科学研究

模型与模型可解释性

A novel deep generative model for mRNA vaccine development: Designing 5' UTRs with N 1-methyl-pseudouridine modification
Tang X, Huo M, Chen Y, Huang H, Qin S, Luo J, Qin Z, Jiang X, Liu Y, Duan X, Wang R, Chen L, Li H, Fan N, He Z, He X, Shen B, Li SC, Song X
Acta Pharm Sin B
2024

scFed: federated learning for cell type classification with scRNA-seq
Wang S, Shen B, Guo L, Shang M, Liu J, Sun Q, Shen B
Brief Bioinform
2023

Identify gestational diabetes mellitus by deep learning model from cell-free DNA at the early gestation stage
Wang Y, Sun P, Zhao Z, Yan Y, Yue W, Yang K, Liu R, Huang H, Wang Y, Chen Y, Li N, Feng H, Li J, Liu Y, Chen Y, Shen B, Zhao L, Yin C
Brief Bioinform
2023

An artificial intelligence method for predicting postoperative urinary incontinence based on multiple anatomic parameters of MRI
Li J, Fan X, Tang T, Wu E, Wang D, Zong H, Zhou X, Li Y, Zhang C, Zhang Y, Wu R, Wu C, Yang L, Shen B
Heliyon
2023

Myocardial infarction unveiled: Key miRNA players screened by a novel lncRNA-miRNA-mRNA network model
Zhan C, Liu K, Zhang Y, Zhang Y, He M, Wu R, Bi C, Shen B
Comput Biol Med
2023

Multivariate competing endogenous RNA network characterization for cancer microRNA biomarker discovery: a novel bioinformatics model with application to prostate cancer metastasis
Lin Y, Qi X, Chen J, Shen B
Precis Clin Med
2022

CD93 orchestrates the tumor microenvironment and predicts the molecular subtype and therapy response of bladder cancer
Zheng X, Xu H, Lin T, Tan P, Xiong Q, Yi X, Qiu S, Yang L, Shen B, Ai J, Wei Q
Comput Biol Med
2022

Physicochemical, Interaction & Topological Descriptors vs. hMAO-A Inhibition of Aplysinopsin Analogs: A Boulevard to the Discovery of Semi-Synthetic Anti-Depression Agents
Singla RK, Ashraf GM, Ganash M, G VB, Shen B
Curr Drug Metab
2021

Multi-omics network characterization reveals novel microRNA biomarkers and mechanisms for diagnosis and subtyping of kidney transplant rejection
Lin Y, Wang L, Ge W, Hui Y, Zhou Z, Hu L, Pan H, Huang Y, Shen B
J Transl Med
2021

QSCR Analysis of Cytotoxicity of 6-Fluoro-3-(4H-1,2,4-triazol-3-yl)quinolin-4(1H)-ones on Chinese Hamster Ovary Cell Line: Design of REPUBLIC1986
Joon S, Singla RK, Shen B, Kamal MA
Curr Med Chem
2022

MiR-378a-3p as a putative biomarker for hepatocellular carcinoma diagnosis and prognosis: Computational screening with experimental validation
Qian F, Wang J, Wang Y, Gao Q, Yan W, Lin Y, Shen L, Xie Y, Jiang X, Shen B
Clin Transl Med
2021

Identification of Key MicroRNAs and Mechanisms in Prostate Cancer Evolution Based on Biomarker Prioritization Model and Carcinogenic Survey
Lin Y, Miao Z, Zhang X, Wei X, Hou J, Huang Y, Shen B
Front Genet
2021

ANCA: A Web Server for Amino Acid Networks Construction and Analysis
Yan W, Yu C, Chen J, Zhou J, Shen B
Front Mol Biosci
2020

Biomarker Discovery for the Carcinogenic Heterogeneity Between Colon and Rectal Cancers Based on lncRNA-Associated ceRNA Network Analysis
Qi X, Lin Y, Liu X, Chen J, Shen B
Front Oncol
2020

Electrocardiogram generation with a bidirectional LSTM-CNN generative adversarial network
Zhu F, Ye F, Fu Y, Liu Q, Shen B
Sci Rep
2019

Elevated Plasma microRNA-105-5p Level in Patients With Idiopathic Parkinson's Disease: A Potential Disease Biomarker
Yang Z, Li T, Cui Y, Li S, Cheng C, Shen B, Le W
Front Neurosci
2019

MiRNA-BD: an evidence-based bioinformatics model and software tool for microRNA biomarker discovery.
Lin Y, Wu W, Sun Z, Shen L, Shen B
RNA Biol
2018

Biomarker microRNAs for prostate cancer metastasis: screened with a network vulnerability analysis model.
Lin Y, Chen F, Shen L, Tang X, Du C, Sun Z, Ding H, Chen J, Shen B
J Transl Med
2018

Knowledge-Guided Bioinformatics Model for Identifying Autism Spectrum Disorder Diagnostic MicroRNA Biomarkers
Shen L, Lin Y, Sun Z, Yuan X, Chen L, Shen B
Sci Rep
2016

Identification of biomarker microRNAs for predicting the response of colorectal cancer to neoadjuvant chemoradiotherapy based on microRNA regulatory network
Zhu Y, Peng Q, Lin Y, Zou L, Shen P, Chen F, Min M, Shen L, Chen J, Shen B
Oncotarget
2017

Screening key microRNAs for castration-resistant prostate cancer based on miRNA/mRNA functional synergistic network
Zhu J, Wang S, Zhang W, Qiu J, Shan Y, Yang D, Shen B
Oncotarget
2015

Network modelling reveals the mechanism underlying colitis-associated colon cancer and identifies novel combinatorial anti-cancer targets
Lu J, Zeng H, Liang Z, Chen L, Zhang L, Zhang H, Liu H, Jiang H, Shen B, Huang M, Geng M, Spiegel S, Luo C
Sci Rep
2015

Amino acid network for prediction of catalytic residues in enzymes: a comparison survey
Zhou J, Yan W, Hu G, Shen B
Curr Protein Pept Sci
2016

MicroRNA biomarker identification for pediatric acute myeloid leukemia based on a novel bioinformatics model
Yan W, Xu L, Sun Z, Lin Y, Zhang W, Chen J, Hu S, Shen B
Oncotarget
2015

Segmentation of neuronal structures using SARSA (λ)-based boundary amendment with reinforced gradient-descent curve shape fitting
Zhu F, Liu Q, Fu Y, Shen B
PLoS One
2014

Structure-based prediction of the effects of a missense variant on protein stability
Yang Y, Chen B, Tan G, Vihinen M, Shen B
Amino Acids
2013

Review of computer-aided models for predicting collagen stability
Concu R, Podda G, Gonzalez-Diaz H, Shen B
Curr Comput Aided Drug Des
2011

Physicochemical feature-based classification of amino acid mutations
Shen B, Bai J, Vihinen M
Protein Eng Des Sel
2008