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Vol. 1

International Journal of Bioinformatics Research and Applications

2014 Vol. 10 No. 4/5

Special Issue on Computational Advances in Biology and Medicine

Guest Editors: Dr. Ion Mandoiu, Dr. Mihai Pop, Professor Sanguthevar Rajasekaran and Dr. John L. Spouge

 

Editorial
PagesTitle and authors
345-368Pairwise sequence alignment for very long sequences on GPUs
Junjie Li; Sanjay Ranka; Sartaj Sahni
DOI: 10.1504/IJBRA.2014.062989

369-383PMS6: a fast algorithm for motif discovery
Shibdas Bandyopadhyay; Sartaj Sahni; Sanguthevar Rajasekaran
DOI: 10.1504/IJBRA.2014.062990

384-408Searching for repeats, as an example of using the generalised Ruzzo-Tompa algorithm to find optimal subsequences with gaps
John L. Spouge; Leonardo Mariño-Ramírez; Sergey L. Sheetlin
DOI: 10.1504/IJBRA.2014.062991

409-425Accuracy and efficiency of algorithms for the demarcation of bacterial ecotypes from DNA sequence data
Juan Carlos Francisco; Frederick M. Cohan; Danny Krizanc
DOI: 10.1504/IJBRA.2014.062992

426-446Effects of rooting via out-groups on in-group topology in phylogeny
Margareta Ackerman; Daniel G. Brown; David Loker
DOI: 10.1504/IJBRA.2014.062993

447-460Scaling up genome annotation using MAKER and work queue
Andrew Thrasher; Zachary Musgrave; Brian Kachmarck; Douglas Thain; Scott Emrich
DOI: 10.1504/IJBRA.2014.062994

461-478Mapping genomic features to functional traits through microbial whole genome sequences
Wei Zhang; Erliang Zeng; Dan Liu; Stuart E. Jones; Scott Emrich
DOI: 10.1504/IJBRA.2014.062995

479-497Discovering non-coding RNA elements in Drosophila 3' untranslated regions
Cuncong Zhong; Justen Andrews; Shaojie Zhang
DOI: 10.1504/IJBRA.2014.062996

498-518Finding consensus stable local optimal structures for aligned RNA sequences and its application to discovering riboswitch elements
Yuan Li; Cuncong Zhong; Shaojie Zhang
DOI: 10.1504/IJBRA.2014.062997

519-539Parameter discovery in stochastic biological models using simulated annealing and statistical model checking
Faraz Hussain; Sumit K. Jha; Susmit Jha; Christopher J. Langmead
DOI: 10.1504/IJBRA.2014.062998

540-558Discovering rare behaviours in stochastic differential equations using decision procedures: applications to a minimal cell cycle model
Arup Kumar Ghosh; Faraz Hussain; Susmit Jha; Christopher J. Langmead; Sumit Kumar Jha
DOI: 10.1504/IJBRA.2014.062999