Yanjie Wei

Publication Activity (10 Years)

Years Active: 2007-2024
Publications (10 Years): 52

Top Topics

Autism Spectrum Disorder

Spiking Neural Networks

Top Venues

Briefings Bioinform.

Publications

Zechen Wang, Sheng Wang, Yangyang Li, Jingjing Guo, Yanjie Wei, Yuguang Mu, Liangzhen Zheng, Weifeng Li
A new paradigm for applying deep learning to protein-ligand interaction prediction. Briefings Bioinform. 25 (3) (2024)
Zhen Ju, Mingyu Wang, Xuelei Li, Jintao Meng, Wenhui Xi, Yanjie Wei
An In-Depth Assessment of Sequence Clustering Software in Bioinformatics. ISBRA (1) (2024)
Xijian Li, Ying Huang, Runxuan Tang, Guangcheng Xiao, Xiaochuan Chen, Ruilin He, Zhaolei Zhang, Jiana Luo, Yanjie Wei, Yijun Mao, Huiling Zhang
PmmNDD: Predicting the Pathogenicity of Missense Mutations in Neurodegenerative Diseases via Ensemble Learning. ISBRA (3) (2024)
Keliang Zhao, Jovial Niyogisubizo, Linxia Xiao, Yi Pan, Dongqing Wei, Didi Rosiyadi, Yanjie Wei
A Novel Deep Learning Approach Featuring Graph-Based Algorithm for Cell Segmentation and Tracking. BIBM (2023)
Md. Tofazzal Hossain, Md. Selim Reza, Xuelei Li, Yin Peng, Shengzhong Feng, Yanjie Wei
PCPI: Prediction of circRNA and Protein Interaction Using Machine Learning Method. ISBRA (2023)
Haiping Zhang, Konda Mani Saravanan, Yanjie Wei, Yang Jiao, Yang Yang, Yi Pan, Xuli Wu, John Z. H. Zhang
Deep Learning-Based Bioactive Therapeutic Peptide Generation and Screening. J. Chem. Inf. Model. 63 (3) (2023)
Hao Zhang, Honglei Song, Xiaoming Xu, Qixin Chang, Mingkai Wang, Yanjie Wei, Zekun Yin, Bertil Schmidt, Weiguo Liu
RabbitFX: Efficient Framework for FASTA/Q File Parsing on Modern Multi-Core Platforms. IEEE ACM Trans. Comput. Biol. Bioinform. 20 (3) (2023)
Yanjie Wei, Haifeng Guo, Donghua Yang, Mengmeng Li, Bo Zheng, Hongzhi Wang
Complex Time Series Analysis Based on Conditional Random Fields. ICPCSEE (1) (2023)
Zhichao Wang, Xuelei Li, Jianping Fan, Jintao Meng, Zhenli Lin, Yi Pan, Yanjie Wei
SWsnn: A Novel Simulator for Spiking Neural Networks. J. Comput. Biol. 30 (9) (2023)
Ruimin Ma, Ruitao Xie, Yanlin Wang, Jintao Meng, Yanjie Wei, Wenhui Xi, Yi Pan
Autism Spectrum Disorder Classification in Children based on Structural MRI Features Extracted using Contrastive Variational Autoencoder. CoRR (2023)
Jingjing Zhang, Md. Tofazzal Hossain, Zhen Ju, Wenhui Xi, Yanjie Wei
Identification and Functional Annotation of circRNAs in Neuroblastoma Based on Bioinformatics. ISBRA (2023)
Zhipeng Cai, Min Li, Pavel Skums, Yanjie Wei
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 20 (6) (2023)
Zechen Wang, Liangzhen Zheng, Sheng Wang, Mingzhi Lin, Zhihao Wang, Adams Wai-Kin Kong, Yuguang Mu, Yanjie Wei, Weifeng Li
A fully differentiable ligand pose optimization framework guided by deep learning and a traditional scoring function. Briefings Bioinform. 24 (1) (2023)
Hilbert Yuen In Lam, Robbe Pincket, Hao Han, Xing Er Ong, Zechen Wang, Jamie Hinks, Yanjie Wei, Weifeng Li, Liangzhen Zheng, Yuguang Mu
Application of variational graph encoders as an effective generalist algorithm in computer-aided drug design. Nat. Mac. Intell. 5 (7) (2023)
Lifeng Yan, Zekun Yin, Hao Zhang, Zhan Zhao, Mingkai Wang, André Müller, Robin Kobus, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu
RabbitQCPlus: More Efficient Quality Control for Sequencing Data. BIBM (2022)
Zhichao Wang, Xuelei Li, Jintao Meng, Yi Pan, Yanjie Wei
Simulating Spiking Neural Networks Based on SW26010pro. ISBRA (2022)
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
COVID19db: a comprehensive database platform to discover potential drugs and targets of COVID-19 at whole transcriptomic scale. Nucleic Acids Res. 50 (D1) (2022)
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
