Journal: In Silico Biology

Volume 8, Issue 5-6

377 -- 381Bram Sebastian, Samuel E. Aggrey. Specificity and Sensitivity of PROMIR, ERPIN and MIR-ABELA in Predicting Pre-MicroRNAs in the Chicken Genome
383 -- 411Yury V. Kondrakhin, Ruslan N. Sharipov, Alexander E. Kel, Fedor A. Kolpakov. Identification of Differentially Expressed Genes by Meta-Analysis of Microarray Data on Breast Cancer
413 -- 425Sher-ullah S. S. Khoyratty, Manoel T. Souza Jr., Yasmina Jaufeerally-Fakim. Structural Analysis of Catalase from Two Musa Accessions, FHIA18 and Williams, and from Ravenala madagascariensis
427 -- 447Sudha Jayaraman, Kavita Shah. Comparative Studies on Inhibitors of HIV Protease: A Target for Drug Design
449 -- 460Neha Gandhi, Kathy Young, John R. Warmington, Ricardo L. Mancera. Characterization of Sequence and Structural Features of the Candida krusei Enolase
461 -- 469Andrea Brancale, Chrisanthy Vlachaki, Dimitrios Vlachakis. Molecular Modelling Study of the 3D Structure of the Bovine Viral Diarrhea Virus (BVDV) Helicase
471 -- 483Natarajan Vidya, Bagavathkumar Vadivukkarasi, Gopalakrishnan Manivannan, Krishnan Anbarasu. Molecular Modeling and Docking Studies of Glutamate Racemase in Vibrio vulnificus CMCP6
485 -- 510Lan K. Nguyen, Don Kulasiri. On Multiple Regulatory Mechanisms in the Tryptophan Operon System in Escherichia coli: In silico Study of Perturbation Dynamics
511 -- 516Ananyo Choudhury, Ansuman Lahiri. TRABAS: A Database for Transcription Regulation by ABA Signaling
517 -- 529Biju Thomas, Rathanam Boopathy. Essential Amino Acids for the Stability of Human Butyrylcholinesterase as Predicted by CUPSAT Server
531 -- 543Diane A. Flasch, Ellen Rebman, Emily H. Olfson, Khanh K. Nguyen, Lucasz E. Geirut, Megan C. Garland, Christi M. Lindorfer, Howard M. Laten. Analysis of Insertional Sites of the SIRE1 Retroelement Family from Glycine Max Using GenBank BAC-end Sequences
545 -- 554Sandeep J. Joseph, Kelly Robbins, Wensheng Zhang, Romdhane Rekaya. Effects of Misdiagnosis in Input Data on the Identification of Differential Expression Genes in Incipient Alzheimer Patients

Volume 8, Issue 3-4

193 -- 206Babita Sharma. Structure and Mechanism of a Transmission Blocking Vaccine Candidate Protein Pfs25 from P. falciparum: A Molecular Modeling and Docking Study
207 -- 222Palakkad Krishnan Unni Vinod, Kareenhalli V. Venkatesh. A Steady State Model for the Transcriptional Regulation of Filamentous Growth in Saccharomyces cerevisiae
223 -- 234Sachin Pundhir, Hemant Vijayvargiya, Anil Kumar. PredictBias: A Server for the Identification of Genomic and Pathogenicity Islands in Prokaryotes
235 -- 250Oruganty Krishnadev, Narayanaswamy Srinivasan. A Data Integration Approach to Predict Host-Pathogen Protein-Protein Interactions: Application to Recognize Protein Interactions between Human and a Malarial Parasite
251 -- 259Siya Ram, Ram Lakhan Singh, Rishi Shanker. In silico Comparison of Real-Time PCR Probes for Detection of Pathogens
261 -- 273Sudha Anand, Anand Anbarasu, Sethumadhavan Rao. Influence of C-H...π Hydrogen Bonds in Interleukins
275 -- 289Dipankar Sengupta, Deeptak Verma, Pradeep Kumar Naik. Docking-MM-GB/SA and ADME Screening of HIV-1 NNRTI Inhibitor: Nevirapine and its Analogues
291 -- 306Jiayu Wen, Tancred Frickey, Georg F. Weiller. Computational Prediction of Candidate miRNAs and their Targets from Medicago truncatula Non-Protein-Coding Transcripts
307 -- 330Karuppiah Kanagarajadurai, Ramanathan Sowdhamini. Sequence and Structural Analyses of Interleukin-8-Like Chemokine Superfamily
331 -- 338Vibhuti Sharma, Preeti Gupta, Aparna Dixit. In silico Identification of Putative Drug Targets from Different Metabolic Pathways of Aeromonas hydrophila
339 -- 345Kenji Akiyama, Eisuke Chikayama, Hiroaki Yuasa, Yukihisa Shimada, Takayuki Tohge, Kazuo Shinozaki, Masami Y. Hirai, Tetsuya Sakurai, Jun Kikuchi, Kazuki Saito. PRIMe: A Web Site That Assembles Tools for Metabolomics and Transcriptomics
347 -- 361Masami Kamasawa, Jun-Ichi Horiuchi. Identification and Characterization of Polyadenylation Signal (PAS) Variants in Human Genomic Sequences Based on Modified EST Clustering
363 -- 376Sabah Khalid, Mohsin Khan, Chandrasekhar Babu Gorle, Karl Fraser, Ping Wang, Xiaohui Liu, Suling Li. MaXlab: A Novel Application for the Cross Comparison and Integration of Biological Signatures from Microarray Studies

