its mechanical consequences ...
Salari, Hossein, Jost, Daniel
core   +1 more source

Markovian Dynamics in Chromatin Loop Extrusion Factors [PDF]

, 2020
Markov properties can be used to model different dynamic processes at various stages of the loop extrusion process. The current methods are proposed to gain insight on how Markov models may illustrate chromatin behaviour once the appropriate observed ...
Eng, Kathleen
core  

Identification and validation of transcription factors that regulate chromatin dynamics [PDF]

, 2012
Gene expression has to be tightly regulated during all cellular processes. During embryonic development differentiating cells loose their developmental potential and acquire specific functions by activating lineage-specific genes.
Schöler, Anne
core   +1 more source

SemanticST: A Scalable Multi‐Contextual Graph Learning Framework for Uncovering Spatial Niches and Robust Multi‐Sample Integration in Spatial Transcriptomics

Advanced Science, EarlyView.
Technical limitations often let dominant signals overshadow rare cell types and fine‐grained heterogeneity in spatial transcriptomics. SemanticST, a graph neural network using multi‐semantic graph fusion and a novel min‐cut loss, recovers these subtle patterns.
Roxana Zahedi, Ahmadreza Argha, Nona Farbehi, Ivan Bakhshayeshi, Thantrira Porntaveetus, Youqiong Ye, Nigel H. Lovell, Hamid Alinejad‐Rokny   +7 more
wiley   +1 more source

The CXCL5/CXCR2 Axis Attenuates Ferroptosis in Intrahepatic Cholangiocarcinoma Through the Positive Feedback Loop Between PTGS2 Transcriptional Activation and Neutrophil Recruitment

Advanced Science, EarlyView.
The CXCL5/CXCR2 axis directly inhibits ferroptosis in ICC cells by activating the NF‐κB/PTGS2 pathway. Meanwhile, the CXCL5/CXCR2 axis recruits N2 TANs, and the activated PTGS2 promotes the secretion of TNF‐α from the recruited N2 TANs via the CCL2/CCL7/CCR2 pathway, thereby activating the NF‐κB/PTGS2 axis and forming a positive feedback loop, which ...
Chanqi Ye, Kefeng Lin, Shuyao Yang, Yan Zhang, Wenli Gao, Jiaqi Chen, Ying Dong, Rui Bai, Yang Tian, Minghao Wang, Zhijun Yuan, Yuxiao Ma, Yuqin He, Ruyin Chen, Wenguang Fu, Qi Jiang, Qiong Li, Jian Ruan   +17 more
wiley   +1 more source

Robust Hi-C chromatin loop maps in human neurogenesis and brain tissues at high-resolution

, 2019
Genome-wide mapping of chromatin interactions at high resolution remains experimentally and computationally challenging. Here we used a low-input “easy Hi-C” (eHi-C) protocol to map the 3D genome architecture in neurogenesis and brain tissues, and also ...
Liu, X, Wen, Z, Ma, S, Giusti-Rodríguez, P, Zhang, S, Huang, W-K, Cui, J, Lu, L, Xu, W, Rosen, JD   +9 more
core   +1 more source

Drought Stress Mediated Changes in Food Crops: Mechanisms and Remediation Strategies

Advanced Science, EarlyView.
This work presents a multi‐scale framework for flavonoid‐mediated drought tolerance in staple food crops, integrating ROS redox regulation, antioxidant defense, rhizosphere microbial interactions, and sustainable agronomic practices. This interdisciplinary model provides core insights to develop climate‐resilient cropping systems and enhance global ...
Xiaoyi Duan, Litao Wang, Tuuli‐Marjaana Koski, Lizhe An, Thomas Efferth, Yujie Fu   +5 more
wiley   +1 more source