BioMed

Efficient computation of all perfect repeats in genomic sequences of up to half a gigabyte, with a case study on the human genome - Motivation: There is a significant ongoing research to identify the number and types of repetitive DNA sequences.

ESG: extended similarity group method for automated protein function prediction - Motivation: Importance of accurate automatic protein function prediction is ever increasing in the face of a large number of newly sequenced genomes and proteomics data that are awaiting biological interpretation.

Data structures and compression algorithms for genomic sequence data - Motivation: The continuing exponential accumulation of full genome data, including full diploid human genomes, creates new challenges not only for understanding genomic structure, function and evolution, but also for the storage,

SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences - Motivation:One of the first steps in metagenomic analysis is the assignment of reads/contigs obtained from various sequencing technologies to their correct taxonomic bins.

Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data - Motivation: Chromatin immunoprecipitation (ChIP) experiments followed by array hybridization, or ChIP-chip, is a powerful approach for identifying transcription factor binding sites (TFBS) and has be

Text-based over-representation analysis of microarray gene lists with annotation bias - A major challenge in microarray data analysis is the functional interpretation of gene lists.

TARGeT: a web-based pipeline for retrieving and characterizing gene and transposable element families from genomic sequences - Gene families compose a large proportion of eukaryotic genomes. The rapidly expanding genomic sequence database provides a good opportunity to study gene family evolution and function.

"Biopolymers and Cell" ("B&C") is a scientific journal of the National Academy of Sciences of Ukraine, published by the Institute of Molecular Biology and Genetics.

Textual data compression in computational biology: a synopsis - Motivation: Textual data compression, and the associated techniques coming from information theory, are often perceived as being of interest for data communication and storage.