Volume 4, Number 1, 2010

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  Alessandro Dal Palù, Agostino Dovier, Enrico Pontelli: Computing approximate solutions of the protein structure determination problem using global constraints on discrete crystal lattices. 1-20
• 
  Fadi Towfic, Cornelia Caragea, David C. Gemperline, Drena Dobbs, Vasant Honavar: Struct-NB: predicting protein-RNA binding sites using structural features. 21-43
• 
  Dongxiao Zhu, Hua Li: Improved Bayesian Network inference using relaxed gene ordering. 44-59
• 
  Jia Song, Chunmei Liu, Yinglei Song, Junfeng Qu, Gurdeep S. Hura: Alignment of multiple proteins with an ensemble of Hidden Markov Models. 60-71
• 
  Andrew V. Kossenkov, Michael F. Ochs: Matrix factorisation methods applied in microarray data analysis. 72-90
• 
  Min Li, Jianxin Wang, Jianer Chen, Zhao Cai, Gang Chen: Identifying the overlapping complexes in protein interaction networks. 91-108
• 
  Xiajiong Shen, Jun Gu: Integrating flexibility and interactivity in bioinformatics visual programming tools with Focus+Context algorithm. 109-122

Volume 4, Number 2, 2010

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  Mingzhou (Joe) Song, Robert M. Haralick, Stéphane Boissinot: Efficient and exact maximum likelihood quantisation of genomic features using dynamic programming. 123-141
• 
  Huilin Xiong, Ya Zhang, Xue-wen Chen, Jiangsheng Yu: Cross-platform microarray data integration using the Normalised Linear Transform. 142-157
• 
  Mahmood A. Mahdavi: Medical informatics: transition from data acquisition to data analysis by means of bioinformatics tools and resources. 158-174
• 
  Sumeet Dua, Praveen C. Kidambi: Protein structural classification using orthogonal transformation and class-association rules. 175-190
• 
  Andrew Secker, Matthew N. Davies, Alex Alves Freitas, Edward Clark, Jonathan Timmis, Darren R. Flower: Hierarchical classification of G-Protein-Coupled Receptors with data-driven selection of attributes and classifiers. 191-210
• 
  Qiwen Dong, Shuigeng Zhou, Xuan Liu: Prediction of protein - protein interactions from primary sequences. 211-227
• 
  Fengbin Zheng, Xiajiong Shen, Zhengye Fu, Shanshan Zheng, Guangrong Li: Feature selection for genomic data sets through feature clustering. 228-240

Volume 4, Number 3, 2010

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  Jiao Li, Xiaoyan Zhu, Jake Yue Chen: Discovering breast cancer drug candidates from biomedical literature. 241-255
• 
  Sérgio Manuel Serra da Cruz, Vanessa Batista, Edno Silva, Frederico Tosta, Clarissa Vilela, Rafael R. C. Cuadrat, Diogo A. Tschoeke, Alberto M. R. Dávila, Maria Luiza Machado Campos, Marta Mattoso: Detecting distant homologies on protozoans metabolic pathways using scientific workflows. 256-280
• 
  Márcio Dorn, Osmar Norberto de Souza: Mining the Protein Data Bank with CReF to predict approximate 3-D structures of polypeptides. 281-299
• 
  Antonina Mitrofanova, Bud Mishra: On a novel coalescent model for genome-wide evolution of Copy Number Variations. 300-315
• 
  Bernard Chen, Jieyue He, Stephen Pellicer, Yi Pan: Using Hybrid Hierarchical K-means (HHK) clustering algorithm for protein sequence motif Super-Rule-Tree (SRT) structure construction. 316-330
• 
  Wai-Ki Ching, Limin Li, Nam-Kiu Tsing, Ching-Wan Tai, Tuen-Wai Ng, Alice S. Wong, Kwai-Wa Cheng: A weighted Local Least Squares Imputation method for missing value estimation in microarray gene expression data. 331-347
• 
  Yi Zhang, Dingding Wang, Tao Li: LIBGS: A MATLAB software package for gene selection. 348-355

