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JOURNAL

Bioinformatics and Biology Insights


An international, peer reviewed, open access journal that focusses on computational methods used in the analysis and annotation of structures, in additional to other areas of computational biology.  The journal also seeks to place computational biology within the broader context of biology.

Editor in Chief: Professor Erich Bornberg-Bauer

ISSN: 1177-9322

Processing Speed: High quality, constructive peer review and rapid editorial decision within an average of four weeks.



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Evolution of Synonymous Codon Usage in the Mitogenomes of Certain Species of Bilaterian Lineage with Special Reference to Chaetognatha
Sudeesh Karumathil, Vijaya R. Dirisala, Uthpala Srinadh, Valaboju Nikhil, N. Satya Sampath Kumar and Rahul R. Nair
Bioinformatics and Biology Insights 2016:10 167-184
Original Research | Published on 22 Sep 2016



Interaction Analysis of T7 RNA Polymerase with Heparin and Its Low Molecular Weight Derivatives – An In Silico Approach
Subhomoi Borkotoky, Chetan Kumar Meena and Ayaluru Murali
Bioinformatics and Biology Insights 2016:10 155-166
Original Research | Published on 29 Aug 2016



In Silico Structure Prediction of Human Fatty Acid Synthase–Dehydratase: A Plausible Model for Understanding Active Site Interactions
Arun John, Vetrivel Umashankar, A. Samdani, Manoharan Sangeetha, Subramanian Krishnakumar and Perinkulam Ravi Deepa
Bioinformatics and Biology Insights 2016:10 143-154
Original Research | Published on 14 Aug 2016



OSG-GEM: Gene Expression Matrix Construction Using the Open Science Grid
William L. Poehlman, Mats Rynge, Chris Branton, D. Balamurugan and Frank A. Feltus
Bioinformatics and Biology Insights 2016:10 133-141
Technical Advance | Published on 02 Aug 2016



Computational Identification of Novel Genes: Current and Future Perspectives
Steffen Klasberg, Tristan Bitard-Feildel and Ludovic Mallet
Bioinformatics and Biology Insights 2016:10 121-131
Review | Published on 01 Aug 2016



Phylogenetic and Structural Analysis of the Pluripotency Factor Sex-Determining Region Y box2 Gene of Camelus dromedarius (cSox2)
Abdullah Alawad, Sultan Alharbi, Othman Alhazzaa, Faisal Alagrafi, Mohammed Alkhrayef, Ziyad Alhamdan, Abdullah Alenazi, Hasan Al-Johi, Ibrahim O. Alanazi and Mohamed Hammad.
Bioinformatics and Biology Insights 2016:10 111-120
Original Research | Published on 26 Jul 2016



Cluster Analysis of Tumor Suppressor Genes in Canine Leukocytes Identifies Activation State
Julie-Anne Daly, Sally-Anne Mortlock, Rosanne M. Taylor and Peter Williamson
Bioinformatics and Biology Insights 2015:Suppl. 2 59-67
Review | Published on 19 Jul 2016



PIMADb: A Database of Protein–Protein Interactions in Huge Macromolecular Assemblies
Oommen K. Mathew and Ramanathan Sowdhamini
Bioinformatics and Biology Insights 2016:10 105-109
Original Research | Published on 19 Jul 2016



Molecular Shape Analysis-Guided Virtual Screening Platform for Adenosine Kinase Inhibitors
Savita Bhutoria, Ballari Das and Nanda Ghoshal
Bioinformatics and Biology Insights 2016:10 97-103
Original Research | Published on 18 Jul 2016



S2M: A Stochastic Simulation Model of Poliovirus Genetic State Transition
Carol L. Ecale Zhou
Bioinformatics and Biology Insights 2016:10 81-95
Methodology | Published on 27 Jun 2016



PDBparam: Online Resource for Computing Structural Parameters of Proteins
R. Nagarajan, A. Archana, A. Mary Thangakani, S. Jemimah, D. Velmurugan, and M. Michael Gromiha
Bioinformatics and Biology Insights 2016:10 73-80
Software or Database Review | Published on 14 Jun 2016



