3 research outputs found
PMAP: databases for analyzing proteolytic events and pathways
The Proteolysis MAP (PMAP, http://www.proteolysis.org) is a user-friendly website intended to aid the scientific community in reasoning about proteolytic networks and pathways. PMAP is comprised of five databases, linked together in one environment. The foundation databases, ProteaseDB and SubstrateDB, are driven by an automated annotation pipeline that generates dynamic ‘Molecule Pages’, rich in molecular information. PMAP also contains two community annotated databases focused on function; CutDB has information on more than 5000 proteolytic events, and ProfileDB is dedicated to information of the substrate recognition specificity of proteases. Together, the content within these four databases will ultimately feed PathwayDB, which will be comprised of known pathways whose function can be dynamically modeled in a rule-based manner, and hypothetical pathways suggested by semi-automated culling of the literature. A Protease Toolkit is also available for the analysis of proteases and proteolysis. Here, we describe how the databases of PMAP can be used to foster understanding of proteolytic pathways, and equally as significant, to reason about proteolysis
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The Importance of Central Pacific Meridional Heat Advection to the Development of ENSO
The relationship between the warm water volume (WWV) ENSO precursor and ENSO SST weakened substantially after similar to 2000, coinciding with a degradation in dynamical model ENSO prediction skill. It is important to understand the drivers of the equatorial thermocline temperature variations and their linkage to ENSO onsets. In this study, a set of ocean reanalyses is employed to assess factors responsible for the variation of the equatorial Pacific Ocean thermocline during 1982-2019. Off-equatorial thermocline temperature anomalies carried equatorward by the mean meridional currents associated with Pacific tropical cells are shown to play an important role in modulating the central equatorial thermocline variations, which is rarely discussed in the literature. Further, ENSO events are delineated into two groups based on precursor mechanisms: the western equatorial Pacific type (WEP) ENSO, when the central equatorial thermocline is mainly influenced by the zonal propagation of anomalies from the western Pacific, and the off-equatorial central Pacific (OCP) ENSO, when off-equatorial central thermocline anomalies play the primary role. WWV is found to precede all WEP ENSO events by 6-9 months, while the correlation is substantially lower for OCP ENSO events. In contrast, the central tropical Pacific (CTP) precursor, which includes off-equatorial thermocline signals, has a very robust lead correlation with the OCP ENSO. Most OCP ENSO events are found to follow the same ENSO conditions, and the number of OCP ENSO events increases substantially since the start of the twenty-first century. These results highlight the importance of monitoring off-equatorial subsurface preconditions for ENSO prediction and to understand multiyear ENSO
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PMAP: databases for analyzing proteolytic events and pathways.
The Proteolysis MAP (PMAP, http://www.proteolysis.org) is a user-friendly website intended to aid the scientific community in reasoning about proteolytic networks and pathways. PMAP is comprised of five databases, linked together in one environment. The foundation databases, ProteaseDB and SubstrateDB, are driven by an automated annotation pipeline that generates dynamic 'Molecule Pages', rich in molecular information. PMAP also contains two community annotated databases focused on function; CutDB has information on more than 5000 proteolytic events, and ProfileDB is dedicated to information of the substrate recognition specificity of proteases. Together, the content within these four databases will ultimately feed PathwayDB, which will be comprised of known pathways whose function can be dynamically modeled in a rule-based manner, and hypothetical pathways suggested by semi-automated culling of the literature. A Protease Toolkit is also available for the analysis of proteases and proteolysis. Here, we describe how the databases of PMAP can be used to foster understanding of proteolytic pathways, and equally as significant, to reason about proteolysis