The accurate staging of ovarian cancer using 3T magnetic resonance imaging - a realistic option

Objectives: The aim of the study was to determine whether staging primary ovarian cancer using 3.0 Tesla (3T) magnetic resonance imaging (MRI) is comparable to surgical staging of the disease. Design: A retrospective study consisting of a search of the pathology database to identify women with ovarian pathology from May 2004 to January 2007. Setting: All women treated for suspected ovarian cancer in our cancer centre region. Sample: All women suspected of ovarian pathology who underwent 3T MRI prior to primary surgical intervention between May 2004 and January 2007. Methods: All women found to have ovarian pathology, both benign and malignant, were then cross checked with the magnetic resonance (MR) database to identify those who had undergone 3T MRI prior to surgery. The resulting group of women underwent comparison of the MR, surgical and histopathological findings for each individual including diagnosis of benign or malignant disease and International Federation of Gynecology and Obstetrics (FIGO) staging where appropriate. Main outcome measures: Comparisons were made between the staging accuracy of 3T MRI and surgical staging compared with histopathological findings and FIGO stage using weighted kappa. Sensitivity, specificity and accuracy were calculated for diagnosing malignant ovarian disease with 3T MRI. Results: A total of 191 women identified as having ovarian pathology underwent imaging with 3T MR and primary surgical intervention. In 19 of these women, the ovarian disease was an incidental finding. The group for which staging methods were compared consisted of 77 women of primary ovarian malignancy (20 of whom had borderline tumours). 3T MRI was able to detect ovarian malignancy with a sensitivity of 92% and a specificity of 76%. The overall accuracy in detecting malignancy with 3T MRI was 84%, with a positive predictive value of 80% and negative predictive value of 90%. Statistical analysis of the two methods of staging using weighted kappa, gave a K value of 0.926 (SE ±0.121) for surgical staging and 0.866 (SE ±0.119) for MR staging. A further analysis of the staging data for ovarian cancers alone, excluding borderline tumours resulted in a K value of 0.931 (SE ±0.136) for histopathological staging versus MR staging and 0.958 (±0.140) for histopathological stage versus surgical staging. Conclusion: Our study has shown that MRI can achieve staging of ovarian cancer comparable with the accuracy seen with surgical staging. No previous studies comparing different modalities have used the higher field strength 3T MRI. In addition, all other studies comparing radiological assessment of ovarian cancer have grouped the stages into I, II, III and IV rather than the more clinically appropriate a, b and c subgroups. © 2008 The Authors

Using NVivo™ for Literature Reviews: The Eight Step Pedagogy (N7+1)

While a literature review is a necessary milestone to be completed by all researchers in a timely and efficient manner, it is often one of the most difficult aspects of the research journey. Moreover, traditional approaches often leave novice researchers, to struggle with the conceptualisation of their literature review, now complicated by the overwhelming quantity of research available online. This paper presents a rationale the use of Qualitative Data Analysis Software (QDAS) programs for literature reviews. QDAS tools allow the researcher to explore large amounts of textual documents to see patterns. These programs are often overlooked by novice researchers due to their complexity and the lack of expertise provided to assist them. To combat this dilemma our paper outlines the N7+1 approach to using Nvivo11™ for literature reviews. Through this approach researchers can develop an “auditable footprint,” keep everything in one place, and go paperless

Minimal Obstructions for Partial Representations of Interval Graphs

Interval graphs are intersection graphs of closed intervals. A generalization of recognition called partial representation extension was introduced recently. The input gives an interval graph with a partial representation specifying some pre-drawn intervals. We ask whether the remaining intervals can be added to create an extending representation. Two linear-time algorithms are known for solving this problem. In this paper, we characterize the minimal obstructions which make partial representations non-extendible. This generalizes Lekkerkerker and Boland's characterization of the minimal forbidden induced subgraphs of interval graphs. Each minimal obstruction consists of a forbidden induced subgraph together with at most four pre-drawn intervals. A Helly-type result follows: A partial representation is extendible if and only if every quadruple of pre-drawn intervals is extendible by itself. Our characterization leads to a linear-time certifying algorithm for partial representation extension

What Does Entailment for PTL Mean?

We continue recent investigations into the problem of reason- ing about typicality. We do so in the framework of Propositional Typicality Logic (PTL), which is obtained by enriching classical propositional logic with a typicality operator and characterized by a preferential semantics a la KLM. In this paper we study different notions of entailment for PTL. We take as a starting point the notion of Rational Closure defined for KLM-style conditionals. We show that the additional expressivity of PTL results in different versions of Rational Closure for PTL — versions that are equivalent with respect to the conditional language originally proposed by KLM

On the Entailment Problem for a Logic of Typicality

Propositional Typicality Logic (PTL) is a recently proposed logic, obtained by enriching classical propositional logic with a typicality operator. In spite of the non-monotonic features introduced by the semantics adopted for the typicality operator, the obvious Tarskian definition of entailment for PTL remains monotonic and is therefore not appro- priate. We investigate different (semantic) versions of entailment for PTL, based on the notion of Ra- tional Closure as defined by Lehmann and Magidor for KLM-style conditionals, and constructed using minimality. Our first important result is an impossi- bility theorem showing that a set of proposed postu- lates that at first all seem appropriate for a notion of entailment with regard to typicality cannot be satis- fied simultaneously. Closer inspection reveals that this result is best interpreted as an argument for ad- vocating the development of more than one type of PTL entailment. In the spirit of this interpretation, we define two primary forms of entailment for PTL and discuss their advantages and disadvantages

Ages for exoplanet host stars

Age is an important characteristic of a planetary system, but also one that is difficult to determine. Assuming that the host star and the planets are formed at the same time, the challenge is to determine the stellar age. Asteroseismology provides precise age determination, but in many cases the required detailed pulsation observations are not available. Here we concentrate on other techniques, which may have broader applicability but also serious limitations. Further development of this area requires improvements in our understanding of the evolution of stars and their age-dependent characteristics, combined with observations that allow reliable calibration of the various techniques.Comment: To appear in "Handbook of Exoplanets", eds. Deeg, H.J. & Belmonte, J.A, Springer (2018

A Genome-Wide Analysis of Promoter-Mediated Phenotypic Noise in Escherichia coli

Gene expression is subject to random perturbations that lead to fluctuations in the rate of protein production. As a consequence, for any given protein, genetically identical organisms living in a constant environment will contain different amounts of that particular protein, resulting in different phenotypes. This phenomenon is known as “phenotypic noise.” In bacterial systems, previous studies have shown that, for specific genes, both transcriptional and translational processes affect phenotypic noise. Here, we focus on how the promoter regions of genes affect noise and ask whether levels of promoter-mediated noise are correlated with genes' functional attributes, using data for over 60% of all promoters in Escherichia coli. We find that essential genes and genes with a high degree of evolutionary conservation have promoters that confer low levels of noise. We also find that the level of noise cannot be attributed to the evolutionary time that different genes have spent in the genome of E. coli. In contrast to previous results in eukaryotes, we find no association between promoter-mediated noise and gene expression plasticity. These results are consistent with the hypothesis that, in bacteria, natural selection can act to reduce gene expression noise and that some of this noise is controlled through the sequence of the promoter region alon