Clustering the annotation space of proteins

BACKGROUND: Current protein clustering methods rely on either sequence or functional similarities between proteins, thereby limiting inferences to one of these areas. RESULTS: Here we report a new approach, named CLAN, which clusters proteins according to both annotation and sequence similarity. This approach is extremely fast, clustering the complete SwissProt database within minutes. It is also accurate, recovering consistent protein families agreeing on average in more than 97% with sequence-based protein families from Pfam. Discrepancies between sequence- and annotation-based clusters were scrutinized and the reasons reported. We demonstrate examples for each of these cases, and thoroughly discuss an example of a propagated error in SwissProt: a vacuolar ATPase subunit M9.2 erroneously annotated as vacuolar ATP synthase subunit H. CLAN algorithm is available from the authors and the CLAN database is accessible at CONCLUSIONS: CLAN creates refined function-and-sequence specific protein families that can be used for identification and annotation of unknown family members. It also allows easy identification of erroneous annotations by spotting inconsistencies between similarities on annotation and sequence levels

Rubble detection from VHR aerial imagery data using differential morphological profiles

Rubble detection is a key element in post disaster crisis assessment and response procedures. In this paper we present an automated method for rapid detection and quantification of rubble from very high resolution (VHR) aerial imagery of urban regions. It is a two step procedure in which the input image is projected on to a hierarchical representation structure for efficient mining and decomposition. Image features matching the geometric and chromatic properties of rubble are fused into a rubble layer that can be re-adjusted interactively. The targeted objects are evaluated based on a density metric given by spatial aggregation. The method is tested on a small-scale exercise on the publically available aerial imagery of Port-au-Prince, Haiti. Performance and preliminary results are discussed.JRC.G.2-Global security and crisis managemen