Modularity of cellular networks shows general center-periphery polarization

Modularity of cellular networks shows general center-periphery polarization - The modular biology is supposed to be a bridge from the molecular to the systems biology.

Small RNA gene identification and mRNA target predictions in bacteria

Small RNA gene identification and mRNA target predictions in bacteria - Motivation: Bacterial small ribonucleic acids (sRNAs) that are not ribosomal and transfer or messenger RNAs were initially identified in the sixties, whereas their molecular functions are still under active investigation today.

Smarter clustering methods for SNP genotype calling

Smarter clustering methods for SNP genotype calling - Motivation: Most genotyping technologies for single nucleotide polymorphism (SNP) markers use standard clustering methods to ‘call’ the SNP genotypes.

Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database

Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database - Motivation: Artemis and Artemis Comparison Tool (ACT) have become mainstream tools for viewing and annotating sequence data, particularly for microbial genomes.

Specific alignment of structured RNA: stochastic grammars and sequence annealing

Specific alignment of structured RNA: stochastic grammars and sequence annealing - Motivation: Whole-genome screens suggest that eukaryotic genomes are dense with non-coding RNAs (ncRNAs).

Position-dependent motif characterization using non-negative matrix factorization

Position-dependent motif characterization using non-negative matrix factorization - Motivation: Cis-acting regulatory elements are frequently constrained by both sequence content and positioning relative to a functional site, such as a splice or polyadenylation site.

Protease substrate site predictors derived from machine learning on multilevel substrate phage display data

Protease substrate site predictors derived from machine learning on multilevel substrate phage display data - Motivation: Regulatory proteases modulate proteomic dynamics with a spectrum of specificities against substrate proteins.

A sensitive array-based assay for identifying multiple TMPRSS2:ERG fusion gene variants

A sensitive array-based assay for identifying multiple TMPRSS2:ERG fusion gene variants - Studies of gene fusions in solid tumors are not as extensive as in hematological malignancies due to several technical and analytical problems associated with tumor heterogeneity.

Hot Start PCR with heat-activatable primers: a novel approach for improved PCR performance

Hot Start PCR with heat-activatable primers: a novel approach for improved PCR performance - The polymerase chain reaction (PCR) is widely used for applications which require a high level of specificity and reliability, such as genetic testing, clinical diagnostics, blood screening, forensics and biodefense.