Genome Data Exploration Using Correspondence Analysis
Fredj Tekaia
Bioinformatics and Biology Insights 2016:10 59-72
Review | Published on 07 Jun 2016



Quality Assessment of Domesticated Animal Genome Assemblies
Stefan E. Seemann, Christian Anthon, Oana Palasca and Jan Gorodkin
Bioinformatics and Biology Insights 2015:Suppl. 4 49-58
Original Research | Published on 06 Jun 2016



Unmasking Upstream Gene Expression Regulators with miRNA-corrected mRNA Data
Stephanie Bollmann, Dengpan Bu, Jiaqi Wang and Massimo Bionaz
Bioinformatics and Biology Insights 2015:Suppl. 4 33-48
Original Research | Published on 29 May 2016



Introductory Editorial: Current Developments in RNA Sequence Analysis
Jianping Zhang, Shaolei Teng, Cuncong Zhong, Bo Wang, Jie Wu
Bioinformatics and Biology Insights 2015:Suppl. 1 61-63
Editorial | Published on 15 May 2016



Modeling of the Glycolysis Pathway in Plasmodium falciparum using Petri Nets
Jelili Oyelade, Itunuoluwa Isewon, Solomon Rotimi and Ifeoluwa Okunoren
Bioinformatics and Biology Insights 2016:10 49-57
Original Research | Published on 12 May 2016



Machine Learning Data Imputation and Classification in a Multicohort Hypertension Clinical Study
William Seffens, Chad Evans, Minority Health-GRID Network and Herman Taylor
Bioinformatics and Biology Insights 2015:Suppl. 3 43-54
Original Research | Published on 09 May 2016



Practical Approaches for Mining Frequent Patterns in Molecular Datasets
Stefan Naulaerts, Sandy Moens, Kristof Engelen, Wim Vanden Berghe, Bart Goethals, Kris Laukens and Pieter Meysman
Bioinformatics and Biology Insights 2016:10 37-47
Review | Published on 02 May 2016



Vaccine Design for H5N1 Based on B- and T-cell Epitope Predictions
Usman Sumo Friend Tambunan, Feimmy Ruth Pratiwi Sipahutar, Arli Aditya Parikesit and Djati Kerami
Bioinformatics and Biology Insights 2016:10 27-35
Original Research | Published on 28 Apr 2016



Use of Metatranscriptomics in Microbiome Research
Stavros Bashiardes, Gili Zilberman-Schapira and Eran Elinav
Bioinformatics and Biology Insights 2016:10 19-25
Review | Published on 20 Apr 2016



Bioinformatics and Molecular Analysis of the Evolutionary Relationship between Bovine Rhinitis A Viruses and Foot-And-Mouth Disease Virus
Devendra K. Rai, Paul Lawrence, Steve J. Pauszek, Maria E. Piccone, Nick J. Knowles and Elizabeth Rieder
Bioinformatics and Biology Insights 2015:Suppl. 2 43-58
Original Research | Published on 04 Apr 2016



RNA Sequencing in Schizophrenia
Xin Li and Shaolei Teng
Bioinformatics and Biology Insights 2015:Suppl. 1 53-60
Review | Published on 31 Mar 2016



Modeling Intercellular Communication as a Survival Strategy of Cancer Cells: An In Silico Approach on a Flexible Bioinformatics Framework
Maura Cárdenas-García, Pedro P. González-Pérez, Sara Montagna, Oscar Sánchez Cortés and Elena Hernández Caballero
Bioinformatics and Biology Insights 2016:10 5-18
Original Research | Published on 13 Mar 2016



Transcriptome Analysis in Domesticated Species: Challenges and Strategies
Jessica P. Hekman, Jennifer L. Johnson and Anna V. Kukekova
Bioinformatics and Biology Insights 2015:Suppl. 4 21-31
Review | Published on 16 Feb 2016



Visualization of Genome Diversity in German Shepherd Dogs
Sally-Anne Mortlock, Rachel Booth, Hamutal Mazrier, Mehar S. Khatkar and Peter Williamson
Bioinformatics and Biology Insights 2015:Suppl. 2 37-42
Original Research | Published on 10 Feb 2016



