In functionally diverse protein families, conservation in short signature regions may outperform full-length sequence comparisons for identifying proteins that belong to a subgroup within which one specific aspect of their function is conserved. The SIMBAL workflow (Sites Inferred by Metabolic Background Assertion Labeling) is a data-mining procedure for finding such signature regions. It begin...

MOTIVATION In the living cell nucleus, genomic DNA is packaged into chromatin. DNA sequences that regulate transcription and other chromosomal processes are associated with local disruptions, or 'openings', in chromatin structure caused by the cooperative action of regulatory proteins. Such perturbations are extremely specific for cis-regulatory elements and occur over short stretches of DNA (t...

ArgRS (arginyl-tRNA synthetase) belongs to the class I aaRSs (aminoacyl-tRNA synthetases), though the majority of ArgRS species lack the canonical KMSK sequence characteristic of class I aaRSs. A DNA fragment of the ArgRS gene from Bacillus stearothermophilus was amplified using primers designed according to the conserved regions of known ArgRSs. Through analysis of the amplified DNA sequence a...

We first prove an adiabatic limit formula for the rf-invariant of aDirac operator, generalizing the recent work of J.-M. Bismut and J. Cheeger.An essential part of the proof is the study of the spectrum of the Dirac op-erator in the adiabatic limit. A new contribution arises in the adiabatic limitformula, in the form of a global term coming from the (asymptotically) verysmal...

Neta Spiro's paper Combining Grammar-Based and Memory-Based Models of Perception of Time Signature and Phase describes a method for recovering the time signature from a sequence of notes using a combination of grammar-based and memory-based approach. Interestingly, the only information considered in the algorithm is note-length; actual tones are completely ignored. Results are analyzed for 16 m...