Volume 8, Issue 2

71 -- 85Qing Yan. Bioinformatics Databases and Tools in Virology Research: An Overview
87 -- 104Passoupathy Rajendrakumar, Akshaya Kumar Biswal, Sena M. Balachandran, Raman M. Sundaram. In silicoAnalysis of Microsatellites in Organellar Genomes of Major Cereals for Understanding Their Phylogenetic Relationships
105 -- 120Adaya N. Cohen, Samuel Bocobza, Isana Veksler, Idan Gabdank, Danny Barash, Asaph Aharoni, Michal Shapira, Klara Kedem. Computational Identification of Three-Way Junctions in Folded RNAs: A Case Study in Arabidopsis
121 -- 128Manish Kumar, Varun Thakur, Gajendra P. S. Raghava. COPid: Composition Based Protein Identification
129 -- 140Aarti Garg, Gajendra P. S. Raghava. A Machine Learning Based Method for the Prediction of Secretory Proteins Using Amino Acid Composition, Their Order and Similarity-Search
141 -- 155Preti Jain, Puneet Wadhwa, Ramazan Savas Aygün, Gopi K. Podila. Vector-G: Multi-Modular SVM-Based Heterotrimeric G Protein Prediction
157 -- 175Jirí Kléma, Sylvain Blachon, Arnaud Soulet, Bruno Crémilleux, Olivier Gandrillon. Constraint-Based Knowledge Discovery from SAGE Data
177 -- 186Claudia Pommerenke, Inga Gabriel, Boyke Bunk, Richard Münch, Isam Haddad, Petra Tielen, Irene Wagner-Döbler, Dieter Jahn. ROSY - A Flexible and Universal Database and Bioinformatics Tool Platform for Roseobacter Related Species
187 -- 192Kuljeet S. Sandhu, Sunil Pandey, Souvik Maiti, Beena Pillai. GASCO: Genetic Algorithm Simulation for Codon Optimization

Volume 8, Issue 1

1 -- 13John A. Bumpus, Mark Trax, Ashley Reisdorph, Cindi Boyd, Damien Gilbert, Sara Techau, Roy M. Ventullo. An in silico Analysis of Cytochrome c from Phanerochaete chrysosporium: Its Amino Acid Sequence and Characterization of Gene Structural Elements
15 -- 20Aylan Farid Arenas, Andrés Julián Gutiérrez Escobar, Jorge E. Gomez-Marin. Evolutionary Origin of the Protozoan Parasites Histone-like Proteins (HU)
21 -- 32Zhuofei Xu, Yanjie Chao, Youhui Si, Jian Wang, Meilin Jin, Aizhen Guo, Ping Qian, Rui Zhou, Huanchun Chen. The GTP Binding Sites Interacted with RNA-Dependent RNA Polymerase of Classical Swine Fever Virus in de novo Initiation
33 -- 46Simon J. Furney, Stephen F. Madden, Tomasz A. Kisiel, Desmond G. Higgins, Núria López-Bigas. Distinct Patterns in the Regulation and Evolution of Human Cancer Genes
47 -- 52Longlong Yang, John R. Walker, John B. Hogenesch, Russell S. Thomas. NetAtlas: A Cytoscape Plugin to Examine Signaling Networks Based on Tissue Gene Expression
53 -- 61Takeru Nakazato, Toru Takinaka, Hironori Mizuguchi, Hideo Matsuda, Hidemasa Bono, Minoru Asogawa. BioCompass: A Novel Functional Inference Tool that Utilizes MeSH Hierarchy to Analyze Groups of Genes
63 -- 69Antony Le Béchec, Pierre-Joachim Zindy, Thomas Sierocinski, Dimitri Petritis, Audrey Bihouée, Nolwenn LeMeur, Jean Léger, Nathalie Théret. M@IA: A Modular Open-Source Application for Microarray Workflow and Integrative Datamining