Large-scale zero-shot learning in the wild: classifying zoological illustrations

In this paper we analyse the classification of zoological illustrations. Historically, zoological illustrations were the modus operandi for the documentation of new species, and now serve as crucial sources for long-term ecological and biodiversity research. By employing computational methods for classification, the data can be made amenable to research. Automated species identification is challenging due to the long-tailed nature of the data, and the millions of possible classes in the species taxonomy. Success commonly depends on large training sets with many examples per class, but images from only a subset of classes are digitally available, and many images are unlabelled, since labelling requires domain expertise. We explore zero-shot learning to address the problem, where features are learned from classes with medium to large samples, which are then transferred to recognise classes with few or no training samples. We specifically explore how distributed, multi-modal background knowledge from data providers, such as the Global Biodiversity Information Facility (GBIF), iNaturalist, and the Biodiversity Heritage Library (BHL), can be used to share knowledge between classes for zero-shot learning. We train a prototypical network for zero-shot classification, and introduce fused prototypes (FP) and hierarchical prototype loss (HPL) to optimise the model. Finally, we analyse the performance of the model for use in real-world applications. The experimental results are encouraging, indicating potential for use of such models in an expert support system, but also express the difficulty of our task, showing a necessity for research into computer vision methods that are able to learn from small samples.Computer Systems, Imagery and Medi

Semantic annotation of natural history collections

Large collections of historical biodiversity expeditions are housed in natural history museums throughout the world. Potentially they can serve as rich sources of data for cultural historical and biodiversity research. However, they exist as only partially catalogued specimen repositories and images of unstructured, non-standardised, hand-written text and drawings. Although many archival collections have been digitised, disclosing their content is challenging. They refer to historical place names and outdated taxonomic classifications and are written in multiple languages. Efforts to transcribe the hand-written text can make the content accessible, but semantically describing and interlinking the content would further facilitate research. We propose a semantic model that serves to structure the named entities in natural history archival collections. In addition, we present an approach for the semantic annotation of these collections whilst documenting their provenance. This approach serves as an initial step for an adaptive learning approach for semi-automated extraction of named entities from natural history archival collections. The applicability of the semantic model and the annotation approach is demonstrated using image scans from a collection of 8, 000 field book pages gathered by the Committee for Natural History of the Netherlands Indies between 1820 and 1850, and evaluated together with domain experts from the field of natural and cultural history.Computer Systems, Imagery and Medi

Age at menopause and lung function: a Mendelian randomisation study

In observational studies, early menopause is associated with lower forced vital capacity (FVC) and a higher risk of spirometric restriction, but not airflow obstruction. It is, however, unclear if this association is causal. We therefore used a Mendelian randomisation (MR) approach, which is not affected by classical confounding, to assess the effect of age at natural menopause on lung function.We included 94\u200a742 naturally post-menopausal women from the UK Biobank and performed MR analyses on the effect of age at menopause on forced expiratory volume in 1\u2005s (FEV1), FVC, FEV1/FVC, spirometric restriction (FV

The 7th National Audit Project (NAP7) baseline survey of individual anaesthetists: preparedness for and experiences of peri-operative cardiac arrest

The Royal College of Anaesthetists' 7th National Audit Project baseline survey assessed knowledge, attitudes, practices and experiences of peri-operative cardiac arrests among UK anaesthetists and Anaesthesia Associates. We received 10,746 responses, representing a 71% response rate. In-date training in adult and paediatric advanced life support was reported by 9646 (90%) and 7125 (66%) anaesthetists, respectively. There were 8994 (84%) respondents who were confident in leading a peri-operative cardiac arrest, with males more confident than females, but only 5985 (56%) were confident in leading a debrief and 7340 (68%) communicating with next of kin. In the previous two years, 4806 (46%) respondents had managed at least one peri-operative cardiac arrest, of which 321 (7%) and 189 (4%) of these events involved a child or an obstetric patient, respectively. Respondents estimated the most common causes of peri-operative cardiac arrest to be hypovolaemia, hypoxaemia and cardiac ischaemia, with haemorrhage coming fifth. However, the most common reported causes for the most recently attended peri-operative cardiac arrest were haemorrhage; (927, 20%); anaphylaxis (474, 10%); and cardiac ischaemia (397, 9%). Operating lists or shifts were paused or stopped after 1330 (39%) cardiac arrests and 1693 (38%) respondents attended a debrief, with ‘hot’ debriefs most common. Informal wellbeing support was relatively common (2458, 56%) and formal support was uncommon (472, 11%). An impact on future care delivery was reported by 196 (4%) anaesthetists, most commonly a negative psychological impact. Management of a peri-operative cardiac arrest during their career was reported by 8654 (85%) respondents. The overall impact on professional life was more often judged positive (2630, 30%) than negative (1961, 23%), but impact on personal life was more often negative