Volume 4, Number 4, 2010

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  Gyan Prakash Srivastava, Jing Qiu, Dong Xu: Genome-wide functional annotation by integrating multiple microarray datasets using meta-analysis. 357-376
• 
  Vinhthuy Phan, Sudip Saha, Ashutosh Pandey, Tit-Yee Wong: Synthetic gene design with a large number of hidden stops. 377-394
• 
  Alex Rudniy, Min Song, James Geller: Detecting duplicate biological entities using Shortest Path Edit Distance. 395-410
• 
  Jing Xia, Doina Caragea, Susan J. Brown: Prediction of alternatively spliced exons using Support Vector Machines. 411-430
• 
  Jeffrey D. Leblond, Andrew D. Lasiter, Cen Li, Ramiro Logares, Karin Rengefors, Terence J. Evens: A data mining approach to dinoflagellate clustering according to sterol composition: correlations with evolutionary history. 431-451
• 
  Seak Fei Lei, Jun Huan: Towards site-based protein functional annotations. 452-470
• 
  Md. Nurul Haque Mollah, Shinto Eguchi: Robust QTL analysis by minimum beta-divergence method. 471-485

Volume 4, Number 5, 2010

• 
  Saira Ali Kazmi, Yoo-Ah Kim, Dong-Guk Shin: Meta analysis algorithms for microarray gene expression data using Gene Regulatory Networks. 487-504
• 
  Baikang Pei, David W. Rowe, Dong-Guk Shin: Learning Bayesian networks with integration of indirect prior knowledge. 505-519
• 
  Zheng Chen, Jian Tang: Using Gene Ontology to enhance effectiveness of similarity measures for microarray data. 520-534
• 
  Rachel Caldwell, Yan-Xia Lin, Ren Zhang: Assessment of length distributions between non-coding and coding sequences amongst two model organisms. 535-552
• 
  Jamil Ahmad, Olivier Roux: Invariance kernel of Biological Regulatory Networks. 553-570
• 
  H. Yang, R. Sunderraman, H. Tian: bcnQL: A query language for biochemical networks. 571-587
• 
  Hyojin Kang, Eunkyoo Oh, Giltsu Choi, Doheon Lee: Genome-wide DNA-binding specificity of PIL5, an Arabidopsis basic Helix-Loop-Helix (bHLH) transcription factor. 588-599
• 
  Liang Yu, Lin Gao, Peng-Gang Sun: A hybrid clustering algorithm for identifying modules in Protein - Protein Interaction networks. 600-615

Volume 4, Number 6, 2010

• 
  Haixia Li, R. Krishna Murthy Karuturi: Significance analysis and improved discovery of disease-specific Differentially Co-expressed Gene Sets in microarray data. 617-638
• 
  Hui Liu, Shuigeng Zhou, Jihong Guan: Detecting microarray data supported microRNA-mRNA interactions. 639-655
• 
  Dietmar H. Dorr, Anne M. Denton: Generalised Sequence Signatures through symbolic clustering. 656-674
• 
  Niina Haiminen, Heikki Mannila: Evaluation of BIC and Cross Validation for model selection on sequence segmentations. 675-700
• 
  Levent Carkacioglu, Rengül Çetin-Atalay, Özlen Konu, Volkan Atalay, Tolga Can: Bi-k-bi clustering: mining large scale gene expression data using two-level biclustering. 701-721
• 
  Peng Chen, Chunmei Liu, Legand L. Burge III, Mahmood Mohammad, William M. Southerland, Clay Gloster: Prediction of inter-residue contact clusters from hydrophobic cores. 722-734
• 
  Satu Jääskeläinen, Pentti Riikonen, Tapio Salakoski, Mauno Vihinen: Accuracy of protein hydropathy predictions. 735-754

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