circMine: a comprehensive database to integrate, analyze and visualize human disease-related circRNA transcriptome. Nucleic Acids Res. 50 (D1) (2022)
Zhen Ju, Huiling Zhang, Jintao Meng, Jingjing Zhang, Jianping Fan, Yi Pan, Weiguo Liu, Xuelei Li, Yanjie Wei
nGIA: A novel Greedy Incremental Alignment based algorithm for gene sequence clustering. Future Gener. Comput. Syst. 136 (2022)
Hao Zhang, Qixin Chang, Zekun Yin, Xiaoming Xu, Yanjie Wei, Bertil Schmidt, Weiguo Liu
RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures. Bioinform. 38 (10) (2022)
Haiping Zhang, Konda Mani Saravanan, Yang Yang, Yanjie Wei, Yi Pan, John Z. H. Zhang
compounds against given targets using ultrafast deep learning models as core components. Briefings Bioinform. 23 (4) (2022)
Fangyu Zhang, Yanjie Wei, Jin Liu, Yanlin Wang, Wenhui Xi, Yi Pan
Identification of Autism spectrum disorder based on a novel feature selection method and Variational Autoencoder. Comput. Biol. Medicine 148 (2022)
Fangyu Zhang, Yanjie Wei, Jin Liu, Yanlin Wang, Wenhui Xi, Yi Pan
Identification of Autism spectrum disorder based on a novel feature selection method and Variational Autoencoder. CoRR (2022)
Ruimin Ma, Yanlin Wang, Yanjie Wei, Yi Pan
Meta-data Study in Autism Spectrum Disorder Classification Based on Structural MRI. CoRR (2022)
Liangzhen Zheng, Jintao Meng, Kai Jiang, Haidong Lan, Zechen Wang, Mingzhi Lin, Weifeng Li, Hongwei Guo, Yanjie Wei, Yuguang Mu
Improving protein-ligand docking and screening accuracies by incorporating a scoring function correction term. Briefings Bioinform. 23 (3) (2022)
Jintao Meng, Chen Zhuang, Peng Chen, Mohamed Wahib, Bertil Schmidt, Xiao Wang, Haidong Lan, Dou Wu, Minwen Deng, Yanjie Wei, Shengzhong Feng
Automatic Generation of High-Performance Convolution Kernels on ARM CPUs for Deep Learning. IEEE Trans. Parallel Distributed Syst. 33 (11) (2022)
Huiling Zhang, Zhendong Bei, Wenhui Xi, Min Hao, Zhen Ju, Konda Mani Saravanan, Haiping Zhang, Ning Guo, Yanjie Wei
Evaluation of residue-residue contact prediction methods: From retrospective to prospective. PLoS Comput. Biol. 17 (5) (2021)
Zekun Yin, Hao Zhang, Meiyang Liu, Wen Zhang, Honglei Song, Haidong Lan, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu
RabbitQC: high-speed scalable quality control for sequencing data. Bioinform. 37 (4) (2021)
Zekun Yin, Xiaoming Xu, Jinxiao Zhang, Yanjie Wei, Bertil Schmidt, Weiguo Liu
RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures. Bioinform. 37 (6) (2021)
Zhongyang Dai, Haishan Zhang, Feifei Lin, Shengzhong Feng, Yanjie Wei, Jiaxiu Zhou
The Classification System and Biomarkers for Autism Spectrum Disorder: A Machine Learning Approach. ISBRA (2021)
Zhen Ju, Huiling Zhang, Jingtao Meng, Jingjing Zhang, Xuelei Li, Jianping Fan, Yi Pan, Weiguo Liu, Yanjie Wei
An Efficient Greedy Incremental Sequence Clustering Algorithm. ISBRA (2021)
Haiping Zhang, Tingting Zhang, Konda Mani Saravanan, Linbu Liao, Hao Wu, Haishan Zhang, Huiling Zhang, Yi Pan, Xuli Wu, Yanjie Wei
A novel virtual drug screening pipeline with deep-leaning as core component identifies inhibitor of pancreatic alpha-amylase. BIBM (2021)
Yanjie Wei, Zhilong Su, Shuangshuang Mao, Dongsheng Zhang
An Infrared Defect Sizing Method Based on Enhanced Phase Images. Sensors 20 (13) (2020)
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
A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro. PLoS Comput. Biol. 16 (12) (2020)
Huiling Zhang, Hao Wu, Hing-Fung Ting, Yanjie Wei
Protein Interresidue Contact Prediction Based on Deep Learning and Massive Features from Multi-sequence Alignment. PDCAT (2020)
Haishan Zhang, Ximing Shao, Yin Peng, Yanning Teng, Konda Mani Saravanan, Huiling Zhang, Hongchang Li, Yanjie Wei
A novel machine learning based approach for iPS progenitor cell identification. PLoS Comput. Biol. 15 (12) (2019)
