A new method for identification of protein (sub)families in a set of proteins based on hydropathy distribution in proteins

Structural similarity among proteins is reflected in the distribution of hydropathicity along the amino acids in the protein sequence. Similarities in the hydropathy distributions are obvious for homologous proteins within a protein family. They also were observed for proteins with related structures, even when sequence similarities were undetectable. Here we present a novel method that employs the hydropathy distribution in proteins for identification of (sub)families in a set of (homologous) proteins. We represent proteins as points in a generalized hydropathy space, represented by vectors of specifically defined features. The features are derived from hydropathy of the individual amino acids. Projection of this space onto principal axes reveals groups of proteins with related hydropathy distributions. The groups identified correspond well to families of structurally and functionally related proteins. We found that this method accurately identifies protein families in a set of proteins, or subfamilies in a set of homologous proteins. Our results show that protein families can be identified by the analysis of hydropathy distribution, without the need for sequence alignment. (C) 2005 Wiley-Liss, Inc.

Set-up and maintenance of syringe drivers for subcutaneous drug administration in palliative care

Focal points: Details of syringe driver use were collected from 11 inpatient hospice units in the West Midlands and compared with predetermined standards set by a multidisciplinary group We recorded 294 syringe driver events which complied with standards for the choice of administration site, protection of the syringe driver from light and the reason for initiation of the infusion Issues of nurse training, variability in prescribing practices, provision of written information for patients, labelling and documentation of the diluent used were all identified as areas in which compliance with standards could be improved

Dense Continuity and Selections of Set-Valued Mappings

∗ The first and third author were partially supported by National Fund for Scientific Research at the Bulgarian Ministry of Science and Education under grant MM-701/97.

Fibrés Vectoriels Semi-Stables sur une Courbe de Genre Deux et Association des Points dans L’espace Projectif

2000 Mathematics Subject Classification: 14D20, 14J60.

Maximization of a Linear Utility Function over the Set of the Housing Market Short-Term Equilibria

AMS subject classification: 90C05, 90A14.

(Table 1) Age control points and of sediment core MD01-2444

The marine isotopic stage 3 (MIS3) at Ocean Drilling Program (ODP) Site 1060 (Gulf Stream) shows both sharp onset and end of interstadials, the existence of very short lived warm events during stadials, and points to differences in detail between the sea surface temperature (SST) record from the western North Atlantic and the atmospheric temperature record inferred from d18O in Greenland ice. Investigating MIS3 and obtaining comparable data from other locations appears crucial. The eastern Atlantic provides well-documented records of climate changes. We have selected a core from off Portugal and use it to examine Dansgaard/Oeschger events (D/O) at centennial-scale resolution (139 years on average between two data points). We have obtained a faunal data set for core MD01-2444, 37°N, 10°W, 2600 m water depth and use a group of species (Globigerina bulloides + Globigerinita glutinata) as a proxy of upwelling intensity driven by trade winds intensity changes. We tentatively relate the variation of this group to a North Atlantic Oscillation-like phenomenon (NAO) off Portugal. We observe that it resembles the rainfall index in the Caribbean as recorded at ODP Site 1002 (Cariaco Basin) which traces the Intertropical Convergence Zone (ITCZ) location through changes of terrigenous inputs. The driest intervals (ITZC to the south) at Site 1002 correspond to intervals of increased upwelling in MD01-2444 as well as the driest periods identified during stadials on similar cores in the area. Because the ITZC to the south is consistent with an El Niño-Southern Oscillation (ENSO+) situation, our study suggests a positive correlation between ENSO-like conditions and NAO-like conditions at a millennial timescale. During interstadial intervals when increased wetness over Cariaco is recorded (ITCZ to the north) and the upwelling in MD01-2444 is decreased, we see from both SSTs and faunal tropical indicators that MD01-2444 site is warm. In addition, interstadials are equally warm through each so-called Bond cycle. This contrasts with the Greenland Ice Core Project (GRIP) record where interstadial peaks are successively cooler through each Bond cycle. This record confirms a link between tropical climate linked to ITCZ position and the climate of southern Europe at millennial timescales, in spite of showing a very good correlation with polar latitudes (GRIP) through d18O on Globigerina bulloides. In addition, because the warmest SSTs and the d18O on G. bulloides are so remarkably different, our work points to changes in seasonality as a strong control over the climatic pattern of the North Atlantic area and the marked influence of winter conditions.

(Fig. 4) Multiproxy data set of box core MSM5/5-712-1

A multiproxy data set of an AMS radiocarbon dated 46 cm long sediment core from the continental margin off western Svalbard reveals multidecadal climatic variability during the past two millennia. Investigation of planktic and benthic stable isotopes, planktic foraminiferal fauna, and lithogenic parameters aims to unveil the Atlantic Water advection to the eastern Fram Strait by intensity, temperatures, and salinities. Atlantic Water has been continuously present at the site over the last 2,000 years. Superimposed on the increase in sea ice/icebergs, a strengthened intensity of Atlantic Water inflow and seasonal ice-free conditions were detected at ~ 1000 to 1200 AD, during the well-known Medieval Climate Anomaly (MCA). However, temperatures of the MCA never exceeded those of the 20th century. Since ~ 1400 AD significantly higher portions of ice rafted debris and high planktic foraminifer fluxes suggest that the site was located in the region of a seasonal highly fluctuating sea ice margin. A sharp reduction in planktic foraminifer fluxes around 800 AD and after 1730 AD indicates cool summer conditions with major influence of sea ice/icebergs. High amounts of the subpolar planktic foraminifer species Turborotalia quinqueloba in size fraction 150-250 µm indicate strengthened Atlantic Water inflow to the eastern Fram Strait already after ~ 1860 AD. Nevertheless surface conditions stayed cold well into the 20th century indicated by low planktic foraminiferal fluxes. Most likely at the beginning of the 20th century, cold conditions of the terminating Little Ice Age period persisted at the surface whereas warm and saline Atlantic Water already strengthened, hereby subsiding below the cold upper mixed layer. Surface sediments with high abundances of subpolar planktic foraminifers indicate a strong inflow of Atlantic Water providing seasonal ice-free conditions in the eastern Fram Strait during the last few decades.