Yanjie Wei

According to our database, Yanjie Wei authored at least 67 papers between 2007 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

Fully Flexible Molecular Alignment Enables Accurate Ligand Structure Modeling.

Zhihao Wang, Fan Zhou, Zechen Wang, Qiuyue Hu, Yong-Qiang Li, Sheng Wang, Yanjie Wei, Liangzhen Zheng, Weifeng Li, Xiangda Peng

J. Chem. Inf. Model., 2024

Dual-View Pyramid Pooling in Deep Neural Networks for Improved Medical Image Classification and Confidence Calibration.

Xiaoqing Zhang, Qiushi Nie, Zunjie Xiao, Jilu Zhao, Xiao Wu, Pengxin Guo, Runzhi Li, Jin Liu, Yanjie Wei, Yi Pan

CoRR, 2024

A new paradigm for applying deep learning to protein-ligand interaction prediction.

Zechen Wang, Sheng Wang, Yangyang Li, Jingjing Guo, Yanjie Wei, Yuguang Mu, Liangzhen Zheng, Weifeng Li

Briefings Bioinform., 2024

PmmNDD: Predicting the Pathogenicity of Missense Mutations in Neurodegenerative Diseases via Ensemble Learning.

Xijian Li, Ying Huang, Runxuan Tang, Guangcheng Xiao, Xiaochuan Chen, Ruilin He, Zhaolei Zhang, Jiana Luo, Yanjie Wei, Yijun Mao, Huiling Zhang

Proceedings of the Bioinformatics Research and Applications - 20th International Symposium, 2024

An In-Depth Assessment of Sequence Clustering Software in Bioinformatics.

Zhen Ju, Mingyu Wang, Xuelei Li, Jintao Meng, Wenhui Xi, Yanjie Wei

Proceedings of the Bioinformatics Research and Applications - 20th International Symposium, 2024

CCVAN: A Conditional Molecular Generation Model based on conditional VAE and Wasserstein GAN.

Jianqiang Zheng, Ziqi Xu, Junwen Huang, Xiaochuan Chen, Yuetong Li, Yanjie Wei, Huiling Zhang

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

Missense Mutation Effect Prediction using Categorical Boosting Optimized with Sparrow Search Algorithm.

Huiling Zhang, Jingjing Zhang, Ganzhang Zheng, Xiaochuan Chen, Zaoqing Liang, Haiyan Wang, Yanjie Wei

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

Deep Learning for Autism Spectrum Disorder Identification Based on Children's Facial Images: A Multi-Feature Fusion Perspective.

Wondimagegn Bekele Munto, Mengying Zhou, Yi Pan, Yanjie Wei, Wenhui Xi

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

Meta-data Study in Autism Spectrum Disorder Classification Based on Structural MRI.

Ruimin Ma, Ying Huang, Yi Pan, Yanlin Wang, Yanjie Wei

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

The Algorithms of Predicting DNA Binding Site with Combined Feature Encoding and Optimum Decision.

Zhendong Liu, Jun Liu, Dongqing Wei, Yanjie Wei, Rongjun Man

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

2023

SWsnn: A Novel Simulator for Spiking Neural Networks.

Zhichao Wang, Xuelei Li, Jianping Fan, Jintao Meng, Zhenli Lin, Yi Pan, Yanjie Wei

J. Comput. Biol., September, 2023

JCcirc: circRNA full-length sequence assembly through integrated junction contigs.

Jingjing Zhang, Huiling Zhang, Zhen Ju, Yin Peng, Yi Pan, Wenhui Xi, Yanjie Wei

Briefings Bioinform., September, 2023

Application of variational graph encoders as an effective generalist algorithm in computer-aided drug design.

Hilbert Yuen In Lam, Robbe Pincket, Hao Han, Xing Er Ong, Zechen Wang, Jamie Hinks, Yanjie Wei, Weifeng Li, Liangzhen Zheng, Yuguang Mu

Nat. Mac. Intell., July, 2023

Deep Learning-Based Bioactive Therapeutic Peptide Generation and Screening.

Haiping Zhang, Konda Mani Saravanan, Yanjie Wei, Yang Jiao, Yang Yang, Yi Pan, Xuli Wu, John Z. H. Zhang

J. Chem. Inf. Model., February, 2023

A fully differentiable ligand pose optimization framework guided by deep learning and a traditional scoring function.

Zechen Wang, Liangzhen Zheng, Sheng Wang, Mingzhi Lin, Zhihao Wang, Adams Wai-Kin Kong, Yuguang Mu, Yanjie Wei, Weifeng Li

Briefings Bioinform., January, 2023

RabbitFX: Efficient Framework for FASTA/Q File Parsing on Modern Multi-Core Platforms.