Nematode Sodium Calcium Exchangers: A Surprising Lack of Transport
Vishal Sharma and Damien M. O'Halloran
Bioinformatics and Biology Insights 2016:10 1-4
Short Commentary | Published on 01 Feb 2016



Effects of Pseudorabies Virus Infection on the Tracheobronchial Lymph Node Transcriptome
Laura C. Miller, Darrell O. Bayles, Eraldo L. Zanella and Kelly M. Lager
Bioinformatics and Biology Insights 2015:Suppl. 2 25-36
Original Research | Published on 24 Jan 2016



Evolutionary Character of Alternative Splicing in Plants
Chengjun Zhang, Hong Yang and Huizhao Yang
Bioinformatics and Biology Insights 2015:Suppl. 1 47-52
Concise Review | Published on 20 Jan 2016



Homology-Based Prediction of Potential Protein–Protein Interactions between Human Erythrocytes and Plasmodium falciparum
Gayatri Ramakrishnan, Narayanaswamy Srinivasan, Ponnan Padmapriya and Vasant Natarajan
Bioinformatics and Biology Insights 2015:9 195-206
Original Research | Published on 20 Dec 2015



Sequence Analysis and Evolutionary Studies of Reelin Proteins
Malini Manoharan, Sayyed Auwn Muhammad, and Ramanathan Sowdhamini
Bioinformatics and Biology Insights 2015:9 187-193
Original Research | Published on 20 Dec 2015



DDA: A Novel Network-Based Scoring Method to Identify Disease–Disease Associations
Apichat Suratanee and Kitiporn Plaimas
Bioinformatics and Biology Insights 2015:9 175-186
Original Research | Published on 08 Dec 2015



A Computational Pipeline for Cross-Species Analysis of RNA-seq Data Using R and Bioconductor
Peter R. LoVerso and Feng Cui
Bioinformatics and Biology Insights 2015:9 165-174
Original Research | Published on 02 Dec 2015



Cross-species Transcriptomic Comparison of In Vitro and In Vivo Mammalian Neural Cells
Peter R. LoVerso, Christopher M. Wachter and Feng Cui
Bioinformatics and Biology Insights 2015:9 153-164
Original Research | Published on 25 Nov 2015



Advanced Applications of RNA Sequencing and Challenges
Yixing Han, Shouguo Gao, Kathrin Muegge, Wei Zhang and Bing Zhou
Bioinformatics and Biology Insights 2015:Suppl. 1 29-46
Review | Published on 15 Nov 2015



Development and Application of a Genetic Algorithm for Variable Optimization and Predictive Modeling of Five-Year Mortality Using Questionnaire Data
Lucas J. Adams, Ghalib Bello and Gerard G. Dumancas
Bioinformatics and Biology Insights 2015:Suppl. 3 31-41
Original Research | Published on 08 Nov 2015



Gene Coexpression Networks in Human Brain Developmental Transcriptomes Implicate the Association of Long Noncoding RNAs with Intellectual Disability
Brian L. Gudenas and Liangjiang Wang
Bioinformatics and Biology Insights 2015:Suppl. 1 21-27
Original Research | Published on 27 Oct 2015



Application of Functional Genomics for Bovine Respiratory Disease Diagnostics
Aswathy N. Rai, William B. Epperson and Bindu Nanduri
Bioinformatics and Biology Insights 2015:Suppl. 2 13-23
Review | Published on 22 Oct 2015



Machine Learning Methods for Predicting HLA–Peptide Binding Activity
Heng Luo, Hao Ye, Hui Wen Ng, Leming Shi, Weida Tong, Donna L. Mendrick and Huixiao Hong
Bioinformatics and Biology Insights 2015:Suppl. 3 21-29
Review | Published on 11 Oct 2015 | Video abstract



The Genetic Architecture of Domestication in Animals
Dominic Wright
Bioinformatics and Biology Insights 2015:Suppl. 4 11-20
Commentary | Published on 11 Oct 2015



