Journal of Integrative Bioinformatics

About the journal

Molecular biology produces huge amounts of data in the post-genomic era. This includes data describing metabolic mechanisms and pathways, structural genomic organization, patterns of regulatory regions; proteomics, transcriptomics, and metabolomics. On one hand, analysis of this data uses essentially the methods and concepts of computer science; on the other hand, the range of biological tasks solved by researchers determines the range and scope of the data. Currently, there are about 1,000 database systems and various analytical tools available via the Internet which are directed at solving various biological tasks.The challenge we have is to integrate these list-parts and relationships from genomics and proteomics at novel levels of understanding. Integrative Bioinformatics is a new area of research using the tools of computer science and electronic infrastructure applied to Biotechnology. These tools will also represent the backbone of the concept of a virtual cell.The Journal of Integrative Bioinformatics addresses primarily the scientists working in this emerging field consisting of software engineering, molecular biology and molecular medicine and, hence, would discuss the corresponding problems and present concepts.Consequently, the topics will mainly but not exclusively cover data integration, method integration and a combination of both as well as applications of theoretical/computational tools and any other approach supporting an integrative view of biological systems. Thus, the journal will focus on publication of:* molecular biological databases and applications;* integration of molecular biological, medical and other related data sets relevant for biological systems;* integration of molecular biological, medical and other related applications relevant for biological systems;* design of metabolic, regulatory and expression networks;* interdisciplinary studies of these metabolic networks;* evaluation of original experimental data with biocomputational tools;* online resources for experimental scientists.

Articles

• Rui Antunes, Sérgio Matos. Supervised learning and knowledge-based approaches applied to biomedical word sense disambiguation. Journal of Integrative Bioinformatics, vol. 14, no. 4, December 2017
• Sérgio Matos, Rui Antunes. Protein-protein interaction article classification using a convolutional recurrent neural network with pre-trained word embeddings. Journal of Integrative Bioinformatics, vol. 14, no. 4, December 2017
• Vera Afreixo, João M. O. S. Rodrigues, Carlos A C Bastos. Exceptional single strand DNA word symmetry: analysis of evolutionary potentialities. Journal of Integrative Bioinformatics, vol. 11, no. 3, p. 250, October 2014
• Carlos A C Bastos, Vera Afreixo, Sara Pinto Garcia, Armando J. Pinho. Inter-STOP symbol distances for the identification of coding regions. Journal of Integrative Bioinformatics, vol. 10, no. 3, p. 230, November 2013
• Paulo Gaspar, Jaime Carbonell, José Luís Oliveira. On the parameter optimization of Support Vector Machines for binary classification. Journal of Integrative Bioinformatics, vol. 9, no. 3, July 2012
• Sérgio Matos, José Luís Oliveira. Classification methods for finding articles describing protein-protein interactions in PubMed. Journal of Integrative Bioinformatics, vol. 8, no. 3, p. 178, September 2011
• Carlos A C Bastos, Vera Afreixo, Armando J. Pinho, Sara Pinto Garcia, João M. O. S. Rodrigues, Paulo J S G Ferreira. Inter-dinucleotide distances in the human genome: an analysis of the whole-genome and protein-coding distributions. Journal of Integrative Bioinformatics, vol. 8, no. 3, September 2011
• Joel Arrais, Bruno Santos, João Fernandes, Laura Carreto, Manuel A. S. Santos, José Luís Oliveira. GeneBrowser: an approach for integration and functional classification of genomics data. Journal of Integrative Bioinformatics, vol. 4, no. 3, October 2007