Journal: Genomics, Proteomics & Bioinformatics

Volume 16, Issue 6

389 -- 392Ding Tang, Zhukuan Cheng. From Basic Research to Molecular Breeding - Chinese Scientists Play A Central Role in Boosting World Rice Production
393 -- 396Haiyang Wang, Xing Wang Deng. Development of the "Third-Generation" Hybrid Rice in China
397 -- 404Shuhui Song, Dongmei Tian, Zhang Zhang 0002, Songnian Hu, Jun Yu 0004. Rice Genomics: over the Past Two Decades and into the Future
405 -- 415Tanyaradzwa Rodgers Ngara, Houjin Zhang. Recent Advances in Function-based Metagenomic Screening
416 -- 427Wenfang Zhou, Mojie Duan, Weitao Fu, Jinping Pang, Qin Tang, Huiyong Sun, Lei Xu, Shan Chang, Dan Li, Tingjun Hou. Discovery of Novel Androgen Receptor Ligands by Structure-based Virtual Screening and Bioassays
428 -- 438Lianzhong Zhang, Zhenzhen Wang, Ruifeng Shi, Xuefei Zhu, Jiahui Zhou, Bin Peng, Xingzhi Xu. RNF126 Quenches RNF168 Function in the DNA Damage Response
439 -- 450Shangang Jia, Kyla Morton, Chi Zhang 0013, David Holding. An Exome-seq Based Tool for Mapping and Selection of Candidate Genes in Maize Deletion Mutants
451 -- 459Zhen Chen, Ningning He, Yu Huang, Wen Tao Qin, Xuhan Liu, Lei Li. Integration of A Deep Learning Classifier with A Random Forest Approach for Predicting Malonylation Sites

Volume 16, Issue 5

307 -- 309Jun Yu 0004. Scientist Guerilla Fighter in the Frontiers of Bioinformatics - In Memory of Bailin Hao
310 -- 319Guanghong Zuo, Ji Qi, Bailin Hao. Versus Monophyly in Whole-genome-based CVTree
320 -- 331Dongfang Wang, Jin Gu. VASC: Dimension Reduction and Visualization of Single-cell RNA-seq Data by Deep Variational Autoencoder
332 -- 341Dimitrios Kleftogiannis, Haitham Ashoor, Vladimir B. Bajic. TELS: A Novel Computational Framework for Identifying Motif Signatures of Transcribed Enhancers
342 -- 353Stefano Perna, Pietro Pinoli, Stefano Ceri, Limsoon Wong. TICA: Transcriptional Interaction and Coregulation Analyzer
354 -- 364Shi-Jian Zhang, Peiqi Meng, Jieni Zhang, Peizeng Jia, Jiuxiang Lin, Xiangfeng Wang, Feng Chen, Xiaoxing Wei. Machine Learning Models for Genetic Risk Assessment of Infants with Non-syndromic Orofacial Cleft
365 -- 372Riccardo Calandrelli, Qiuyang Wu, Jihong Guan, Sheng Zhong. GITAR: An Open Source Tool for Analysis and Visualization of Hi-C Data
373 -- 381Wanfei Liu, Shuangyang Wu, Qiang Lin, Shenghan Gao, Feng Ding, Xiaowei Zhang, Hasan Awad Aljohi, Jun Yu 0004, Songnian Hu. RGAAT: A Reference-based Genome Assembly and Annotation Tool for New Genomes and Upgrade of Known Genomes
382 -- 385Qidi Feng, Dongsheng Lu, Shuhua Xu. AncestryPainter: A Graphic Program for Displaying Ancestry Composition of Populations and Individuals

Volume 16, Issue 4

223 -- 225Zhang Zhang 0002, Yu Xue, Fangqing Zhao. Bioinformatics Commons: The Cornerstone of Life and Health Sciences
226 -- 233Rui Dong, Xu-Kai Ma, Guo-Wei Li, Li Yang. CIRCpedia v2: An Updated Database for Comprehensive Circular RNA Annotation and Expression Comparison
234 -- 243Qing Huan, Yuliang Zhang, Shaohuan Wu, Wenfeng Qian. HeteroMeth: A Database of Cell-to-cell Heterogeneity in DNA Methylation
244 -- 251Haodong Xu, Yongbo Wang, Shaofeng Lin, Wankun Deng, Di Peng, Qinghua Cui, Yu Xue. PTMD: A Database of Human Disease-associated Post-translational Modifications
252 -- 261Guanting Lu, Xiaowen Hao, Wei-Hua Chen, Shijie Mu. GAAD: A Gene and Autoimmiune Disease Association Database
262 -- 268Linna Peng, Sijin Cheng, Yuan Lin, Qionghua Cui, Yingying Luo, Jiahui Chu, Mingming Shao, Wenyi Fan, Yamei Chen, Ai Lin, Yiyi Xi, Yanxia Sun, Lei Zhang, Chao Zhang, Wen Tan, Ge Gao, Chen Wu, Dongxin Lin. CCGD-ESCC: A Comprehensive Database for Genetic Variants Associated with Esophageal Squamous Cell Carcinoma in Chinese Population
269 -- 275Qiuyu Lian, Shicheng Wang, Guchao Zhang, Dongfang Wang, Guijuan Luo, Jing Tang, Lei Chen, Jin Gu. HCCDB: A Database of Hepatocellular Carcinoma Expression Atlas
276 -- 282Jingcheng Wu, Wenyi Zhao, Binbin Zhou, Zhixi Su, Xun Gu, Zhan Zhou, Shuqing Chen. TSNAdb: A Database for Tumor-specific Neoantigens from Immunogenomics Data Analysis
283 -- 293Huan Qi, Zhenhong Jiang, Kang Zhang, Shiping Yang, Fei He, Ziding Zhang. PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System
294 -- 306Yubin Xie, Xiaotong Luo, Yupeng Li, Li Chen, Wenbin Ma, Junjiu Huang, Jun Cui, Yong Zhao, Yu Xue, Zhixiang Zuo, Jian Ren 0002. DeepNitro: Prediction of Protein Nitration and Nitrosylation Sites by Deep Learning

