Ming Chen

Publication Activity (10 Years)

Years Active: 2003-2024
Publications (10 Years): 38

Top Topics

Biological Data

Stress Response

Top Venues

J. Integr. Bioinform.

Briefings Bioinform.

Database J. Biol. Databases Curation

Publications

Yuriy L. Orlov, Ming Chen, Nikolay A. Kolchanov, Ralf Hofestädt
BGRS: bioinformatics of genome regulation and data integration. J. Integr. Bioinform. 20 (3) (2024)
Haoyu Chao, Shilong Zhang, Yueming Hu, Qingyang Ni, Saige Xin, Liang Zhao, Vladimir A. Ivanisenko, Yuriy L. Orlov, Ming Chen
Integrating omics databases for enhanced crop breeding. J. Integr. Bioinform. 20 (4) (2024)
Hongjun Chen, Yekai Zhou, Yongjing Liu, Peijing Zhang, Ming Chen
Network integration and protein structural binding analysis of neurodegeneration-related interactome. Briefings Bioinform. 24 (4) (2023)
Haseeb Rehman Khan, Zeeshan Gillani, Muhammad Hasan Jamal, Atifa Athar, Muhammad Tayyab Chaudhry, Haoyu Chao, Yong He, Ming Chen
Early Identification of Crop Type for Smallholder Farming Systems Using Deep Learning on Time-Series Sentinel-2 Imagery. Sensors 23 (4) (2023)
Jingtian Xu, Can Zhu, Minzeng Su, Sida Li, Haoyu Chao, Ming Chen
CropGF: a comprehensive visual platform for crop gene family mining and analysis. Database J. Biol. Databases Curation 2023 (2023)
Xiaotian Hu, Cong Feng, Yincong Zhou, Andrew P. Harrison, Ming Chen
DeepTrio: a ternary prediction system for protein-protein interaction using mask multiple parallel convolutional neural networks. Bioinform. 38 (3) (2022)
Hiroshi Matsuno, Fei Liu, Ming Chen
Editorial: Petri nets for cellular process modelling. Biosyst. 212 (2022)
Bin Tan, Saige Xin, Yanshi Hu, Cong Feng, Ming Chen
LBD: a manually curated database of experimentally validated lymphoma biomarkers. Database J. Biol. Databases Curation 2022 (2022) (2022)
Yuhao Chen, Yanshi Hu, Xiaotian Hu, Cong Feng, Ming Chen
CoGO: a contrastive learning framework to predict disease similarity based on gene network and ontology structure. Bioinform. 38 (18) (2022)
Md. Asif Ahsan, Yongjing Liu, Cong Feng, Yincong Zhou, Guangyuan Ma, Youhuang Bai, Ming Chen
Bioinformatics resources facilitate understanding and harnessing clinical research of SARS-CoV-2. Briefings Bioinform. 22 (2) (2021)
Cong Feng, Min Dai, Yongjing Liu, Ming Chen
Sequence repetitiveness quantification and de novo repeat detection by weighted k-mer coverage. Briefings Bioinform. 22 (3) (2021)
Md. Asif Ahsan, Yongjing Liu, Cong Feng, Ralf Hofestädt, Ming Chen
OverCOVID: an integrative web portal for SARS-CoV-2 bioinformatics resources. J. Integr. Bioinform. 18 (1) (2021)
Fei Liu, George Assaf, Ming Chen, Monika Heiner
A Petri nets-based framework for whole-cell modeling. Biosyst. 210 (2021)
Peijing Zhang, Yongjing Liu, Hongjun Chen, Xianwen Meng, Jitong Xue, Kunsong Chen, Ming Chen
CircPlant: An Integrated Tool for circRNA Detection and Functional Prediction in Plants. Genom. Proteom. Bioinform. 18 (3) (2020)
Qiang Kang, Jun Meng, Jun Cui, Yushi Luan, Ming Chen
PmliPred: a method based on hybrid model and fuzzy decision for plant miRNA-lncRNA interaction prediction. Bioinform. 36 (10) (2020)
Wenyi Wu, Yan Wu, Dahui Hu, Yincong Zhou, Yanshi Hu, Yujie Chen, Ming Chen
PncStress: a manually curated database of experimentally validated stress-responsive non-coding RNAs in plants. Database J. Biol. Databases Curation 2020 (2020)
Solomon Shiferaw Beyene, Tianyi Ling, Blagoj Ristevski, Ming Chen
A novel riboswitch classification based on imbalanced sequences achieved by machine learning. PLoS Comput. Biol. 16 (7) (2020)
Yuriy L. Orlov, Oxana B. Dobrovolskaya, Ming Chen, Ralf Hofestädt
Bioinformatics of genome regulation and structure - 2020 papers collection. J. Integr. Bioinform. 17 (4) (2020)
Yongjing Liu, Liangyu Fu, Kerstin Kaufmann, Dijun Chen, Ming Chen
A practical guide for DNase-seq data analysis: from data management to common applications. Briefings Bioinform. 20 (5) (2019)
