Structural profiles of human miRNA families from pairwise clustering - MicroRNAs (miRNAs) are a group of small, ~21 nt long, riboreg-ulators inhibiting gene expression at a post-transcriptional level. Their most distinctive structural feature is the foldback hairpin of their precursor pre-miRNAs.

Sequence progressive alignment, a framework for practical large-scale probabilistic consistency alignment - Motivation: Multiple sequence alignment is a cornerstone of comparative genomics.

All hits all the time: parameter-free calculation of spaced seed sensitivity - Motivation: Standard search techniques for DNA repeats start by identifying small matching words, or seeds, that may inhabit larger repeats.

PanCGH: a genotype-calling algorithm for pangenome CGH data - Motivation: Pangenome arrays contain DNA oligomers targeting several sequenced reference genomes from the same species.

Reference alignment of SNP microarray signals for copy number analysis of tumors - A new procedure to align single nucleotide polymorphism (SNP) microarray signals for copy number analysis is proposed.

Molecule-level imaging of Pax6 mRNA distribution in mouse embryonic neocortex by molecular interaction force microscopy - Detection of the cellular and tissue distributions of RNA species is critical in our understanding of the regulatory mechanisms underlying cellular and tissue differentiation.

pBT, a novel vector for tetracycline-regulated yeast three-hybrid assay - A novel yeast three-hybrid (Y3H) vector pBT was developed, which contains a tetracycline (Tet)-sensitive transactivator (tTA) expression unit and a Tet-responsive element (TRE)-driven 3rd protein expression unit within a single plasmid.

Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors - Motivation: Phospholipid scramblases (PLSCRs) constitute a family of cytoplasmic membrane-associated proteins that were identified based upon their capacity to mediate a Ca2+<

EchoLOCATION: an in silico analysis of the subcellular locations of Escherichia coli proteins and comparison with experimentally derived locations - Summary: EchoLOCATION is a database that provides a comprehensive analysis of the subcellular locations of Escherichia coli K-12 proteins.

MotifMap: a human genome-wide map of candidate regulatory motif sites - Motivation: Achieving a comprehensive map of all the regulatory elements encoded in the human genome is a fundamental challenge of biomedical research.