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Journal of Bioinformatics and Computational Biology, Volume 8
Volume 8, Number 1, February 2010
- Manja Marz, Nathalie Vanzo, Peter F. Stadler
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Temperature-Dependent Structural Variability of RNAs: spliced Leader RNAs and their Evolutionary History. 1-17 - Ziying Liu, Sieu Phan, Fazel Famili, Youlian Pan
A Multi-Strategy Approach to Informative Gene Identification from Gene Expression Data. 19-38 - Rezwan Ahmed, Huzefa Rangwala, George Karypis
Toptmh: Topology Predictor for transmembrane alpha-helices. 39-57 - Hongwei Huo
A Quantum-Inspired Genetic Algorithm Based on Probabilistic Coding for Multiple Sequence Alignment. 59-75 - Guozhu Dong, Lei Duan, Changjie Tang:
Mining Disease State converters for Medical Intervention of Diseases. 77-97 - Jiyuan An, Kwok Pui Choi, Christine A. Wells
Identifying Co-Regulating microRNA Groups. 99-115 - Vachiranee Limviphuvadh
Is Lgi2 the Candidate Gene for Partial Epilepsy with Pericentral Spikes? 117-127 - Dietrich Rebholz-Schuhmann, Nigel Collier
Wrestling with Biomedical Research Results: Language Resources and Literature Analysis. 129-130 - Makoto Miwa, Rune Sætre, Jin-Dong Kim, Jun'ichi Tsujii:
Event Extraction with Complex Event Classification Using Rich Features. 131-146 - Yutaka Sasaki, John McNaught, Sophia Ananiadou:
The Value of an in-Domain Lexicon in genomics QA. 147-161 - Dietrich Rebholz-Schuhmann, Antonio Jimeno-Yepes
Calbc Silver Standard Corpus. 163-179
Volume 8, Number 2, April 2010
- Ying Xu, Peter W. Markstein:
Foreword: Advances in Computational Systems Bioinformatics. - Rajib Sengupta, Dhundy Bastola, Hesham H. Ali:
Classification and Identification of fungal Sequences Using Characteristic restriction endonuclease Cut Order. 181-198 - Misael Mongiovì
Sigma: a Set-Cover-Based Inexact Graph Matching Algorithm. 199-218 - Arvind Rao, David J. States, Alfred O. Hero III, James Douglas Engel:
Understanding Distal transcriptional Regulation from Sequence, Expression and interactome Perspectives. 219-246 - Ali Cakmak
Querying metabolism under Different Physiological Constraints. 247-293 - Xiaolin Yin, Jing Li
Detecting Copy Number Variations from Array CGH Data Based on a Conditional Random Field Model. 295-314 - Paritosh A. Kavathekar, Bruce A. Craig
Characterizing the Space of interatomic Distance Distribution Functions Consistent with Solution Scattering Data. 315-335 - Saad I. Sheikh, Tanya Y. Berger-Wolf
Combinatorial Reconstruction of Half-Sibling Groups from Microsatellite Data. 337-356 - Artem Sokolov
Hierarchical Classification of Gene Ontology Terms Using the Gostruct Method. 357-376
Volume 8, Number 3, June 2010
- Tatyana B. Mamonova, Anna V. Glyakina, Maria G. Kurnikova
Flexibility and Mobility in Mesophilic and Thermophilic homologous proteins from Molecular Dynamics and Foldunfold Method. 377-394 - Anna V. Glyakina, Oxana V. Galzitskaya:
A Comparative Analysis of Folding Pathways of Thermophilic and Mesophilic proteins by Monte Carlo Simulations. 395-411 - Alexander A. Osypov, Gleb G. Krutinin, Svetlana G. Kamzolova:
Deppdb - DNA electrostatic Potential Properties Database: electrostatic Properties of genome DNA. 413-425 - Sergei Rahmanov, Ivan V. Kulakovskiy
Empirical Potentials for ion Binding in proteins. 427-435 - Daniil G. Naumoff:
Gh101 Family of Glycoside hydrolases: subfamily Structure and Evolutionary Connections with Other Families. 437-451 - Alexander Grishin
Identification of conserved Features of Laglidadg Homing endonucleases. 453-469 - Vladimir Arzhanik, Darja Svistunova
Interaction of antibodies with Aromatic ligands: the Role of pi-Stacking. 471-483 - Solenne Carat, Rémi Houlgatte, Jérémie Bourdon
A Parallel Scheme for Comparing transcription Factor Binding Sites Matrices. 485-502 - Boris Burkov, Boris Nagaev, Sergei A. Spirin, Andrei Alexeevski
Malakite: an Automatic Tool for Characterisation of Structure of Reliable Blocks in Multiple alignments of protein Sequences. 503-517 - Sergey I. Mitrofanov
Exclusive Sequences of Different genomes. 519-534 - Ivan Antonov
Genetack: frameshift Identification in protein-Coding Sequences by the Viterbi Algorithm. 535-551 - Anna S. Karyagina, Michail O. Vassiliev, Anna S. Ershova