B-Cell and Monocyte Contribution to Systemic Lupus Erythematosus Identified by Cell-Type-Specific Differential Expression Analysis in RNA-Seq Data
Mikhail G. Dozmorov, Nicolas Dominguez, Krista Bean, Susan R. Macwana, Virginia Roberts, Edmund Glass, Judith A. James and Joel M. Guthridge
Bioinformatics and Biology Insights 2015:Suppl. 3 11-19
Original Research | Published on 08 Oct 2015



Genetics of Prion Disease in Cattle
Brenda M. Murdoch and Gordon K. Murdoch
Bioinformatics and Biology Insights 2015:Suppl. 4 1-10
Review | Published on 24 Sep 2015



The Widening Gulf between Genomics Data Generation and Consumption: A Practical Guide to Big Data Transfer Technology
Frank A. Feltus, Joseph R. Breen III, Juan Deng, Ryan S. Izard, Christopher A. Konger, Walter B. Ligon III, Don Preuss and Kuang-Ching Wang
Bioinformatics and Biology Insights 2015:Suppl. 1 9-19
Review | Published on 23 Sep 2015 | Video abstract



PPCheck: A Webserver for the Quantitative Analysis of Protein–Protein Interfaces and Prediction of Residue Hotspots
Anshul Sukhwal and Ramanathan Sowdhamini
Bioinformatics and Biology Insights 2015:9 141-151
Original Research | Published on 21 Sep 2015



Molecular Dynamics Approach in the Comparison of Wild-Type and Mutant Paraoxonase-1 Apoenzyme Form
Khadija Amine, Lamia Miri, Adil Naimi, Rachid Saile, Abderrahmane El Kharrim, Afaf Mikou and Anass Kettani
Bioinformatics and Biology Insights 2015:9 129-140
Original Research | Published on 13 Sep 2015



BioImg.org: A Catalog of Virtual Machine Images for the Life Sciences
Martin Dahlö, Frédéric Haziza, Aleksi Kallio, Eija Korpelainen, Erik Bongcam-Rudloff and Ola Spjuth
Bioinformatics and Biology Insights 2015:9 125-128
Technical Advance | Published on 10 Sep 2015



Development and Validation of a Clinical Risk-Assessment Tool Predictive of All-Cause Mortality
Ghalib A. Bello, Gerard G. Dumancas and Chris Gennings
Bioinformatics and Biology Insights 2015:Suppl. 3 1-10
Original Research | Published on 01 Sep 2015



Antigenic Determinants of Possible Vaccine Escape by Porcine Circovirus Subtype 2b Viruses
Megan Constans, Marvin Ssemadaali, Oleksandr Kolyvushko and Sheela Ramamoorthy
Bioinformatics and Biology Insights 2015:Suppl. 2 1-12
Original Research | Published on 23 Aug 2015 | Video abstract



A Simple Rank Product Approach for Analyzing Two Classes
Tae Young Yang
Bioinformatics and Biology Insights 2015:9 119-123
Methodology | Published on 16 Jul 2015



High-Throughput miRNA Sequencing Reveals a Field Effect in Gastric Cancer and Suggests an Epigenetic Network Mechanism
Monica B. Assumpção, Fabiano C. Moreira, Igor G. Hamoy, Leandro Magalhães, Amanda Vidal, Adenilson Pereira, Rommel Burbano, André Khayat, Artur Silva, Sidney Santos, Samia Demachki, Ândrea Ribeiro-dos-Santos, and Paulo Assumpção
Bioinformatics and Biology Insights 2015:9 111-117
Original Research | Published on 06 Jul 2015



Prediction of O-glycosylation Sites Using Random Forest and GA-Tuned PSO Technique
Hebatallah Hassan, Amr Badr and M. B. Abdelhalim
Bioinformatics and Biology Insights 2015:9 103-109
Original Research | Published on 05 Jul 2015



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My experience working with Libertas Academica as an author and as a reviewer has been consistently positive.  The staff are knowledgeable and prompt in answering inquiries, and the publication process is efficient.  I greatly appreciated the automated emails that kept me informed of every step as my manuscript progressed through the process.  I definitely plan to publish again in Bioinformatics and Biology Insights.
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