Results 121 to 130 of about 193,873 (254)

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

Biochemically Constrained Multi‐Omics Integration Reveals Protein–Metabolite Dependencies Across Diseases

Advanced Science, EarlyView.
ProMetNet introduces a biologically constrained deep learning framework for proteo‐metabolomic integration by embedding Reactome‐derived pathway topology into neural networks. It captures non‐linear molecular dependencies and pathway‐level metabolic reorganization, enabling interpretable discrimination.
Minghui Zhao, Na Zhou, Ruotong Liu, Xiaofei Li, Jian Li, Fuzhong Xue, Qingzhen Hou   +6 more
wiley   +1 more source

BraMARS: An Interpretable Histopathology‐Driven Deep Learning Model for Brain Metastasis Risk Stratification in Surgically Resected Limited‐Stage SCLC

Advanced Science, EarlyView.
This study presents BraMARS, an explainable deep learning model that estimates future brain metastasis risk in surgically resected limited‐stage small‐cell lung cancer using routine H&E‐stained whole‐slide images. By linking model‐attributed spatial histopathology with clinical outcomes and proteomic programs, BraMARS provides a biologically ...
Zijian Yang, Taolue Wang, Shilong Liu, Zicheng Zhang, Yibo Zhang, Fan Yang, Bo Yu, Shuaishuai Gao, Yu Chen, Lin Yang, Meng Zhou   +10 more
wiley   +1 more source

Oligosaccharides With Defined Glycosidic Bonds Shape Gut Microbial Succession and Metabolism Via Bond‐Specific Microbial Responders

Advanced Science, EarlyView.
Oligosaccharides with defined glycosidic bonds drive divergent gut microbial succession and shape unique metabolic profiles. Absolute time‐series profiling with Bayesian generalized Lotka–Volterra modeling identifies bond‐specific microbial responders, while monoculture validation and metaproteomics reveal linkage‐matched transport and cleavage modules.
Xiaoxuan Lu, Jiaqi Zou, Geng Han, Mengyao Zhao, Ting Luo, Xiangru Feng, Liangliang Zhu, Yijia Chen, Xiaoguo Ji, Jiayang Jin, Liming Zhao   +10 more
wiley   +1 more source

How to rank imputation methods?

Imputation is an attractive tool for dealing with the widespread issue of missing values. Consequently, studying and developing imputation methods has been an active field of research over the last decade. Faced with an imputation task and a large number of methods, how does one find the most suitable imputation?
Näf, Jeffrey, Grzesiak, Krystyna, Scornet, Erwan   +2 more
openaire   +2 more sources

Spatiotemporal Multi‐Omic Mapping Reveals Liver‐Muscle Metabolic Crosstalk in Cancer Cachexia

Advanced Science, EarlyView.
The interactive CCAtlas platform delineates cross‐species, spatiotemporal, and sex‐specific molecular dynamics and metabolic rewiring across organs during cancer cachexia. Hepatic Gamt downregulation curtails hepatic creatine synthesis to trigger systemic creatine insufficiency and consequent skeletal muscle atrophy in LLC tumour‐bearing mice ...
Zihan Tian, Qianyu Wang, Wenyan Gao, Xianfeng Li, Jiawen Fan, Xiaoliang Wu, Siqi Liu, Xiangdong Ming, Danna Yeerken, Mutian Shen, Qingjie Min, Qimin Zhan, Yan Wang   +12 more
wiley   +1 more source

Imputation methods for serologic biomarkers in inflammatory bowel disease. [PDF]

Sci Rep
Boodaghidizaji M, McGovern DPB, Li D.
europepmc   +1 more source

MethyAnno: An Interpretable Automated Annotation Method Leveraging Multi‐Scale Information and Metric Learning Framework for scDNAm Data

Advanced Science, EarlyView.
MethyAnno enables robust and interpretable annotation of single‐cell DNA methylation data by integrating multi‐scale epigenetic information, bidirectional cross‐attention, and prototype‐based metric learning. The framework resolves rare and novel cell types across datasets while revealing cell‐type‐specific epigenetic signatures associated with disease
Yuhang Jia, Siyu Li, Songming Tang, Keju Gu, Shengquan Chen   +4 more
wiley   +1 more source

Adapting tree-based multiple imputation methods for multilevel data? A simulation study. [PDF]

Behav Res Methods
Föge N, Schwerter J, Gurtskaia K, Pauly M, Doebler P.   +4 more
europepmc   +1 more source

Sex‐ and Time‐Resolved Physiological and Gut Ecosystem Responses to a Food‐Grade Microbiome‐Targeted Intervention in Collegiate Endurance Athletes

Advanced Science, EarlyView.
In collegiate endurance athletes, a 6‐week randomized CPYE intervention yielded time‐ and sex‐dependent shifts in field‐based cardiorespiratory, metabolic, and redox indices, accompanied by changes in gut multi‐omics profiles. An exploratory extension during intensified training generates hypotheses warranting future validation.
Meng Zhang, Le Ge, Kaiyang Liu, Yanrong Liu, Guolin Zhao, Lai‐Yu Kwok, Zheng Sun, Zhihong Sun, Wenyi Zhang   +8 more
wiley   +1 more source