Probe-Level Universal Search (Plus) Algorithm for Gender Differentiation in Affymetrix Datasets. 553-577 - Irina I. Abnizova, Tom Skelly, Fedor Naumenko, Nava Whiteford, Clive Brown, Tony Cox:
Statistical Comparison of Methods to Estimate the Error Probability in Short-Read Illumina Sequencing. 579-591 - Ekaterina Kotelnikova
Computational Approaches for Drug Repositioning and Combination Therapy Design. 593-606 - Valentin V. Suslov, Petr M. Ponomarenko, Vadim M. Efimov
Snps in the HIV-1 TATA Box and the Aids pandemic. 607-625 - Sergey A. Lashin
Comparative Modeling of Coevolution in Communities of Unicellular Organisms: Adaptability and Biodiversity. 627-643
Volume 8, Number 4, August 2010
- Limsoon Wong
Brief Introduction to Some New Results in Gene Expression Analysis, Systems Biology Modeling, Motif Identification, and (noncoding) RNA Analysis. - Yichuan Zhao, Guoshen Wang:
Additive Risk Analysis of microarray Gene Expression Data via Correlation Principal Component Regression. 645-659 - Shuhei Kimura, Yuichi Shiraishi, Mariko Okada:
Inference of Genetic Networks Using Lpms: Assessment of Confidence Values of Regulations. 661-677 - André Fujita, João Ricardo Sato, Kaname Kojima, Luciana Rodrigues Gomes, Masao Nagasaki, Mari Cleide Sogayar
Identification of Granger Causality between Gene Sets. 679-701 - Miroslava Cuperlovic-Culf
The Importance of inhibitors for the Simulation of metabolic Processes: in silico Zn2+ Inhibition of M-Aconitase from Analysis of glycolysis and Krebs Cycle Kinetic Models. 703-715 - Abhilash Mohan, Sharmila Anishetty, Pennathur Gautam:
Global metal-ion Binding protein Fingerprint: a Method to Identify Motif-Less metal-ion Binding proteins. 717-726 - Kengo Sato
A Non-Parametric Bayesian Approach for Predicting RNA Secondary Structures. 727-742 - Fei Xia, Yong Dou, Guo-Qing Lei:
Fpqrna: Hardware-Accelerated Qrna Package for noncoding RNA Gene Detecting on FPGA. 743-761 - Yun Zheng
Animal microRNA Target Prediction Using Diverse Sequence-Specific determinants. 763-788
Volume 8, Number 5, October 2010
- Winnie W. M. Lam, Keith C. C. Chan
A Graph-Based Algorithm for Mining Multi-Level Patterns in genomic Data. 789-807 - Fredrik Johansson, Hiroyuki Toh:
Relative von Neumann Entropy for Evaluating amino acid conservation. 809-823 - Ulavappa B. Angadi, M. Venkatesulu:
Fuzzyart Neural Network for protein Classification. 825-841 - Tsutomu Matsunaga, Shuhei Kuwata, Masaaki Muramatsu:
Computational Gene knockout reveals Transdisease-Transgene Association Structure. 843-866 - Yuzhong Zhao, Babak Alipanahi
Protein Secondary Structure Prediction Using NMR Chemical Shift Data. 867-884 - Rune Thomsen
Analysis of Qpcr Data by Converting Exponentially Related CT Values into Linearly Related X0 Values. 885-900 - Yue Wang, Jin-Dong Kim, Rune Sætre, Sampo Pyysalo, Tomoko Ohta, Jun'ichi Tsujii:
Improving the Inter-Corpora Compatibility for protein Annotations. 901-916 - Tomoko Ohta, Sampo Pyysalo, Jin-Dong Kim, Jun'ichi Tsujii:
A Re-Evaluation of Biomedical Named Entity-Term Relations. 917-928
Volume 8, Number 6, December 2010
- Nassim Sohaee, Christian V. Forst
Identification of Functional Modules in a PPI Network by Bounded Diameter Clustering. 929-943 - Mizanur R. Khondoker
Multi-Factorial Analysis of Class Prediction Error: Estimating Optimal Number of Biomarkers for Various Classification Rules. 945-965 - Vandanaben Patel, Jason T. L. Wang, Shefali Setia, Anurag Verma
On Comparing Two Structured RNA Multiple alignments. 967-980 - Lin He, Bin Ma:
Adepts: Advanced peptide de novo Sequencing with a Pair of Tandem Mass Spectra. 981-994 - Hao Zheng, Hongwei Wu:
Short prokaryotic DNA Fragment Binning Using a Hierarchical Classifier Based on Linear Discriminant Analysis and Principal Component Analysis. 995-1011 - Alexander Churkin, Moriah Cohen, Yonat Shemer-Avni, Danny Barash:
Bioinformatic Analysis of the Neutrality of RNA Secondary Structure Elements across genotypes reveals Evidence for Direct Evolution of Genetic Robustness in HCV. 1013-1026 - Petr Sulc
Quantifying Slow Evolutionary Dynamics in RNA Fitness Landscapes. 1027-1040 - John O'Quigley:
Dynamic Equilibrium of reconstituting Hematopoietic Stem Cell Populations. 1041-1051
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