Xiaomin Zhu, Yunhui Zeng, Yanjie Wei, Shengzhong Feng, Weiguo Liu, Pavan Balaji
An Auto Code Generator for Stencil on SW26010. HPCC/SmartCity/DSS (2019)
Zhichun Zheng, Ning Guo, Konda Mani Saravanan, Yanjie Wei
Efficient Gene Assembly and Identification for Many Genome Samples. ICCC (2019)
Zekun Yin, Tianyu Zhang, André Müller, Hui Liu, Yanjie Wei, Bertil Schmidt, Weiguo Liu
Efficient Parallel Sort on AVX-512-Based Multi-Core and Many-Core Architectures. HPCC/SmartCity/DSS (2019)
Xi Chen, Hongzhi Wang, Yanjie Wei, Jianzhong Li, Hong Gao
Autoregressive-Model-Based Methods for Online Time Series Prediction with Missing Values: an Experimental Evaluation. CoRR (2019)
Huiling Zhang, Ning Guo, Guangyuan Liu, Junhao Hu, Jiaxiu Zhou, Shengzhong Feng, Yanjie Wei
Ensemble Learning Based Gender Recognition from Physiological Signals. BigData Congress (2018)
Abdelhalim Amer, Huiwei Lu, Pavan Balaji, Milind Chabbi, Yanjie Wei, Jeff R. Hammond, Satoshi Matsuoka
Lock Contention Management in Multithreaded MPI. ACM Trans. Parallel Comput. 5 (3) (2018)
Kai Xu, Robin Kobus, Yuandong Chan, Ping Gao, Xiangxu Meng, Yanjie Wei, Bertil Schmidt, Weiguo Liu
SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures. ICPP (2018)
Jianqiu Ge, Ning Guo, Jintao Meng, Bingqiang Wang, Pavan Balaji, Shengzhong Feng, Jiaxiu Zhou, Yanjie Wei
K-mer Counting for Genomic Big Data. BigData Congress (2018)
Yanjie Wei, Hongzhi Wang, Shengfei Shi, Hong Gao, Jianzhong Li
Any-Time Methods for Time-Series Prediction with Missing Observations. BigData Congress (2017)
Jintao Meng, Ning Guo, Jianqiu Ge, Yanjie Wei, Pavan Balaji, Bingqiang Wang
Scalable Assembly for Massive Genomic Graphs. CCGrid (2017)
Tao Gao, Yanfei Guo, Yanjie Wei, Bingqiang Wang, Yutong Lu, Pietro Cicotti, Pavan Balaji, Michela Taufer
Bloomfish: A Highly Scalable Distributed K-mer Counting Framework. ICPADS (2017)
Jintao Meng, Sangmin Seo, Pavan Balaji, Yanjie Wei, Bingqiang Wang, Shengzhong Feng
SWAP-Assembler 2: Optimization of De Novo Genome Assembler at Extreme Scale. ICPP (2016)
Dan Wei, Yin Peng, Yanjie Wei, Qingshan Jiang, Jinglong Fang
A hybrid method for splice site prediction based on Markov model and codon information. Int. J. Data Min. Bioinform. 16 (4) (2016)
Miaomiao Zhao, Yunpeng Cai, Jiankui He, Guanyu Wang, Dongqing Wei, Yanjie Wei, Caiwan Zhang, Fengfeng Zhou
Personalized clinical data screening: Special issue on health informatics. Comput. Biol. Medicine 61 (2015)
Abdelhalim Amer, Huiwei Lu, Yanjie Wei, Pavan Balaji, Satoshi Matsuoka
MPI+Threads: runtime contention and remedies. PPOPP (2015)
Jintao Meng, Yanjie Wei, Sangmin Seo, Pavan Balaji
SWAP-Assembler 2: Scalable Genome Assembler towards Millions of Cores - Practice and Experience. CCGRID (2015)
Shuqiang Wang, Jinxing Hu, Yanyan Shen, Ling Yin, Yanjie Wei
Modeling and analysis of gene regulatory networks with a Bayesian-driven approach. ISCIT (2014)
Jintao Meng, Bingqiang Wang, Yanjie Wei, Shengzhong Feng, Pavan Balaji
SWAP-Assembler: scalable and efficient genome assembly towards thousands of cores. BMC Bioinform. 15 (S-9) (2014)
Jintao Meng, Jianrui Yuan, Jiefeng Cheng, Yanjie Wei, Shengzhong Feng
DGraph: Algorithms for Shortgun Reads Assembly Using De Bruijn Graph. NPC (2012)
Jintao Meng, Jianrui Yuan, Jiefeng Cheng, Yanjie Wei, Shengzhong Feng
Small World Asynchronous Parallel Model for Genome Assembly. NPC (2012)
Dan Wei, Qingshan Jiang, Yanjie Wei, Shengrui Wang
A novel hierarchical clustering algorithm for gene sequences. BMC Bioinform. 13 (2012)
Dan Wei, Weiwei Zhuang, Qingshan Jiang, Yanjie Wei
A New Classification Method for Human Gene Splice Site Prediction. HIS (2012)
Parimal Kar, Yanjie Wei, Ulrich H. E. Hansmann, Siegfried Höfinger
Systematic study of the boundary composition in Poisson Boltzmann calculations. J. Comput. Chem. 28 (16) (2007)