Virtual effects of light gauginos and higgsinos: a precision electroweak analysis of split supersymmetry

We compute corrections to precision electroweak observables in supersymmetry in the limit that scalar superpartners are very massive and decoupled. This leaves charginos and neutralinos and a Standard Model-like Higgs boson as the only states with unknown mass substantially affecting the analysis. We give complete formulas for the chargino and neutralino contributions, derive simple analytic results for the pure gaugino and higgsino cases, and study the general case. We find that in all circumstances, the precision electroweak fit improves when the charginos and neutralinos are near the current direct limits. Larger higgsino and gaugino masses worsen the fit as the theory predictions asymptotically approach those of the Standard Model. Since the Standard Model is considered by most to be an adequate fit to the precision electroweak data, an important corollary to our analysis is that all regions of parameter space allowed by direct collider constraints are also allowed by precision electroweak constraints in split supersymmetry.Comment: 22 pages, 5 figures, v2: typos fixed and note adde

D-term inflation in non-minimal supergravity

D-term inflation is one of the most interesting and versatile models of inflation. It is possible to implement naturally D-term inflation within high energy physics, as for example SUSY GUTs, SUGRA, or string theories. D-term inflation avoids the $\eta$-problem, while in its standard form it always ends with the formation of cosmic strings. Given the recent three-year WMAP data on the cosmic microwave background temperature anisotropies, we examine whether D-term inflation can be successfully implemented in non-minimal supergravity theories. We show that for all our choices of K\"ahler potential, there exists a parameter space for which the predictions of D-term inflation are in agreement with the measurements. The cosmic string contribution on the measured temperature anisotropies is always dominant, unless the superpotential coupling constant is fine tuned; a result already obtained for D-term inflation within minimal supergravity. In conclusion, cosmic strings and their r\^ole in the angular power spectrum cannot be easily hidden by just considering a non-flat K\"ahler geometry.Comment: 29 pages, 9 figures; minor changes to match publihed versio

Impact of random oversampling and random undersampling on the performance of prediction models developed using observational health data

Background: There is currently no consensus on the impact of class imbalance methods on the performance of clinical prediction models. We aimed to empirically investigate the impact of random oversampling and random undersampling, two commonly used class imbalance methods, on the internal and external validation performance of prediction models developed using observational health data. Methods: We developed and externally validated prediction models for various outcomes of interest within a target population of people with pharmaceutically treated depression across four large observational health databases. We used three different classifiers (lasso logistic regression, random forest, XGBoost) and varied the target imbalance ratio. We evaluated the impact on model performance in terms of discrimination and calibration. Discrimination was assessed using the area under the receiver operating characteristic curve (AUROC) and calibration was assessed using calibration plots. Results: We developed and externally validated a total of 1,566 prediction models. On internal and external validation, random oversampling and random undersampling generally did not result in higher AUROCs. Moreover, we found overestimated risks, although this miscalibration could largely be corrected by recalibrating the models towards the imbalance ratios in the original dataset. Conclusions: Overall, we found that random oversampling or random undersampling generally does not improve the internal and external validation performance of prediction models developed in large observational health databases. Based on our findings, we do not recommend applying random oversampling or random undersampling when developing prediction models in large observational health databases.</p

TreatmentPatterns:An R package to facilitate the standardized development and analysis of treatment patterns across disease domains

Background and objectives: There is an increasing interest to use real-world data to illustrate how patients with specific medical conditions are treated in real life. Insight in the current treatment practices helps to improve and tailor patient care, but is often held back by a lack of data interoperability and a high-level of required resources. We aimed to provide an easy tool that overcomes these barriers to support the standardized development and analysis of treatment patterns for a wide variety of medical conditions. Methods: We formally defined the process of constructing treatment pathways and implemented this in an open-source R package TreatmentPatterns (https://github.com/mi-erasmusmc/TreatmentPatterns) to enable a reproducible and timely analysis of treatment patterns. Results: The developed package supports the analysis of treatment patterns of a study population of interest. We demonstrate the functionality of the package by analyzing the treatment patterns of three common chronic diseases (type II diabetes mellitus, hypertension, and depression) in the Dutch Integrated Primary Care Information (IPCI) database. Conclusion: TreatmentPatterns is a tool to make the analysis of treatment patterns more accessible, more standardized, and more interpretation friendly. We hope it thereby contributes to the accumulation of knowledge on real-world treatment patterns across disease domains. We encourage researchers to further adjust and add custom analysis to the R package based on their research needs.</p

A multilingual gold-standard corpus for biomedical concept recognition: the Mantra GSC

