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    Journal: Quant. Biol.

    Volume 8, Issue 4

    279 -- 294Naiyun Long, Yi Qiao, Zheyun Xu, Jing Tu, Zuhong Lu. Recent advances and application in whole-genome multiple displacement amplification
    295 -- 311Hao Tian, Ying Yang, Sirui Liu, Hui Quan, Yi Qin Gao. Toward an understanding of the relation between gene regulation and 3D genome organization
    312 -- 324Xianyi Lian, Xiaodi Yang, Jiqi Shao, Fujun Hou, Shiping Yang, Dongli Pan, Ziding Zhang. Prediction and analysis of human-herpes simplex virus type 1 protein-protein interactions by integrating multiple methods
    325 -- 335Hanshuang Pan, Nian Shao, Yue Yan, Xinyue Luo, Shufen Wang, Ling Ye, Jin Cheng, Wenbin Chen 0006. Multi-chain Fudan-CCDC model for COVID-19 - a revisit to Singapore's case
    336 -- 346Olha Kholod, Chi-Ren Shyu, Jonathan Mitchem, Jussuf Kaifi, Dmitriy Shin. Identifying patient-specific flow of signal transduction perturbed by multiple single-nucleotide alterations
    347 -- 358Yawei Li, Yuan Luo. Performance-weighted-voting model: an ensemble machine learning method for cancer type classification using whole-exome sequencing mutation
    359 -- 368Chongzhi Zang, Yiren Wang, Weiqun Peng. RECOGNICER: A coarse-graining approach for identifying broad domains from ChIP-seq data
    369 -- 381Jianyu Zhou, Pan Li, Wanwen Zeng, Wenxiu Ma, Zhipeng Lu, Rui Jiang, Qiangfeng Cliff Zhang, Tao Jiang. IRIS: A method for predicting in vivo RNA secondary structures using PARIS data

    Volume 8, Issue 3

    187 -- 194Xinsheng Sean Ling. DNA sequencing using nanopores and kinetic proofreading
    195 -- 202Peng Wang 0014, Luonan Chen. Critical transitions and tipping points in EMT
    203 -- 215Ying Chen, Chuan-Le Xiao. A survey on de novo assembly methods for single-molecular sequencing
    216 -- 227Xue Jiang, Mohammad Asad, Lin Li, Zhanpeng Sun, Jean-Sébastien Milanese, Bo Liao, Edwin Wang. Germline genomes have a dominant-heritable contribution to cancer immune evasion and immunotherapy response
    228 -- 237Naoki Matsuda, Ken-ichi Hironaka, Masashi Fujii, Takumi Wada, Katsuyuki Kunida, Haruki Inoue, Miki Eto, Daisuke Hoshino, Yasuro Furuichi, Yasuko Manabe, Nobuharu L. Fujii, Hiroyuki Noji, Hiromi Imamura, Shinya Kuroda. Monitoring and mathematical modeling of mitochondrial ATP in myotubes at single-cell level reveals two distinct population with different kinetics
    238 -- 244Xiaofei Yang, Tun Xu, Peng Jia 0004, Han-xia, Li Guo 0012, Lei Zhang 0041, Kai Ye. Transportation, germs, culture: a dynamic graph model of COVID-19 outbreak
    245 -- 255Huixia Ren, Mengdi Zhao, Bo Liu, Ruixiao Yao, Qi Liu, Zhipeng Ren, Zirui Wu, Zongmao Gao, Xiaojing Yang, Chao Tang. Cellbow: a robust customizable cell segmentation program
    256 -- 266Biaobin Jiang, Dong Song, Quanhua Mu, Jiguang Wang. CELLO: a longitudinal data analysis toolbox untangling cancer evolution
    267 -- 276Rongbin Zheng, Xin Dong, Changxin Wan, Xiaoying Shi, Xiaoyan Zhang, Clifford A. Meyer. Cistrome Data Browser and Toolkit: analyzing human and mouse genomic data using compendia of ChIP-seq and chromatin accessibility data
    277 -- 0Qingfeng Chen, Zhao Zhe, Wei Lan, Ruchang Zhang, Zhiqiang Wang, Cheng Luo, Yi-Ping Phoebe Chen. Erratum to: Identifying miRNA-disease association based on integrating miRNA topological similarity and functional similarity

    Volume 8, Issue 2

    95 -- 108Xiaotu Ma, Sasi Arunachalam, Yanling Liu. Applications of probability and statistics in cancer genomics
    109 -- 118Bo Yuan 0004, Yao Lu, Qiangfeng Cliff Zhang, Lin Hou. Prediction and differential analysis of RNA secondary structure
    119 -- 129Jianan Lin, Zhengqing Ouyang. Large-scale analysis of the position-dependent binding and regulation of human RNA binding proteins
    130 -- 142Henry Linder, Yuping Zhang. A pan-cancer integrative pathway analysis of multi-omics data
    143 -- 154Lin Wan, Xin Kang, Jie Ren 0006, Fengzhu Sun. Confidence intervals for Markov chain transition probabilities based on next generation sequencing reads data
    155 -- 171Xing Chen, Yinglei Lai. A censored-Poisson model based approach to the analysis of RNA-seq data
    172 -- 176Hong Qian, Yu-Chen Cheng. Counting single cells and computing their heterogeneity: from phenotypic frequencies to mean value of a quantitative biomarker
    177 -- 186Minghua Deng, Jianfeng Feng, Hong Qian, Lin Wan, Fengzhu Sun. International Workshop on Applications of Probability and Statistics to Biology, July 11-13, 2019

    Volume 8, Issue 1

    1 -- 3Yadan Huang, Yimeng Ye, Jiang Zhang. Chao Tang: a self-motivated scientist pursues interdisciplinary excellence
    4 -- 10Baizhu Chen, Zhuojun Dai. Combination of versatile platforms for the development of synthetic biology
    11 -- 19Shilei Zhao, Hua Chen. Modeling the epidemic dynamics and control of COVID-19 outbreak in China
    20 -- 30Bernard Mathey-Prevot, Bao-Tran Parker, Carolyn Im, Cierra Hong, Peng Dong, Guang Yao, Lingchong You. Quantifying E2F1 protein dynamics in single cells
    31 -- 42Minzhen Tao, Qiaochu Mu, Yurui Zhang, Zhen Xie. Construction of a CRISPR-based paired-sgRNA library for chromosomal deletion of long non-coding RNAs
    43 -- 50Jingxue Xin, Junjun Hao, Lang Chen, Tao Zhang, Lei Li, Luonan Chen, Wenmin Zhao, Xuemei Lu, Peng Shi, Yong Wang 0001. ZokorDB: tissue specific regulatory network annotation for non-coding elements of plateau zokor
    51 -- 63Jie Shi, Xiangrui Zeng, Rui Jiang, Tao Jiang, Min Xu 0009. A simulated annealing approach for resolution guided homogeneous cryo-electron microscopy image selection
    64 -- 77Jie Ren 0006, Kai Song, Chao Deng, Nathan A. Ahlgren, Jed A. Fuhrman, Yi Li, Xiaohui Xie, Ryan Poplin, Fengzhu Sun. Identifying viruses from metagenomic data using deep learning
    78 -- 94Md. Bahadur Badsha, Rui Li, Boxiang Liu, Yang I. Li, Min Xian, Nicholas E. Banovich, Audrey Qiuyan Fu. Imputation of single-cell gene expression with an autoencoder neural network
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