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ORCIDQuantitative Biology, Volume 8
Volume 8, Number 1, March 2020
- Yadan Huang, Yimeng Ye, Jiang Zhang:
Chao Tang: a self-motivated scientist pursues interdisciplinary excellence. 1-3 - Baizhu Chen, Zhuojun Dai
:
Combination of versatile platforms for the development of synthetic biology. 4-10 - Shilei Zhao, Hua Chen:
Modeling the epidemic dynamics and control of COVID-19 outbreak in China. 11-19 - Bernard Mathey-Prevot, Bao-Tran Parker, Carolyn Im, Cierra Hong, Peng Dong, Guang Yao, Lingchong You:
Quantifying E2F1 protein dynamics in single cells. 20-30 - Minzhen Tao, Qiaochu Mu, Yurui Zhang, Zhen Xie:
Construction of a CRISPR-based paired-sgRNA library for chromosomal deletion of long non-coding RNAs. 31-42 - Jingxue Xin, Junjun Hao, Lang Chen, Tao Zhang, Lei Li, Luonan Chen, Wenmin Zhao, Xuemei Lu, Peng Shi, Yong Wang:
ZokorDB: tissue specific regulatory network annotation for non-coding elements of plateau zokor. 43-50 - Jie Shi, Xiangrui Zeng, Rui Jiang, Tao Jiang, Min Xu:
A simulated annealing approach for resolution guided homogeneous cryo-electron microscopy image selection. 51-63 - Jie Ren, 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. 64-77 - Md. 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. 78-94
Volume 8, Number 2, June 2020
- Xiaotu Ma, Sasi Arunachalam, Yanling Liu:
Applications of probability and statistics in cancer genomics. 95-108 - Bo Yuan, Yao Lu, Qiangfeng Cliff Zhang, Lin Hou:
Prediction and differential analysis of RNA secondary structure. 109-118 - Jianan Lin, Zhengqing Ouyang:
Large-scale analysis of the position-dependent binding and regulation of human RNA binding proteins. 119-129 - Henry Linder, Yuping Zhang:
A pan-cancer integrative pathway analysis of multi-omics data. 130-142 - Lin Wan, Xin Kang, Jie Ren, Fengzhu Sun:
Confidence intervals for Markov chain transition probabilities based on next generation sequencing reads data. 143-154 - Xing Chen, Yinglei Lai:
A censored-Poisson model based approach to the analysis of RNA-seq data. 155-171 - Hong Qian, Yu-Chen Cheng:
Counting single cells and computing their heterogeneity: from phenotypic frequencies to mean value of a quantitative biomarker. 172-176 - Minghua Deng, Jianfeng Feng, Hong Qian, Lin Wan, Fengzhu Sun:
International Workshop on Applications of Probability and Statistics to Biology, July 11-13, 2019. 177-186
Volume 8, Number 3, September 2020
- Xinsheng Sean Ling:
DNA sequencing using nanopores and kinetic proofreading. 187-194 - Peng Wang, Luonan Chen:
Critical transitions and tipping points in EMT. 195-202 - Ying Chen, Chuan-Le Xiao:
A survey on de novo assembly methods for single-molecular sequencing. 203-215 - Xue 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. 216-227 - Naoki 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. 228-237 - Xiaofei Yang, Tun Xu, Peng Jia, Han Xia, Li Guo, Lei Zhang, Kai Ye:
Transportation, germs, culture: a dynamic graph model of COVID-19 outbreak. 238-244 - Huixia 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. 245-255 - Biaobin Jiang, Dong Song, Quanhua Mu, Jiguang Wang:
CELLO: a longitudinal data analysis toolbox untangling cancer evolution. 256-266 - Rongbin 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. 267-276 - Qingfeng 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. 277
Volume 8, Number 4, December 2020
- Naiyun Long, Yi Qiao, Zheyun Xu, Jing Tu, Zuhong Lu:
Recent advances and application in whole-genome multiple displacement amplification. 279-294 - Hao Tian, Ying Yang, Sirui Liu, Hui Quan, Yi Qin Gao:
Toward an understanding of the relation between gene regulation and 3D genome organization. 295-311 - Xianyi 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. 312-324 - Hanshuang Pan, Nian Shao, Yue Yan, Xinyue Luo, Shufen Wang, Ling Ye, Jin Cheng, Wenbin Chen:
Multi-chain Fudan-CCDC model for COVID-19 - a revisit to Singapore's case. 325-335 - Olha Kholod, Chi-Ren Shyu, Jonathan B. Mitchem, Jussuf T. Kaifi, Dmitriy Shin:
Identifying patient-specific flow of signal transduction perturbed by multiple single-nucleotide alterations. 336-346 - Yawei Li, Yuan Luo:
Performance-weighted-voting model: an ensemble machine learning method for cancer type classification using whole-exome sequencing mutation. 347-358 - Chongzhi Zang, Yiren Wang, Weiqun Peng:
RECOGNICER: A coarse-graining approach for identifying broad domains from ChIP-seq data. 359-368 - Jianyu 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. 369-381
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