Hao Zhang, Honglei Song, Xiaoming Xu, Qixin Chang, Mingkai Wang, Yanjie Wei, Zekun Yin, Bertil Schmidt, Weiguo Liu

IEEE ACM Trans. Comput. Biol. Bioinform., 2023

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.

Zhipeng Cai, Min Li, Pavel Skums, Yanjie Wei

IEEE ACM Trans. Comput. Biol. Bioinform., 2023

Autism Spectrum Disorder Classification in Children based on Structural MRI Features Extracted using Contrastive Variational Autoencoder.

Ruimin Ma, Ruitao Xie, Yanlin Wang, Jintao Meng, Yanjie Wei, Wenhui Xi, Yi Pan

CoRR, 2023

Identification and Functional Annotation of circRNAs in Neuroblastoma Based on Bioinformatics.

Jingjing Zhang, Md. Tofazzal Hossain, Zhen Ju, Wenhui Xi, Yanjie Wei

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

PCPI: Prediction of circRNA and Protein Interaction Using Machine Learning Method.

Md. Tofazzal Hossain, Md. Selim Reza, Xuelei Li, Yin Peng, Shengzhong Feng, Yanjie Wei

Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

Complex Time Series Analysis Based on Conditional Random Fields.

Yanjie Wei, Haifeng Guo, Donghua Yang, Mengmeng Li, Bo Zheng, Hongzhi Wang

Proceedings of the Data Science, 2023

A Novel Deep Learning Approach Featuring Graph-Based Algorithm for Cell Segmentation and Tracking.

Keliang Zhao, Jovial Niyogisubizo, Linxia Xiao, Yi Pan, Dongqing Wei, Didi Rosiyadi, Yanjie Wei

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2023

2022

Automatic Generation of High-Performance Convolution Kernels on ARM CPUs for Deep Learning.

Jintao Meng, Chen Zhuang, Peng Chen, Mohamed Wahib, Bertil Schmidt, Xiao Wang, Haidong Lan, Dou Wu, Minwen Deng, Yanjie Wei, Shengzhong Feng

IEEE Trans. Parallel Distributed Syst., 2022

COVID19db: a comprehensive database platform to discover potential drugs and targets of COVID-19 at whole transcriptomic scale.

Wenliang Zhang, Yan Zhang, Zhuochao Min, Jing Mo, Zhen Ju, Wen Guan, Binghui Zeng, Yang Liu, Jianliang Chen, Qianshen Zhang, Hanguang Li, Chunxia Zeng, Yanjie Wei, Godfrey Chi-Fung Chan

Nucleic Acids Res., 2022

circMine: a comprehensive database to integrate, analyze and visualize human disease-related circRNA transcriptome.

Wenliang Zhang, Yang Liu, Zhuochao Min, Guodong Liang, Jing Mo, Zhen Ju, Binghui Zeng, Wen Guan, Yan Zhang, Jianliang Chen, Qianshen Zhang, Hanguang Li, Chunxia Zeng, Yanjie Wei, Godfrey Chi-Fung Chan

Nucleic Acids Res., 2022

nGIA: A novel Greedy Incremental Alignment based algorithm for gene sequence clustering.

Zhen Ju, Huiling Zhang, Jintao Meng, Jingjing Zhang, Jianping Fan, Yi Pan, Weiguo Liu, Xuelei Li, Yanjie Wei

Future Gener. Comput. Syst., 2022

Meta-data Study in Autism Spectrum Disorder Classification Based on Structural MRI.

Ruimin Ma, Yanlin Wang, Yanjie Wei, Yi Pan

CoRR, 2022

Identification of Autism spectrum disorder based on a novel feature selection method and Variational Autoencoder.

Fangyu Zhang, Yanjie Wei, Jin Liu, Yanlin Wang, Wenhui Xi, Yi Pan

Comput. Biol. Medicine, 2022

RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures.

Hao Zhang, Qixin Chang, Zekun Yin, Xiaoming Xu, Yanjie Wei, Bertil Schmidt, Weiguo Liu

Bioinform., 2022

Improving protein-ligand docking and screening accuracies by incorporating a scoring function correction term.

Liangzhen Zheng, Jintao Meng, Kai Jiang, Haidong Lan, Zechen Wang, Mingzhi Lin, Weifeng Li, Hongwei Guo, Yanjie Wei, Yuguang Mu

Briefings Bioinform., 2022

Generating and screening <i>de novo</i> compounds against given targets using ultrafast deep learning models as core components.

Haiping Zhang, Konda Mani Saravanan, Yang Yang, Yanjie Wei, Yi Pan, John Z. H. Zhang

Briefings Bioinform., 2022

Simulating Spiking Neural Networks Based on SW26010pro.

Zhichao Wang, Xuelei Li, Jintao Meng, Yi Pan, Yanjie Wei

Proceedings of the Bioinformatics Research and Applications - 18th International Symposium, 2022

RabbitQCPlus: More Efficient Quality Control for Sequencing Data.

