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ORCIDJournal of Bioinformatics and Computational Biology, Volume 7
Volume 7, Number 1, February 2009
- Nitin Bhardwaj, Hui Lu
:
Co-Expression among Constituents of a Motif in the protein-protein Interaction Network. 1-17 - Guojun Li, Dongsheng Che, Ying Xu:
A Universal operon Predictor for prokaryotic genomes. 19-38 - Gao Shan, Wei-Mou Zheng:
Counting of oligomers in Sequences Generated by Markov Chains for DNA Motif Discovery. 39-54 - Miguel M. F. Bugalho, Arlindo L. Oliveira:
Constant Time Clash Detection in protein Folding. 55-74 - Sung-Gon Yi, Yoon-Jeong Joo, Taesung Park:
Rank-Based Clustering Analysis for the Time-Course microarray Data. 75-91 - Pratap R. Patnaik:
Transient Response Analysis of the eukaryotic Chemosensory System to Intra-Cellular Fluctuations. 93-105 - Jialiang Wu, Eberhard Voit:
Hybrid Modeling in Biochemical Systems Theory by Means of Functional Petri Nets. 107-134 - Vinhthuy Phan, E. Olusegun George, Quynh T. Tran, Shirlean Goodwin, Sridevi Bodreddigari, Thomas R. Sutter:
Analyzing microarray Data with Transitive Directed Acyclic Graphs. 135-156 - Shihong Mao, Charles Wang, Guozhu Dong:
Evaluation of Inter-Laboratory and Cross-Platform concordance of DNA microarrays through Discriminating genes and Classifier transferability. 157-173 - Ao Yuan, Guanjie Chen, Charles Rotimi:
Genetic Network Analysis by Quasi-Bayesian Method. 175-192 - Pierre R. Bushel:
Clustering of Gene Expression Data and End-Point Measurements by Simulated Annealing. 193-215 - Lin Gao, Peng-Gang Sun, Jia Song:
Clustering Algorithms for Detecting Functional Modules in protein Interaction Networks. 217-242 - Kumar Selvarajoo, Masaru Tomita, Masa Tsuchiya:
Can Complex Cellular Processes be Governed by Simple Linear Rules? 243-268
Volume 7, Number 2, April 2009
- Johannes Aßfalg, Jing Gong, Hans-Peter Kriegel, Alexey Pryakhin, Tiandi Wei, Arthur Zimek:
Supervised Ensembles of Prediction Methods for Subcellular Localization. 269-285 - Mohamed Ibrahim Abouelhoda, Robert Giegerich, Behshad Behzadi, Jean-Marc Steyaert:
Alignment of Minisatellite Maps Based on Run-Length Encoding Scheme. 287-308 - Xing-Ming Zhao, Rui-Sheng Wang, Luonan Chen, Kazuyuki Aihara:
Automatic Modeling of Signaling Pathways by Network Flow Model. 309-322 - Christopher James Langmead, Sumit Kumar Jha:
Symbolic Approaches for Finding Control Strategies in Boolean Networks. 323-338 - Satish Tadepalli, Naren Ramakrishnan, Layne T. Watson, Bud Mishra, Richard F. Helm:
Simultaneously Segmenting Multiple Gene Expression Time Courses by Analyzing Cluster Dynamics. 339-356 - Robert Warren, David Sankoff:
Genome Halving with Double Cut and Join. 357-371 - Huei-Hun Elizabeth Tseng, Zasha Weinberg, Jeremy Gore, Ronald R. Breaker, Walter L. Ruzzo:
Finding Non-Coding RNAs through genome-Scale Clustering. 373-388
Volume 7, Number 3, June 2009
- Ferhat Ay, Tamer Kahveci, Valérie de Crécy-Lagard:
A Fast and Accurate Algorithm for Comparative Analysis of metabolic Pathways. 389-428 - En Cheng, Brendan Elliott, Z. Meral Özsoyoglu:
Efficient Computation of Kinship and Identity Coefficients on Large Pedigrees. 429-453 - Yuzhen Ye, Haixu Tang:
An Orfome Assembly Approach to Metagenomics Sequences Analysis. 455-471 - Aaron M. Smalter, Jun Huan, Gerald H. Lushington:
Graph Wavelet Alignment Kernels for Drug Virtual Screening. 473-497 - Chunfang Zheng, P. Kerr Wall, James H. Leebens-Mack, Claude de Pamphilis, Victor A. Albert, David Sankoff:
Gene Loss under Neighborhood Selection Following Whole genome Duplication and the Reconstruction of the Ancestral Populus genome. 499-520 - Xin Li, Jing Li:
An Almost Linear Time Algorithm for a General Haplotype Solution on Tree Pedigrees with no Recombination and its Extensions. 521-545 - Nha Nguyen, Heng Huang, Soontorn Oraintara, An P. N. Vo:
