An ontology for carcinoma classification for clinical bioinformatics

There are a number of existing classifications and staging schemes for carcinomas, one of the most frequently used being the TNM classification. Such classifications represent classes of entities which exist at various anatomical levels of granularity. We argue that in order to apply such representations to the Electronic Health Records one needs sound ontologies which take into consideration the diversity of the domains which are involved in clinical bioinformatics. Here we outline a formal theory for addressing these issues in a way that the ontologies can be used to support inferences relating to entities which exist at different anatomical levels of granularity. Our case study is the colon carcinoma, one of the most common carcinomas prevalent within the European population

Functional Anatomy: A Taxonomic Proposal

It is argued that medical science requires a classificatory system that (a) puts functions in the taxonomic center and (b) does justice ontologically to the difference between the processes which are the realizations of functions and the objects which are their bearers. We propose formulae for constructing such a system and describe some of its benefits. The arguments are general enough to be of interest to all the life sciences

F.R. TOMLINSON: MENS EN WETENSKAPLIKE

The 1996 F.R. Tomlinson Memorial Lecture was delivered on 23rd May 1996 in Bloemfontein. The author, Prof D.J.G. Smith, chose the subject : F.R. Tomlinson: Man and ScientistTeaching/Communication/Extension/Profession,

Was die philosophische Ontologie zur biomedizinischen Informatik beitragen kann

Die biomedizinische Forschung hat ein Kommunikationsproblem. Um die Ergebnisse ihrer Arbeit darzustellen, greifen einzelne Forschergruppen auf unterschiedliche und oft inkompatible Terminologien zurück. Für den Fortschritt der modernen Biomedizin ist die Integration dieser Ergebnisse jedoch unabdingbar

Palatability of teff grass by horses

Most forages commonly used to feed horses have potential detriments including blister beetles or excessive fiber concentrations. Teff grass (T), a warm-season annual forage, has the potential to be a good alternative for horses because of its lack of observed disorders. Our objective was to compare preference by horses for T harvested under different conditions with that of bermudagrass (B) harvested at two maturities. Six different forages were evaluated: T harvested at the late vegetative stage (TLV), at late bloom but that incurred 33 mm of rainfall between mowing and baling (TLBR), with caryopsis visible (TES), or at soft dough (TSD), and B harvested at late vegetative (BLV) and mid-bloom (BMB) growth stages. Five mature horses were used in a balanced incomplete block design where each horse received a different combination of 4 forages each day for 6 d. The 4 different forages were suspended in hay nets in each corner of each stall, and each hay was offered at 50% of the average daily hay consumption measured during a 12-d adaptation period. Forage preference as measured by individual forage dry matter (DM) consumption (kg and % of total DM consumed across the 4 forages) was greatest (P \u3c 0.05) from TLV followed by BLV. Preference (kg and % of total DM consumed) of BMB was greater (P \u3c 0.05) than that of TMBR, TES, and TSD, which did not differ from each other (P ≥ 0.63). Therefore, within a specific growth stage, horses apparently preferred teff grass, but effects of maturity and rainfall had a more dramatic effect on preference by horses than forage species

Electronic Structure Shift of Deep Nanoscale Silicon by SiO2_2- vs. Si3_3N4_4-Embedding as Alternative to Impurity Doping

Conventional impurity doping of deep nanoscale silicon (dns-Si) used in ultra large scale integration (ULSI) faces serious challenges below the 14 nm technology node. We report on a new fundamental effect in theory and experiment, namely the electronic structure of dns-Si experiencing energy offsets of ca. 1 eV as a function of SiO$_2$- vs. Si$_3$N$_4$-embedding with a few monolayers (MLs). An interface charge transfer (ICT) from dns-Si specific to the anion type of the dielectric is at the core of this effect and arguably nested in quantum-chemical properties of oxygen (O) and nitrogen (N) vs. Si. We investigate the size up to which this energy offset defines the electronic structure of dns-Si by density functional theory (DFT), considering interface orientation, embedding layer thickness, and approximants featuring two Si nanocrystals (NCs); one embedded in SiO$_2$ and the other in Si$_3$N$_4$. Working with synchrotron ultraviolet photoelectron spectroscopy (UPS), we use SiO$_2$- vs. Si$_3$N$_4$-embedded Si nanowells (NWells) to obtain their energy of the top valence band states. These results confirm our theoretical findings and gauge an analytic model for projecting maximum dns-Si sizes for NCs, nanowires (NWires) and NWells where the energy offset reaches full scale, yielding to a clear preference for electrons or holes as majority carriers in dns-Si. Our findings can replace impurity doping for n/p-type dns-Si as used in ultra-low power electronics and ULSI, eliminating dopant-related issues such as inelastic carrier scattering, thermal ionization, clustering, out-diffusion and defect generation. As far as majority carrier preference is concerned, the elimination of those issues effectively shifts the lower size limit of Si-based ULSI devices to the crystalization limit of Si of ca. 1.5 nm and enables them to work also under cryogenic conditions.Comment: 14 pages, 17 Figures with a total 44 graph

Clinical communication in orthodontics: Any questions?

OBJECTIVE To measure patient-perceived standards of clinician communication and identify elements of deficient performance. Good communication can improve the quality of care, patient satisfaction and compliance with treatment. DESIGN Cross-sectional questionnaire service evaluation. SETTING Two university dental hospital orthodontic departments. PARTICIPANTS Any patients aged 10 years and over attending the orthodontic department for treatment or consultation were eligible for inclusion. Patients who required third-party translation services were excluded. METHODS Clinicians provided the modified 15-item Communication Assessment Tool (CAT) to up to five patients in a clinical session. A front sheet for clinician characteristics was used and anonymised with a unique identifier. Univariable logistic GEE models examined associations among responses and clinician characteristics. RESULTS There were 55 clinicians with 204 patient responses. The overall percentage of '5=excellent' ratings was 88% (SD 0.16). The lowest scoring item was 'encouraged me to ask questions' (55.8%). Based on clinician characteristics, there were lower odds of an excellent response for certain CAT items. There were higher odds of an excellent response if English was not the clinician's first language (1.05; 95% confidence interval = 1.00-1.09; P=0.03). CONCLUSION There is a high standard of patient-clinician communication in the hospital orthodontic setting. Key areas of communication that require attention include encouraging patients to ask questions, talking in terms they can understand, recognising their main concerns and involving them in the decision-making process. The results of this study can be used to inform communication skills training and be replicated in similar dental settings (primary and secondary care) as part of quality improvement

First Molecular Evidence for Underestimated Biodiversity of Rhachotropis (Crustacea, Amphipoda), with Description of a New Species

The crustacean genus Rhachotropis has a worldwide distribution and amongst the largest bathymetric range known from any amphipod genus. DNA barcoding of new material from around New Zealand and the Ross Sea indicated depth-related biogeographic patterns. New Zealand Rhachotropis do not form a monophyletic clade. Species from bathyal depths on the Chatham Rise, east of New Zealand, show lower sequence divergence to bathyal species from California and the Arctic than to abyssal New Zealand species. Species sampled in the Kermadec Trench, north of New Zealand below 5000 m, seem to be more closely related to Ross Sea abyssal species than to the New Zealand shelf species. The worldwide geographic and bathymetric distribution for all Rhachotropis species is presented here. Depth may have a greater influence on phylogeny than geographic distance. Molecular and morphological investigations of Rhachotropis specimens from the Chatham Rise, New Zealand revealed a species new to science which is described in detail, including scanning electron microscopy. This increases the number of described species of Rhachotropis to 60 worldwide