Lifeng Yan, Zekun Yin, Hao Zhang, Zhan Zhao, Mingkai Wang, André Müller, Robin Kobus, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

2021

Evaluation of residue-residue contact prediction methods: From retrospective to prospective.

Huiling Zhang, Zhendong Bei, Wenhui Xi, Min Hao, Zhen Ju, Konda Mani Saravanan, Haiping Zhang, Ning Guo, Yanjie Wei

PLoS Comput. Biol., 2021

RabbitQC: high-speed scalable quality control for sequencing data.

Zekun Yin, Hao Zhang, Meiyang Liu, Wen Zhang, Honglei Song, Haidong Lan, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu

Bioinform., 2021

RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures.

Zekun Yin, Xiaoming Xu, Jinxiao Zhang, Yanjie Wei, Bertil Schmidt, Weiguo Liu

Bioinform., 2021

An Efficient Greedy Incremental Sequence Clustering Algorithm.

Zhen Ju, Huiling Zhang, Jingtao Meng, Jingjing Zhang, Xuelei Li, Jianping Fan, Yi Pan, Weiguo Liu, Yanjie Wei

Proceedings of the Bioinformatics Research and Applications - 17th International Symposium, 2021

The Classification System and Biomarkers for Autism Spectrum Disorder: A Machine Learning Approach.

Zhongyang Dai, Haishan Zhang, Feifei Lin, Shengzhong Feng, Yanjie Wei, Jiaxiu Zhou

Proceedings of the Bioinformatics Research and Applications - 17th International Symposium, 2021

A novel virtual drug screening pipeline with deep-leaning as core component identifies inhibitor of pancreatic alpha-amylase.

Haiping Zhang, Tingting Zhang, Konda Mani Saravanan, Linbu Liao, Hao Wu, Haishan Zhang, Huiling Zhang, Yi Pan, Xuli Wu, Yanjie Wei

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020

An Infrared Defect Sizing Method Based on Enhanced Phase Images.

Yanjie Wei, Zhilong Su, Shuangshuang Mao, Dongsheng Zhang

Sensors, 2020

A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro.

Haiping Zhang, Yang Yang, Junxin Li, Min Wang, Konda Mani Saravanan, Jinli Wei, Justin Tze-Yang Ng, Md. Tofazzal Hossain, Maoxuan Liu, Huiling Zhang, Xiaohu Ren, Yi Pan, Yin Peng, Yi Shi, Xiaochun Wan, Yingxia Liu, Yanjie Wei

PLoS Comput. Biol., 2020

Protein Interresidue Contact Prediction Based on Deep Learning and Massive Features from Multi-sequence Alignment.

Huiling Zhang, Hao Wu, Hing-Fung Ting, Yanjie Wei

Proceedings of the Parallel and Distributed Computing, Applications and Technologies, 2020

2019

A novel machine learning based approach for iPS progenitor cell identification.

Haishan Zhang, Ximing Shao, Yin Peng, Yanning Teng, Konda Mani Saravanan, Huiling Zhang, Hongchang Li, Yanjie Wei

PLoS Comput. Biol., 2019

Autoregressive-Model-Based Methods for Online Time Series Prediction with Missing Values: an Experimental Evaluation.

Xi Chen, Hongzhi Wang, Yanjie Wei, Jianzhong Li, Hong Gao

CoRR, 2019

Efficient Gene Assembly and Identification for Many Genome Samples.

Zhichun Zheng, Ning Guo, Konda Mani Saravanan, Yanjie Wei

Proceedings of the Cognitive Computing - ICCC 2019, 2019

An Auto Code Generator for Stencil on SW26010.

Xiaomin Zhu, Yunhui Zeng, Yanjie Wei, Shengzhong Feng, Weiguo Liu, Pavan Balaji

Proceedings of the 21st IEEE International Conference on High Performance Computing and Communications; 17th IEEE International Conference on Smart City; 5th IEEE International Conference on Data Science and Systems, 2019

Efficient Parallel Sort on AVX-512-Based Multi-Core and Many-Core Architectures.

Zekun Yin, Tianyu Zhang, André Müller, Hui Liu, Yanjie Wei, Bertil Schmidt, Weiguo Liu

Proceedings of the 21st IEEE International Conference on High Performance Computing and Communications; 17th IEEE International Conference on Smart City; 5th IEEE International Conference on Data Science and Systems, 2019

2018

Lock Contention Management in Multithreaded MPI.

Abdelhalim Amer, Huiwei Lu, Pavan Balaji, Milind Chabbi, Yanjie Wei, Jeff R. Hammond, Satoshi Matsuoka

ACM Trans. Parallel Comput., 2018

SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures.