Volume 16, Issue 3

155 -- 161Chi Zhang 0010, Guifang Jia. 1A) in mRNA and tRNA
162 -- 171Andreas Keller, Tobias Fehlmann, Nicole Ludwig 0001, Mustafa Kahraman, Thomas Laufer, Christina Backes, Claus Vogelmeier, Caroline Diener, Frank Biertz, Christian Herr, Rudolf A. Jörres, Hans-Peter Lenhof, Eckart Meese, Robert Bals. Genome-wide MicroRNA Expression Profiles in COPD: Early Predictors for Cancer Development
172 -- 186Yajing Chu, Zhigang Zhao, David Wayne Sant, Ganqian Zhu, Sarah M. Greenblatt, Lin Liu, Jinhuan Wang, Zeng Cao, Jeanette Cheng Tho, Shi Chen, Xiaochen Liu, Peng Zhang, Jaroslaw P. Maciejewski, Stephen Nimer, Gaofeng Wang, Weiping Yuan, Feng-Chun Yang, Mingjiang Xu. Tet2 Regulates Osteoclast Differentiation by Interacting with Runx1 and Maintaining Genomic 5-Hydroxymethylcytosine (5hmC)
187 -- 199Ji Zhang, Xiao Han, Chunchun Gao, Yurong Xing, Zheng Qi, Ruijuan Liu, Yueqin Wang, Xiaojian Zhang, Yun-Gui Yang, Xiangnan Li, Baofa Sun, Xin Tian. 5-Hydroxymethylome in Circulating Cell-free DNA as A Potential Biomarker for Non-small-cell Lung Cancer
200 -- 211Chunmei Cui, WeiLi Yang, Jiangcheng Shi, Yong Zhou, Jichun Yang, Qinghua Cui, Yuan Zhou. Identification and Analysis of Human Sex-biased MicroRNAs
212 -- 220Erin L. Crowgey, Jennifer T. Wyffels, Patrick M. Osborn, Thomas T. Wood, Laura E. Edsberg. A Systems Biology Approach for Studying Heterotopic Ossification: Proteomic Analysis of Clinical Serum and Tissue Samples

Volume 16, Issue 2

85 -- 98Jinbo Huang, Ping Yin. 6A) Modification in the Transcriptome
99 -- 107Shanhui Liao, Hongbin Sun, Chao Xu. 6A) Readers
108 -- 119Liming Ma, Zirui Liang, Hui Zhou, Liang-Hu Qu. Applications of RNA Indexes for Precision Oncology in Breast Cancer
120 -- 126Ke Wu, Juan He, Wenchen Pu, Yong Peng. The Role of Exportin-5 in MicroRNA Biogenesis and Cancer
127 -- 135Yuan Zhou, Qinghua Cui. 6A Modification
136 -- 143Jiaqi Gu, Ming Wang, Yang Yang, Ding Qiu, Yiqun Zhang, Jinbiao Ma, Yu Zhou, Gregory J. Hannon, Yang Yu. GoldCLIP: Gel-omitted Ligation-dependent CLIP
144 -- 151Junchao Shi, Eun-A Ko, Kenton M. Sanders, Qi Chen, Tong Zhou. SPORTS1.0: A Tool for Annotating and Profiling Non-coding RNAs Optimized for rRNA- and tRNA-derived Small RNAs

Volume 16, Issue 1

1 -- 9Leroy E. Hood. Lessons Learned as President of the Institute for Systems Biology (2000-2018)
10 -- 16Yueqiang Wang, Yue Shen, Ying Gu, Shida Zhu, Ye Yin. Genome Writing: Current Progress and Related Applications
17 -- 32Chensi Cao, Feng Liu, Hai Tan, Deshou Song, Wenjie Shu, Weizhong Li, Yiming Zhou, Xiaochen Bo, Zhi Xie. Deep Learning and Its Applications in Biomedicine
33 -- 49Changting Meng, Chunmei Bai, Thomas D. Brown, Leroy E. Hood, Qiang Tian. Human Gut Microbiota and Gastrointestinal Cancer
50 -- 62Yan Chen, Guangping Li, Ming-Lin Liu. Microvesicles as Emerging Biomarkers and Therapeutic Targets in Cardiometabolic Diseases
63 -- 72Manuel Mauricio Goez, Maria C. Torres-Madronero, Sarah Röthlisberger, Edilson Delgado-Trejos. Preprocessing of 2-Dimensional Gel Electrophoresis Images Applied to Proteomic Analysis: A Review
73 -- 84Johana A. Luna Coronell, Khulan Sergelen, Philipp Hofer, István Gyurján, Stefanie Brezina, Peter Hettegger, Gernot Leeb, Karl Mach, Andrea Gsur, Andreas Weinhäusel. In Silico Analysis of Antigenic Proteins Deduced from IgG Microarray Profiling