Peijing Zhang, Wenyi Wu, Qi Chen, Ming Chen
Non-Coding RNAs and their Integrated Networks. J. Integr. Bioinform. 16 (3) (2019)
Ming Chen, Ralf Hofestädt, Jan Taubert
Integrative Bioinformatics: History and Future. J. Integr. Bioinform. 16 (3) (2019)
Qi Chen, Xianwen Meng, Qi Liao, Ming Chen
Versatile interactions and bioinformatics analysis of noncoding RNAs. Briefings Bioinform. 20 (5) (2019)
Xianwen Meng, Dahui Hu, Peijing Zhang, Qi Chen, Ming Chen
CircFunBase: a database for functional circular RNAs. Database J. Biol. Databases Curation 2019 (2019)
Tatiana V. Tatarinova, Ming Chen, Yuriy L. Orlov
Bioinformatics research at BGRS-2018. BMC Bioinform. (1) (2019)
Blagoj Ristevski, Ming Chen
Big Data Analytics in Medicine and Healthcare. J. Integr. Bioinform. 15 (3) (2018)
Peijing Zhang, Xianwen Meng, Hongjun Chen, Yongjing Liu, Jitong Xue, Yincong Zhou, Ming Chen
PlantCircNet: a database for plant circRNA-miRNA-mRNA regulatory networks. Database J. Biol. Databases Curation 2017 (2017)
Lijun Wang, Md. Asif Ahsan, Ming Chen
A Generalized Approach for Measuring Relationships Among Genes. J. Integr. Bioinform. 14 (3) (2017)
Chunhui Yuan, Xianwen Meng, Xue Li, Nicola Illing, Robert A. Ingle, Jingjing Wang, Ming Chen
PceRBase: a database of plant competing endogenous RNA. Nucleic Acids Res. 45 (Database-Issue) (2017)
Jingjing Wang, Xianwen Meng, Oxana B. Dobrovolskaya, Yuriy L. Orlov, Ming Chen
Non-coding RNAs and Their Roles in Stress Response in Plants. Genom. Proteom. Bioinform. 15 (5) (2017)
Xianwen Meng, Xue Li, Peijing Zhang, Jingjing Wang, Yincong Zhou, Ming Chen
Circular RNA: an emerging key player in RNA world. Briefings Bioinform. 18 (4) (2017)
Md. Matiur Rahaman, Md. Asif Ahsan, Zeeshan Gillani, Ming Chen
Digital Biomass Accumulation Using High-Throughput Plant Phenotype Data Analysis. J. Integr. Bioinform. 14 (3) (2017)
Xianwen Meng, Qi Chen, Peijing Zhang, Ming Chen
CircPro: an integrated tool for the identification of circRNAs with protein-coding potential. Bioinform. 33 (20) (2017)
Ming Chen, Andrew P. Harrison, Hugh P. Shanahan, Yuriy L. Orlov
Biological Big Bytes: Integrative Analysis of Large Biological Datasets. J. Integr. Bioinform. 14 (3) (2017)
Lili Liu, Zijun Zhang, Taotao Sheng, Ming Chen
DEF: an automated dead-end filling approach based on quasi-endosymbiosis. Bioinform. 33 (3) (2017)
Qilin Li, Yincong Zhou, Yingmin Jiao, Zhao Zhang, Lin Bai, Li Tong, Xiong Yang, Björn Sommer, Ralf Hofestädt, Ming Chen
DaTo: an atlas of biological databases and tools. J. Integr. Bioinform. 13 (4) (2016)
Youhuang Bai, Xiaozhuan Dai, Andrew P. Harrison, Caroline E. Johnston, Ming Chen
Toward a next-generation atlas of RNA secondary structure. Briefings Bioinform. 17 (1) (2016)
Björn Sommer, Stephen Jia Wang, Lifeng Xu, Ming Chen, Falk Schreiber
Hybrid-Dimensional Visualization and Interaction - Integrating 2D and 3D Visualization with Semi-Immersive Navigation Techniques. BDVA (2015)
Zhao Zhang, Li Jiang, Jingjing Wang, Peizhen Gu, Ming Chen
MTide: an integrated tool for the identification of miRNA-target interaction in plants. Bioinform. 31 (2) (2015)
Zeeshan Gillani, Muhammad Akash, Md. Matiur Rahaman, Ming Chen
CompareSVM: supervised, Support Vector Machine (SVM) inference of gene regularity networks. BMC Bioinform. 15 (2014)
Ming Chen, Ralf Hofestädt
Open problems in Petri net modeling and simulation of biological systems. it Inf. Technol. 56 (2) (2014)
Lili Liu, Qian Mei, Zhenning Yu, Tianhao Sun, Zijun Zhang, Ming Chen
An Integrative Bioinformatics Framework for Genome-scale Multiple Level Network Reconstruction of Rice. J. Integr. Bioinform. 10 (2) (2013)
Chaogang Shao, Ming Chen, Yijun Meng
A reversed framework for the identification of microRNA-target pairs in plants. Briefings Bioinform. 14 (3) (2013)
Dijun Chen, Chunhui Yuan, Jian Zhang, Zhao Zhang, Lin Bai, Yijun Meng, Ling-Ling Chen, Ming Chen