Peak Detection in Mass Spectrometry by Gabor Filters and Envelope Analysis. 547-569 - Saeed Salem, Mohammed J. Zaki, Christopher Bystroff:
Iterative Non-Sequential protein Structural Alignment. 571-596
Volume 7, Number 4, August 2009
- Leo van Iersel, Steven Kelk, Matthias Mnich:
Uniqueness, Intractability and Exact Algorithms: Reflections on Level-k Phylogenetic Networks. 597-623 - Sagi Snir, Tamir Tuller:
The Net-HMM Approach: Phylogenetic Network Inference by Combining Maximum Likelihood and Hidden Markov Models. 625-644 - Xin Chen:
Curve-Based Clustering of Time Course Gene Expression Data Using Self-Organizing Maps. 645-661 - André Fujita, João Ricardo Sato, Marcos Angelo Almeida Demasi, Mari Cleide Sogayar, Carlos Eduardo Ferreira, Satoru Miyano:
Comparing Pearson, Spearman and Hoeffding's d Measure for Gene Expression Association Analysis. 663-684 - Enrico Capobianco:
Aliasing in Gene Feature Detection by Projective Methods. 685-700 - Henry Chi-Ming Leung, Man-Hung Siu, Siu-Ming Yiu, Francis Yuk-Lun Chin, Ken Wing-Kin Sung:
Clustering-Based Approach for Predicting Motif Pairs from protein Interaction Data. 701-716 - Haseong Kim, Jae K. Lee, Taesung Park:
Inference of Large-Scale Gene Regulatory Networks Using Regression-Based Network Approach. 717-735 - Daniil Golod, Daniel G. Brown:
A Tutorial of Techniques for Improving Standard Hidden Markov Model Algorithms. 737-754
Volume 7, Number 5, October 2009
- Zaixin Lu, Zhiyu Zhao, Sergio García, Krishnakumar Krishnaswamy, Bin Fu:
Search Similar protein Structures with Classification, Sequence and 3D alignments. 755-771 - Peng Chen, Chunmei Liu, Legand L. Burge III, Mahmood Mohammad, William M. Southerland, Clay Gloster:
Protein fold Classification with Genetic Algorithms and Feature Selection. 773-788 - Xin Gao, Jinbo Xu, Shuai Cheng Li, Ming Li:
Predicting Local Quality of a Sequence-Structure Alignment. 789-810 - Alexander Bujotzek, Marcus Weber:
Efficient Simulation of ligand-receptor Binding Processes Using the Conformation Dynamics Approach. 811-831 - Christine Sinoquet:
Iterative Two-Pass Algorithm for Missing Data Imputation in SNP Arrays. 833-852 - Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay:
A Novel Coherence Measure for Discovering Scaling Biclusters from Gene Expression Data. 853-868 - Peter Clote, Evangelos Kranakis, Danny Krizanc, Bruno Salvy:
Asymptotics of Canonical and Saturated RNA Secondary Structures. 869-893 - Anthony Almudevar:
A Note on the Calculation of n-Statistics. 895-903
Volume 7, Number 6, December 2009
- Weiqi Wang, Yanbo J. Wang, René Bañares-Alcántara, Frans Coenen, Zhanfeng Cui:
Analysis of Mesenchymal Stem Cell Differentiation in vitro Using Classification Association Rule Mining. 905-930 - Gábor Iván, Zoltan Szabadka, Vince Grolmusz:
On the Asymmetry of the Residue Compositions of the Binding Sites on protein Surfaces. 931-938 - Tuan S. Nguyen, Javier Rojo:
Dimension Reduction of microarray Gene Expression Data: the Accelerated Failure Time Model. 939-954 - Jingjing Li, Martin Renqiang Min, Anthony J. Bonner, Zhaolei Zhang:
A Probabilistic Framework to Improve microRNA Target Prediction by Incorporating Proteomics Data. 955-972 - Chuan Hock Koh, Sharene Lin, Gregory Jedd, Limsoon Wong:
Sirius PSB: a Generic System for Analysis of Biological Sequences. 973-990 - Yuri Matsuzaki, Yusuke Matsuzaki, Toshiyuki Sato, Yutaka Akiyama:
In silico Screening of protein-protein Interactions with All-to-All Rigid docking and Clustering: an Application to Pathway Analysis. 991-1012 - Graham J. Hickman, Charlie Hodgman:
Inference of Gene Regulatory Networks Using Boolean-Network Inference Methods. 1013-1029 - William Krivan, Darrick Carter:
Exploring the protein Landscape in Ramachandran Space: IT's not Just PSI-phi. 1031-1037
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