Objective To create a multilingual gold-standard corpus for biomedical concept recognition. Materials and methods We selected text units from different parallel corpora (Medline abstract titles, drug labels, biomedical patent claims) in English, French, German, Spanish, and Dutch. Three annotators per language independently annotated the biomedical concepts, based on a subset of the Unified Medical Language System and covering a wide range of semantic groups. To reduce the annotation workload, automatically generated preannotations were provided. Individual annotations were automatically harmonized and then adjudicated, and cross-language consistency checks were carried out to arrive at the final annotations. Results The number of final annotations was 5530. Inter-annotator agreement scores indicate good agreement (median F-score 0.79), and are similar to those between individual annotators and the gold standard. The automatically generated harmonized annotation set for each language performed equally well as the best annotator for that language. Discussion The use of automatic preannotations, harmonized annotations, and parallel corpora helped to keep the manual annotation efforts manageable. The inter-annotator agreement scores provide a reference standard for gauging the performance of automatic annotation techniques. Conclusion To our knowledge, this is the first gold-standard corpus for biomedical concept recognition in languages other than English. Other distinguishing features are the wide variety of semantic groups that are being covered, and the diversity of text genres that were annotate

Alignment of vaccine codes using an ontology of vaccine descriptions

BACKGROUND: Vaccine information in European electronic health record (EHR) databases is represented using various clinical and database-specific coding systems and drug vocabularies. The lack of harmonization constitutes a challenge in reusing EHR data in collaborative benefit-risk studies about vaccines. METHODS: We designed an ontology of the properties that are commonly used in vaccine descriptions, called Ontology of Vaccine Descriptions (VaccO), with a dictionary for the analysis of multilingual vaccine descriptions. We implemented five algorithms for the alignment of vaccine coding systems, i.e., the identification of corresponding codes from different coding ystems, based on an analysis of the code descriptors. The algorithms were evaluated by comparing their results with manually created alignments in two reference sets including clinical and database-specific coding systems with multilingual code descriptors. RESULTS: The best-performing algorithm represented code descriptors as logical statements about entities in the VaccO ontology and used an ontology reasoner to infer common properties and identify corresponding vaccine codes. The evaluation demonstrated excellent performance of the approach (F-scores 0.91 and 0.96). CONCLUSION: The VaccO ontology allows the identification, representation, and comparison of heterogeneous descriptions of vaccines. The automatic alignment of vaccine coding systems can accelerate the readiness of EHR databases in collaborative vaccine studies

Annotation-preserving machine translation of English corpora to validate Dutch clinical concept extraction tools

Objective To explore the feasibility of validating Dutch concept extraction tools using annotated corpora translated from English, focusing on preserving annotations during translation and addressing the scarcity of non-English annotated clinical corpora.Materials and Methods Three annotated corpora were standardized and translated from English to Dutch using 2 machine translation services, Google Translate and OpenAI GPT-4, with annotations preserved through a proposed method of embedding annotations in the text before translation. The performance of 2 concept extraction tools, MedSpaCy and MedCAT, was assessed across the corpora in both Dutch and English.Results The translation process effectively generated Dutch annotated corpora and the concept extraction tools performed similarly in both English and Dutch. Although there were some differences in how annotations were preserved across translations, these did not affect extraction accuracy. Supervised MedCAT models consistently outperformed unsupervised models, whereas MedSpaCy demonstrated high recall but lower precision.Discussion Our validation of Dutch concept extraction tools on corpora translated from English was successful, highlighting the efficacy of our annotation preservation method and the potential for efficiently creating multilingual corpora. Further improvements and comparisons of annotation preservation techniques and strategies for corpus synthesis could lead to more efficient development of multilingual corpora and accurate non-English concept extraction tools.Conclusion This study has demonstrated that translated English corpora can be used to validate non-English concept extraction tools. The annotation preservation method used during translation proved effective, and future research can apply this corpus translation method to additional languages and clinical settings

Stuckelberg Axions and the Effective Action of Anomalous Abelian Models 1. A unitarity analysis of the Higgs-axion mixing

We analyze the quantum consistency of anomalous abelian models and of their effective field theories, rendered anomaly-free by a Wess-Zumino term, in the case of multiple abelian symmetries. These models involve the combined Higgs-Stuckelberg mechanism and predict a pseudoscalar axion-like field that mixes with the goldstones of the ordinary Higgs sector. We focus our study on the issue of unitarity of these models both before and after spontaneous symmetry breaking and detail the set of Ward identities and the organization of the loop expansion in the effective theory. The analysis is performed on simple models where we show, in general, the emergence of new effective vertices determined by certain anomalous interactions.Comment: 67 pages, 26 figures, replaced with revised final version, to appear on JHE

High Scale Physics Connection to LHC Data

The existing data appears to provide hints of an underlying high scale theory. These arise from the gauge coupling unification, from the smallness of the neutrino masses, and via a non-vanishing muon anomaly. An overview of high scale models is given with a view to possible tests at the Large Hadron Collider. Specifically we discuss here some generic approaches to deciphering their signatures. We also consider an out of the box possibility of a four generation model where the fourth generation is a mirror generation rather than a sequential generation. Such a scenario can lead to some remarkably distinct signatures at the LHC.Comment: 23 pages, no figures. Based on invited lectures at the 46th Course at the International School of Subnuclear Physics- Erice -Sicily: 29 August -7 September, 200

Anni 2.0: a multipurpose text-mining tool for the life sciences

Anni 2.0 provides an ontology-based interface to MEDLINE