A cross-omics integrative study of metabolic signatures of chronic obstructive pulmonary disease.

BACKGROUND: Chronic obstructive pulmonary disease (COPD) is a common lung disorder characterized by persistent and progressive airflow limitation as well as systemic changes. Metabolic changes in blood may help detect COPD in an earlier stage and predict prognosis. METHODS: We conducted a comprehensive study of circulating metabolites, measured by proton Nuclear Magnetic Resonance Spectroscopy, in relation with COPD and lung function. The discovery sample consisted of 5557 individuals from two large population-based studies in the Netherlands, the Rotterdam Study and the Erasmus Rucphen Family study. Significant findings were replicated in 12,205 individuals from the Lifelines-DEEP study, FINRISK and the Prospective Investigation of the Vasculature in Uppsala Seniors (PIVUS) studies. For replicated metabolites further investigation of causality was performed, utilizing genetics in the Mendelian randomization approach. RESULTS: There were 602 cases of COPD and 4955 controls used in the discovery meta-analysis. Our logistic regression results showed that higher levels of plasma Glycoprotein acetyls (GlycA) are significantly associated with COPD (OR = 1.16, P = 5.6 × 10- 4 in the discovery and OR = 1.30, P = 1.8 × 10- 6 in the replication sample). A bi-directional two-sample Mendelian randomization analysis suggested that circulating blood GlycA is not causally related to COPD, but that COPD causally increases GlycA levels. Using the prospective data of the same sample of Rotterdam Study in Cox-regression, we show that the circulating GlycA level is a predictive biomarker of COPD incidence (HR = 1.99, 95%CI 1.52-2.60, comparing those in the highest and lowest quartile of GlycA) but is not significantly associated with mortality in COPD patients (HR = 1.07, 95%CI 0.94-1.20). CONCLUSIONS: Our study shows that circulating blood GlycA is a biomarker of early COPD pathology

Methods of the 7th National Audit Project (NAP7) of the Royal College of Anaesthetists: peri-operative cardiac arrest

Cardiac arrest in the peri-operative period is rare but associated with significant morbidity and mortality. Current reporting systems do not capture many such events, so there is an incomplete understanding of incidence and outcomes. As peri-operative cardiac arrest is rare, many hospitals may only see a small number of cases over long periods, and anaesthetists may not be involved in such cases for years. Therefore, a large-scale prospective cohort is needed to gain a deep understanding of events leading up to cardiac arrest, management of the arrest itself and patient outcomes. Consequently, the Royal College of Anaesthetists chose peri-operative cardiac arrest as the 7th National Audit Project topic. The study was open to all UK hospitals offering anaesthetic services and had a three-part design. First, baseline surveys of all anaesthetic departments and anaesthetists in the UK, examining respondents' prior peri-operative cardiac arrest experience, resuscitation training and local departmental preparedness. Second, an activity survey to record anonymised details of all anaesthetic activity in each site over 4 days, enabling national estimates of annual anaesthetic activity, complexity and complication rates. Third, a case registry of all instances of peri-operative cardiac arrest in the UK, reported confidentially and anonymously, over 1 year starting 16 June 2021, followed by expert review using a structured process to minimise bias. The definition of peri-operative cardiac arrest was the delivery of five or more chest compressions and/or defibrillation in a patient having a procedure under the care of an anaesthetist. The peri-operative period began with the World Health Organization 'sign-in' checklist or first hands-on contact with the patient and ended either 24 h after the patient handover (e.g. to the recovery room or intensive care unit) or at discharge if this occured earlier than 24 h. These components described the epidemiology of peri-operative cardiac arrest in the UK and provide a basis for developing guidelines and interventional studies