Kai Xu, Robin Kobus, Yuandong Chan, Ping Gao, Xiangxu Meng, Yanjie Wei, Bertil Schmidt, Weiguo Liu

Proceedings of the 47th International Conference on Parallel Processing, 2018

Ensemble Learning Based Gender Recognition from Physiological Signals.

Huiling Zhang, Ning Guo, Guangyuan Liu, Junhao Hu, Jiaxiu Zhou, Shengzhong Feng, Yanjie Wei

Proceedings of the Big Data - BigData 2018, 2018

K-mer Counting for Genomic Big Data.

Jianqiu Ge, Ning Guo, Jintao Meng, Bingqiang Wang, Pavan Balaji, Shengzhong Feng, Jiaxiu Zhou, Yanjie Wei

Proceedings of the Big Data - BigData 2018, 2018

2017

Bloomfish: A Highly Scalable Distributed K-mer Counting Framework.

Tao Gao, Yanfei Guo, Yanjie Wei, Bingqiang Wang, Yutong Lu, Pietro Cicotti, Pavan Balaji, Michela Taufer

Proceedings of the 23rd IEEE International Conference on Parallel and Distributed Systems, 2017

Scalable Assembly for Massive Genomic Graphs.

Jintao Meng, Ning Guo, Jianqiu Ge, Yanjie Wei, Pavan Balaji, Bingqiang Wang

Proceedings of the 17th IEEE/ACM International Symposium on Cluster, 2017

Any-Time Methods for Time-Series Prediction with Missing Observations.

Yanjie Wei, Hongzhi Wang, Shengfei Shi, Hong Gao, Jianzhong Li

Proceedings of the 2017 IEEE International Congress on Big Data, 2017

2016

A hybrid method for splice site prediction based on Markov model and codon information.

Dan Wei, Yin Peng, Yanjie Wei, Qingshan Jiang, Jinglong Fang

Int. J. Data Min. Bioinform., 2016

SWAP-Assembler 2: Optimization of De Novo Genome Assembler at Extreme Scale.

Jintao Meng, Sangmin Seo, Pavan Balaji, Yanjie Wei, Bingqiang Wang, Shengzhong Feng

Proceedings of the 45th International Conference on Parallel Processing, 2016

2015

Personalized clinical data screening: Special issue on health informatics.

Miaomiao Zhao, Yunpeng Cai, Jiankui He, Guanyu Wang, Dongqing Wei, Yanjie Wei, Caiwan Zhang, Fengfeng Zhou

Comput. Biol. Medicine, 2015

MPI+Threads: runtime contention and remedies.

Abdelhalim Amer, Huiwei Lu, Yanjie Wei, Pavan Balaji, Satoshi Matsuoka

Proceedings of the 20th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, 2015

SWAP-Assembler 2: Scalable Genome Assembler towards Millions of Cores - Practice and Experience.

Jintao Meng, Yanjie Wei, Sangmin Seo, Pavan Balaji

Proceedings of the 15th IEEE/ACM International Symposium on Cluster, 2015

2014

SWAP-Assembler: scalable and efficient genome assembly towards thousands of cores.

Jintao Meng, Bingqiang Wang, Yanjie Wei, Shengzhong Feng, Pavan Balaji

BMC Bioinform., 2014

Modeling and analysis of gene regulatory networks with a Bayesian-driven approach.

Shuqiang Wang, Jinxing Hu, Yanyan Shen, Ling Yin, Yanjie Wei

Proceedings of the 14th International Symposium on Communications and Information Technologies, 2014

2013

An Energy Efficient Clustering Scheme for Data Aggregation in Wireless Sensor Networks.

Jintao Meng, Jian-Rui Yuan, Shengzhong Feng, Yanjie Wei

J. Comput. Sci. Technol., 2013

2012

A novel hierarchical clustering algorithm for gene sequences.

Dan Wei, Qingshan Jiang, Yanjie Wei, Shengrui Wang

BMC Bioinform., 2012

Small World Asynchronous Parallel Model for Genome Assembly.

Jintao Meng, Jianrui Yuan, Jiefeng Cheng, Yanjie Wei, Shengzhong Feng

Proceedings of the Network and Parallel Computing, 9th IFIP International Conference, 2012

DGraph: Algorithms for Shortgun Reads Assembly Using De Bruijn Graph.

Jintao Meng, Jianrui Yuan, Jiefeng Cheng, Yanjie Wei, Shengzhong Feng

Proceedings of the Network and Parallel Computing, 9th IFIP International Conference, 2012

A New Classification Method for Human Gene Splice Site Prediction.

Dan Wei, Weiwei Zhuang, Qingshan Jiang, Yanjie Wei

Proceedings of the Health Information Science - First International Conference, 2012

2007

Systematic study of the boundary composition in Poisson Boltzmann calculations.

Parimal Kar, Yanjie Wei, Ulrich H. E. Hansmann, Siegfried Höfinger

J. Comput. Chem., 2007