PlantNATsDB: a comprehensive database of plant natural antisense transcripts. Nucleic Acids Res. 40 (Database-Issue) (2012)
Yuriy L. Orlov, Han Xu, Dmitry A. Afonnikov, Bing Lim, Jian-Chien Heng, Ping Yuan, Ming Chen, Junli Yan, Neil D. Clarke, Nina Orlova, Mikael Huss, Konstantin V. Gunbin, Nikolay Podkolodnyy, Huck-Hui Ng
Computer and Statistical Analysis of Transcription Factor Binding and Chromatin Modifications by ChIP-seq data in Embryonic Stem Cell. J. Integr. Bioinform. 9 (2) (2012)
Haibin Gu, Pengcheng Zhu, Yinming Jiao, Yijun Meng, Ming Chen
PRIN, a predicted rice interactome network. BMC Bioinform. 12 (2011)
Pengcheng Zhu, Haibin Gu, Yinming Jiao, Donglin Huang, Ming Chen
Computational Identification of Protein-Protein Interactions in Rice Based on the Predicted Rice Interactome Network. Genom. Proteom. Bioinform. 9 (4-5) (2011)
Ming Chen, Sridhar Hariharaputran, Ralf Hofestädt, Benjamin Kormeier, Sarah Spangardt
Petri net models for the semi-automatic construction of large scale biological networks. Nat. Comput. 10 (3) (2011)
Donglin Huang, Yiling Huang, Youhuang Bai, Dijun Chen, Ralf Hofestädt, Christian Klukas, Ming Chen
MyBioNet: interactively visualize, edit and merge biological networks on the Web. Bioinform. 27 (23) (2011)
Yijun Meng, Lingfeng Gou, Dijun Chen, Chuanzao Mao, Yongfeng Jin, Ping Wu, Ming Chen
PmiRKB: a plant microRNA knowledge base. Nucleic Acids Res. 39 (Database-Issue) (2011)
Yijun Meng, Chaogang Shao, Ming Chen
Toward microRNA-mediated gene regulatory networks in plants. Briefings Bioinform. 12 (6) (2011)
Donglin Huang, Yiling Huang, Christian Klukas, Ralf Hofestädt, Ming Chen
PBSK browser: Navigate biological pathways of PSI-MI, BioPAX, SBML and KGML formats. BIBM Workshops (2010)
Sebastian Janowski, Benjamin Kormeier, Thoralf Töpel, Klaus Hippe, Ralf Hofestädt, Nils Willassen, Rafael Friesen, Sebastian Rubert, Daniela Borck, Peik Haugen, Ming Chen
Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing. Silico Biol. 10 (1-2) (2010)
Dijun Chen, Yijun Meng, Xiaoxia Ma, Chuanzao Mao, Youhuang Bai, Junjie Cao, Haibin Gu, Ping Wu, Ming Chen
Small RNAs in angiosperms: sequence characteristics, distribution and generation. Bioinform. 26 (11) (2010)
Ming Chen, Yijun Meng, Haibin Gu, Dijun Chen
Functional characterization of plant small RNAs based on next-generation sequencing data. Comput. Biol. Chem. 34 (5-6) (2010)
Xinzheng Wang, Pengcheng Zhu, Ming Chen
Antenna location design for generalized distributed antenna systems. IEEE Commun. Lett. 13 (5) (2009)
Xinzheng Wang, Pengcheng Zhu, Ming Chen
Antenna Location Optimization for Circular-Layout Distributed Antenna Systems. IEICE Trans. Commun. (9) (2009)
Xinzheng Wang, Ming Chen, Pengcheng Zhu
Threshold-Based OSIC Detection Algorithm for Per-Antenna-Coded TIMO-OFDM Systems. IEICE Trans. Commun. (7) (2009)
Ming Chen, Andrew P. Harrison
In Silico Analysis of Crop Science: Report on the First China-UK Workshop on Chips, Computers and Crops. Genom. Proteom. Bioinform. 6 (3-4) (2008)
Xinzheng Wang, Pengcheng Zhu, Ming Chen
Thresholded Interference Cancellation Algorithm for the LTE Uplink Multiuser MIMO. GLOBECOM (2008)
Xiaohui Chen, Ming Chen, Kaida Ning
: an R package for constructing gene regulatory networks from microarray data by using Bayesian network. Bioinform. 22 (23) (2006)
Ming Chen, Ralf Hofestädt
A medical bioinformatics approach for metabolic disorders: Biomedical data prediction, modeling, and systematic analysis. J. Biomed. Informatics 39 (2) (2006)
Ming Chen, Ralf Hofestädt
An algorithm for linear metabolic pathway alignment. Silico Biol. 5 (2) (2004)
Ming Chen, Susana Lin, Ralf Hofestädt
STCDB: Signal Transduction Classification Database. Nucleic Acids Res. 32 (Database-Issue) (2004)
Ming Chen, Ralf Hofestädt
Quantitative Petri net model of gene regulated metabolic networks in the cell. Silico Biol. 3 (3) (2003)