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ORCIDJournal of Bioinformatics and Computational Biology, Volume 13
Volume 13, Number 1, February 2015
- Yuriy L. Orlov
, Ralf Hofestädt, Nikolay A. Kolchanov:
Introductory note for BGRS\SB-2014 special issue. 1502001:1-1502001:3
- Irina M. Larina, Lyudmila Kh. Pastushkova, Evgeny S. Tiys, Kirill S. Kireev, Alexey S. Kononikhin, Natalia L. Starodubtseva, Igor A. Popov, Marc-Antoine Custaud, Igor V. Dobrokhotov, Evgeny N. Nikolaev, Nikolay A. Kolchanov, Vladimir A. Ivanisenko:
Permanent proteins in the urine of healthy humans during the Mars-500 experiment. 1540001:1-1540001:17 - L. A. Krasnobaeva, L. V. Yakushevich:
Rotational dynamics of bases in the gene coding interferon alpha 17 (IFNA17). 1540002:1-1540002:13 - Vitali A. Likhoshvai, Vladislav V. Kogai, Stanislav I. Fadeev, Tamara M. Khlebodarova:
Alternative splicing can lead to chaos. 1540003:1-1540003:24 - Sergey Matvienko, Nikolay Alemasov, Eduard Fomin:
Interaction sorting method for molecular dynamics on multi-core SIMD CPU architecture. 1540004:1-1540004:14 - Ulyana S. Zubairova, Sergey Golushko, Aleksey Penenko, Sergey Nikolaev:
A computational model of the effect of symplastic growth on cell mechanics in a linear leaf blade. 1540005:1-1540005:15 - Vladimir P. Golubyatnikov, Tatyana A. Bukharina, Dagmara P. Furman:
A model study of the morphogenesis of D. melanogaster mechanoreceptors: The central regulatory circuit. 1540006:1-1540006:15 - Alban Shoshi, Venus Ogultarhan, Tobias Hoppe, Benjamin Kormeier, Ulrich Müller, Ralf Hofestädt:
Identifying adverse drug reactions and drug-induced diseases using network-based drug mapping. 1540007:1-1540007:13 - Eduard Fomin:
Reconstruction of sequence from its circular partial sums for cyclopeptide sequencing problem. 1540008:1-1540008:15 - Petr M. Ponomarenko, Mikhail P. Ponomarenko:
Sequence-based prediction of transcription upregulation by auxin in plants. 1540009:1-1540009:24
Volume 13, Number 2, April 2015
- Jun Wu, Xiaodong Zhao, Zongli Lin, Zhifeng Shao:
An effective differential expression analysis of deep-sequencing data based on the Poisson log-normal model. 1550001:1-1550001:16 - Mohammad-Hadi Foroughmand-Araabi, Bahram Goliaei, Kasra Alishahi, Mehdi Sadeghi, Sama Goliaei:
Codon usage and protein sequence pattern dependency in different organisms: A Bioinformatics approach. 1550002:1-1550002:17 - Wenbin Chen, Matthew C. Schmidt, Wenhong Tian, Nagiza F. Samatova, Shaohong Zhang:
An efficient algorithm for pairwise local alignment of protein interaction networks. 1550003:1-1550003:14 - Changchuan Yin:
Representation of DNA sequences in genetic codon context with applications in exon and intron prediction. 1550004:1-1550004:20 - Prashant Singh Rana, Harish Sharma, Mahua Bhattacharya, Anupam Shukla:
Quality assessment of modeled protein structure using physicochemical properties. 1550005:1-1550005:19 - Nicolás Loira, Anna Zhukova, David James Sherman:
Pantograph: A template-based method for genome-scale metabolic model reconstruction. 1550006:1-1550006:19 - Nimet Ilke Akçay, Rza Bashirov, Sükrü Tüzmen:
Validation of signalling pathways: Case study of the p16-mediated pathway. 1550007:1-1550007:20 - Farhad Hormozdiari, Eleazar Eskin:
Memory efficient assembly of human genome. 1550008:1-1550008:13 - Scott E. Nixon, Dianelys González-Peña, Marcus A. Lawson, Robert H. McCusker, Alvaro G. Hernandez, Jason C. O'Connor, Robert Dantzer, Keith W. Kelley, Sandra L. Rodriguez-Zas:
Analytical workflow profiling gene expression in murine macrophages. 1550010:1-1550010:17
- Chern Han Yong, Limsoon Wong:
From the static interactome to dynamic protein complexes: Three challenges. 1571001:1-1571001:25 - Chao Liu, Chi Zhang, Jing Su, Dongsheng Zhang, Sha Cao:
Stresses drive a cancer's initiation, progression and metastasis: Critical comments on the book "Cancer Bioinformatics". 1571002:1-1571002:11
Volume 13, Number 3, June 2015
- Yifan Nie, Wenge Rong, Yiyuan Zhang, Yuanxin Ouyang, Zhang Xiong:
Embedding assisted prediction architecture for event trigger identification. 1541001:1-1541001:19 - Fan Zhang, Min Wu, Xuejuan Li, Xiaoli Li, Chee Keong Kwoh, Jie Zheng:
Predicting essential genes and synthetic lethality via influence propagation in signaling pathways of cancer cell fates. 1541002:1-1541002:14 - Anirban Dutta, Mohammed Monzoorul Haque, Tungadri Bose, Ch. V. Siva K. Reddy, Sharmila S. Mande:
FQC: A novel approach for efficient compression, archival, and dissemination of fastq datasets. 1541003:1-1541003:18 - Tarini Shankar Ghosh, Varun Mehra, Sharmila S. Mande:
Grid-Assembly: An oligonucleotide composition-based partitioning strategy to aid metagenomic sequence assembly. 1541004:1-1541004:17 - Zhanzhan Cheng, Shuigeng Zhou, Jihong Guan:
Computationally predicting protein-RNA interactions using only positive and unlabeled examples. 1541005:1-1541005:18 - Asako Komori, Yukihiro Maki, Isao Ono, Masahiro Okamoto:
Investigating noise tolerance in an efficient engine for inferring biological regulatory networks. 1541006:1-1541006:16 - Marcus C. K. Ng, Simon Fong, Shirley W. I. Siu:
PSOVina: The hybrid particle swarm optimization algorithm for protein-ligand docking. 1541007:1-1541007:18
Volume 13, Number 4, August 2015
- Ming Li, Limsoon Wong:
John Wooley and JBCB. 1501001:1
- Christophe Guyeux, Jean-Marc Nicod, Laurent Philippe, Jacques M. Bahi:
The study of unfoldable self-avoiding walks - Application to protein structure prediction software. 1550009:1-1550009:36 - Lavinia Egidi, Giovanni Manzini:
Multiple seeds sensitivity using a single seed with threshold. 1550011:1-1550011:15 - Natalia Novoselova, Junxi Wang, Frank Klawonn:
Optimized leaf ordering with class labels for hierarchical clustering. 1550012:1-1550012:19 - Piotr Iwo Wójcik, Thérèse Ouellet, Margaret Balcerzak, Witold Dzwinel:
Identification of biomarker genes for resistance to a pathogen by a novel method for meta-analysis of single-channel microarray datasets. 1550013:1-1550013:19 - Bo Liao, Sumei Ding, Haowen Chen, Zejun Li, Lijun Cai:
Identifying human microRNA-disease associations by a new diffusion-based method. 1550014:1-1550014:20 - Jun Liu, Jiuqiang Han, Hongqiang Lv:
ADPRtool: A novel predicting model for identification of ASP-ADP-Ribosylation sites of human proteins. 1550015:1-1550015:16 - El-Amine Zemali, Abdelmadjid Boukra:
Resolving the multiple sequence alignment problem using biogeography-based optimization with multiple populations. 1550016:1-1550016:23 - Kevin Lim, Zhenhua Li, Kwok Pui Choi, Limsoon Wong:
A quantum leap in the reproducibility, precision, and sensitivity of gene expression profile analysis even when sample size is extremely small. 1550018:1-1550018:18
- Sayed-Amir Marashi, Zhaleh Hosseini:
On correlated reaction sets and coupled reaction sets in metabolic networks. 1571003:1-1571003:16
Volume 13, Number 5, October 2015
- Paul Horton, Christian Schönbach, Shoba Ranganathan, Siu-Ming Yiu:
Introduction to selected papers from GIW/InCoB 2015. 1502003:1-1502003:2 - Chao Han, Jian Chen, Qingyao Wu, Shuai Mu, Huaqing Min:
Sparse Markov chain-based semi-supervised multi-instance multi-label method for protein function prediction. 1543001:1-1543001:20 - Yoichi Takenaka, Shigeto Seno, Hideo Matsuda:
Detecting shifts in gene regulatory networks during time-course experiments at single-time-point temporal resolution. 1543002:1-1543002:18 - Nam-Ninh Nguyen, Sriganesh Srihari, Hon Wai Leong, Ket Fah Chong:
EnzDP: Improved enzyme annotation for metabolic network reconstruction based on domain composition profiles. 1543003:1-1543003:30
- Ming Fan, Bin Zheng, Lihua Li:
A novel Multi-Agent Ada-Boost algorithm for predicting protein structural class with the information of protein secondary structure. 1550022:1-1550022:17 - Edgar D. Coelho, André M. Santiago, Joel P. Arrais, José Luís Oliveira:
Computational methodology for predicting the landscape of the human-microbial interactome region level influence. 1550023:1-1550023:18 - Victoria E. Sánchez, Antonio M. Peinado, José L. Pérez-Córdoba, Ángel M. Gómez:
A new signal characterization and signal-based Chou's PseAAC representation of protein sequences. 1550024:1-1550024:24 - Derui Wang, Jingyu Hou:
Explore the hidden treasure in protein-protein interaction networks - An iterative model for predicting protein functions. 1550026:1-1550026:22 - Ali T. Abdallah, Matthias Fischer, Peter Nürnberg, Michael Nothnagel, Peter Frommolt:
CoNCoS: Copy number estimation in cancer with controlled support. 1550027:1-1550027:16 - Westley Arthur Sherman, Durga Kuchibhatla, Vachiranee Limviphuvadh, Sebastian Maurer-Stroh, Birgit Eisenhaber, Frank Eisenhaber:
HPMV: Human protein mutation viewer - relating sequence mutations to protein sequence architecture and function changes. 1550028:1-1550028:18
Volume 13, Number 6, December 2015
- Xing-Ming Zhao:
Editorial - Data mining in bioinformatics. 1502004:1-1502004:2 - Zengmiao Wang, Jun Wang, Changjing Wu, Minghua Deng:
Estimation of isoform expression in RNA-seq data using a hierarchical Bayesian model. 1542001:1-1542001:15 - Jing Zhou, Yuxuan Shui, Shengwen Peng, Xuhui Li, Hiroshi Mamitsuka, Shanfeng Zhu:
MeSHSim: An R/Bioconductor package for measuring semantic similarity over MeSH headings and MEDLINE documents. 1542002:1-1542002:17 - Haichun Li, Minghui Wang, Xiaoyi Xu:
Prediction of kinase-substrate relations based on heterogeneous networks. 1542003:1-1542003:17 - Jinyang Tang, Fei Wang:
Detecting differentially expressed genes by smoothing effect of gene length on variance estimation. 1542004:1-1542004:21 - Binghua Wang, Minghui Wang, Yujie Jiang, Dongdong Sun, Xiaoyi Xu:
A novel network-based computational method to predict protein phosphorylation on tyrosine sites. 1542005:1-1542005:18
- Reza Mousavi, Mahdi Eftekhari, Mehdi Ghezelbash Haghighi:
A new approach to human microRNA target prediction using ensemble pruning and rotation forest. 1550017:1-1550017:23 - Alexei A. Sharov, David Schlessinger, Minoru S. H. Ko:
ExAtlas: An interactive online tool for meta-analysis of gene expression data. 1550019:1-1550019:13 - Murodzhon Akhmedov, Bülent Çatay, Mehmet Serkan Apaydin:
Automating unambiguous NOE data usage in NVR for NMR protein structure-based assignments. 1550020:1-1550020:14 - Wosley Arruda, Daniel S. Souza, Célia Ghedini Ralha, Maria Emília M. T. Walter, Tainá Raiol, Marcelo M. Brigido, Peter F. Stadler:
Knowledge-based reasoning to annotate noncoding RNA using multi-agent system. 1550021:1-1550021:19 - Jian-Feng Yang, Xiao-Fan Ding, Xing Sun, Shui-Ying Tsang, Hong Xue:
SAMSVM: A tool for misalignment filtration of SAM-format sequences with support vector machine. 1550025:1-1550025:13
- Kyung-Ah Sohn, Kyubum Wee:
A comment on two-locus epistatic interaction models for genome-wide association studies. 1571004:1-1571004:15
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