Results 171 to 180 of about 736,428 (286)

Fitting high-dimensional mixture cure models using the hdcuremodelsR package. [PDF]

Comput Methods Programs Biomed
Archer KJ, Fu H.
europepmc   +1 more source

Inferring Gene Regulatory Networks From Single‐Cell RNA Sequencing Data by Dual‐Role Graph Contrastive Learning

Advanced Science, EarlyView.
RegGAIN is a novel and powerful deep learning framework for inferring gene regulatory networks (GRNs) from single‐cell RNA sequencing data. By integrating self‐supervised contrastive learning with dual‐role gene representations, it consistently outperforms existing methods in both accuracy and robustness.
Qiyuan Guan, Jiating Yu, Jieyi Pan, Fan Yuan, Jiadong Ji, Rusong Zhao, Zhi‐Ping Liu, Bingqiang Liu, Ling‐Yun Wu, Duanchen Sun   +9 more
wiley   +1 more source

Improving spliced alignment by modeling splice sites with deep learning. [PDF]

Algorithms Mol Biol
Yang S, Huang N, Li H.
europepmc   +1 more source

Time‐Efficient and Informatic‐Skill‐Light Gap‐Filling for Telomere‐to‐Telomere Genome Assembly

Advanced Science, EarlyView.
The paper introduces a novel auxiliary software toolbox GapSuite, consisting of two tools Gap‐Aid and Gap‐Graph, which guides users to fill gaps in chromosome‐level genome assembly using sequence‐extension‐based and assembly‐graph‐based strategies. The two tools enable users with limited informatics expertise to efficiently complete gap‐filling on ...
Dong Xu, Xianjia Zhao, Lianguang Shang, Shaolong Tian, Yanchun Li, Huaming Wen, Qiang Xu, Dongxi Li, Weihua Pan   +8 more
wiley   +1 more source

Generating Dynamic Structures Through Physics‐Based Sampling of Predicted Inter‐Residue Geometries

Advanced Science, EarlyView.
While static structure prediction has been revolutionized, modeling protein dynamics remains elusive. trRosettaX2‐Dynamics is presented to address this challenge. This framework leverages a Transformer‐based network to predict inter‐residue geometric constraints, guiding conformation generation via physics‐based iterative sampling. The resulting method
Chenxiao Xiang, Wenkai Wang, Zhenling Peng, Jianyi Yang   +3 more
wiley   +1 more source

Multi-Model Ensembles in Infectious Disease and Public Health: Methods, Interpretation, and Implementation in R. [PDF]

Stat Med
Shandross L, Howerton E, Contamin L, Hochheiser H, Krystalli A, Consortium of Infectious Disease Modeling Hubs, Reich NG, Ray EL.   +7 more
europepmc   +1 more source

AI‐Based D‐Amino Acid Substitution for Optimizing Antimicrobial Peptides to Treat Multidrug‐Resistant Bacterial Infection

Advanced Science, EarlyView.
This study constructed the first D‐amino acid antimicrobial peptide dataset and developed an AI model for efficient screening of substitution sites, with 80% of candidate peptides showing enhanced activity. The lead peptide dR2‐1 demonstrated potent antimicrobial activity in vitro and in vivo, high stability, and low toxicity.
Yinuo Zhao, Qingzhou Kong, Haifan Gong, Lixiang Li, Jialu Fu, Boyao Wan, Peizhu Wang, Xiaojuan Li, Yue Wang, Jinghui Zhang, Yanbo Yu, Xiaoyun Yang, Xiuli Zuo, Haina Wang, Yanqing Li   +14 more
wiley   +1 more source

Synergistic Tuning of Conformational Dynamics, Electron Tunneling, and Substrate Positioning Enhances Electron Transfer in a P450 Chimera for Calcifediol Biosynthesis

Advanced Science, EarlyView.
A synergistic electron transfer (ET) optimization strategy modulating conformational dynamics, ET pathway, and substrate orientation is proposed for self‐sufficient cytochrome P450s. Guided by this strategy, a P450 variant with improved ET and catalytic efficiency was identified, and the underlying molecular basis was revealed by computational analysis.
Ziqi Liang, Xitong Song, Shuming Cheng, Yiwen Shen, Jie Zhang, Yaru Wang, Huiying Luo, Bin Yao, Binju Wang, Tao Tu   +9 more
wiley   +1 more source

Mapping functional homologies between human and marmoset brain networks using movie-driven ultra-high field fMRI. [PDF]

Commun Biol
Zanini A, Dureux A, Menon RS, Everling S.   +3 more
europepmc   +1 more source

Endothelial PDGF Signaling Dysregulation Impairs Testicular Interstitial Homeostasis in Diabetes

Advanced Science, EarlyView.
Testicular endothelial cells (TECs) function as central signaling hubs that coordinate interstitial homeostasis. Diabetes disrupts TEC‐derived PDGF signaling, silences the JUND‐MCL1 survival program in Leydig cells, and impairs peritubular function, leading to fibrosis and testosterone insufficiency.
Wenxiu Zhang, Kai Hong, Yanling Tang, Lina Cui, Xiaojian Lu, Jianxing Cheng, Yangyi Fang, Qiaoling Jiang, Ziyan Zhuang, Songzhan Gao, Hui Jiang, Qiang Liu, Jingtao Guo, Zhe Zhang, Xiaoyan Wang   +14 more
wiley   +1 more source