Computationally Efficient Labeling of Cancer Related Forum Posts by Non-Clinical Text Information Retrieval

An abundance of information about cancer exists online, but categorizing and extracting useful information from it is difficult. Almost all research within healthcare data processing is concerned with formal clinical data, but there is valuable information in non-clinical data too. The present study combines methods within distributed computing, text retrieval, clustering, and classification into a coherent and computationally efficient system, that can clarify cancer patient trajectories based on non-clinical and freely available information. We produce a fully-functional prototype that can retrieve, cluster and present information about cancer trajectories from non-clinical forum posts. We evaluate three clustering algorithms (MR-DBSCAN, DBSCAN, and HDBSCAN) and compare them in terms of Adjusted Rand Index and total run time as a function of the number of posts retrieved and the neighborhood radius. Clustering results show that neighborhood radius has the most significant impact on clustering performance. For small values, the data set is split accordingly, but high values produce a large number of possible partitions and searching for the best partition is hereby time-consuming. With a proper estimated radius, MR-DBSCAN can cluster 50000 forum posts in 46.1 seconds, compared to DBSCAN (143.4) and HDBSCAN (282.3). We conduct an interview with the Danish Cancer Society and present our software prototype. The organization sees a potential in software that can democratize online information about cancer and foresee that such systems will be required in the future

Predicting Survival Time of Ball Bearings in the Presence of Censoring

Ball bearings find widespread use in various manufacturing and mechanical domains, and methods based on machine learning have been widely adopted in the field to monitor wear and spot defects before they lead to failures. Few studies, however, have addressed the problem of censored data, in which failure is not observed. In this paper, we propose a novel approach to predict the time to failure in ball bearings using survival analysis. First, we analyze bearing data in the frequency domain and annotate when a bearing fails by comparing the Kullback-Leibler divergence and the standard deviation between its break-in frequency bins and its break-out frequency bins. Second, we train several survival models to estimate the time to failure based on the annotated data and covariates extracted from the time domain, such as skewness, kurtosis and entropy. The models give a probabilistic prediction of risk over time and allow us to compare the survival function between groups of bearings. We demonstrate our approach on the XJTU and PRONOSTIA datasets. On XJTU, the best result is a 0.70 concordance-index and 0.21 integrated Brier score. On PRONOSTIA, the best is a 0.76 concordance-index and 0.19 integrated Brier score. Our work motivates further work on incorporating censored data in models for predictive maintenance.Comment: Accepted at AAAI Fall Symposium 2023 on Survival Predictio

Barriers to healthcare seeking, beliefs about cancer and the role of socio-economic position. A Danish population-based study

AbstractBackgroundCancer-related health behaviours may be affected by barriers to healthcare seeking and beliefs about cancer. The aim was to assess anticipated barriers to healthcare seeking and beliefs about cancer in a sample of the Danish population and to assess the association with socio-economic position.MethodsA population-based telephone interview with 3000 randomly sampled persons aged 30years or older was performed using the Awareness and Beliefs about Cancer measure from 31 May to 4 July 2011. The Awareness and Beliefs about Cancer measure includes statements about four anticipated barriers to healthcare seeking and three positively and three negatively framed beliefs about cancer. For all persons, register-based information on socio-economic position was obtained through Statistics Denmark.ResultsTwo anticipated barriers, worry about what the doctor might find and worry about wasting the doctor's time, were present among 27% and 15% of the respondents, respectively. Overall, a high proportion of respondents concurred with positive beliefs about cancer; fewer concurred with negative beliefs. Having a low educational level and a low household income were strongly associated with having negative beliefs about cancer.ConclusionThe fact that worry about what the doctor might find and worry about wasting the doctor's time were commonly reported barriers call for initiatives in general practice. The association between low educational level and low household income and negative beliefs about cancer might to some degree explain the negative socio-economic gradient in cancer outcome

Integration of microRNA changes in vivo identifies novel molecular features of muscle insulin resistance in type 2 diabetes

Skeletal muscle insulin resistance (IR) is considered a critical component of type II diabetes, yet to date IR has evaded characterization at the global gene expression level in humans. MicroRNAs (miRNAs) are considered fine-scale rheostats of protein-coding gene product abundance. The relative importance and mode of action of miRNAs in human complex diseases remains to be fully elucidated. We produce a global map of coding and non-coding RNAs in human muscle IR with the aim of identifying novel disease biomarkers. We profiled >47,000 mRNA sequences and >500 human miRNAs using gene-chips and 118 subjects (n = 71 patients versus n = 47 controls). A tissue-specific gene-ranking system was developed to stratify thousands of miRNA target-genes, removing false positives, yielding a weighted inhibitor score, which integrated the net impact of both up- and down-regulated miRNAs. Both informatic and protein detection validation was used to verify the predictions of in vivo changes. The muscle mRNA transcriptome is invariant with respect to insulin or glucose homeostasis. In contrast, a third of miRNAs detected in muscle were altered in disease (n = 62), many changing prior to the onset of clinical diabetes. The novel ranking metric identified six canonical pathways with proven links to metabolic disease while the control data demonstrated no enrichment. The Benjamini-Hochberg adjusted Gene Ontology profile of the highest ranked targets was metabolic (P < 7.4 × 10-8), post-translational modification (P < 9.7 × 10-5) and developmental (P < 1.3 × 10-6) processes. Protein profiling of six development-related genes validated the predictions. Brain-derived neurotrophic factor protein was detectable only in muscle satellite cells and was increased in diabetes patients compared with controls, consistent with the observation that global miRNA changes were opposite from those found during myogenic differentiation. We provide evidence that IR in humans may be related to coordinated changes in multiple microRNAs, which act to target relevant signaling pathways. It would appear that miRNAs can produce marked changes in target protein abundance in vivo by working in a combinatorial manner. Thus, miRNA detection represents a new molecular biomarker strategy for insulin resistance, where micrograms of patient material is needed to monitor efficacy during drug or life-style interventions

An open platform for seamless sensor support in healthcare for the Internet of things

Population aging and increasing pressure on health systems are two issues that demand solutions. Involving and empowering citizens as active managers of their health represents a desirable shift from the current culture mainly focused on treatment of disease, to one also focused on continuous health management and well-being. Current developments in technological areas such as the Internet of Things (IoT), lead to new technological solutions that can aid this shift in the healthcare sector. This study presents the design, development, implementation and evaluation of a platform called Common Recognition and Identification Platform (CRIP), a part of the CareStore project, which aims at supporting caregivers and citizens to manage health routines in a seamless way. Specifically, the CRIP offers sensor-based support for seamless identification of users and health devices. A set of initial requirements was defined with a focus on usability limitations and current sensor technologies. The CRIP was designed and implemented using several technologies that enable seamless integration and interaction of sensors and people, namely Near Field Communication and fingerprint biometrics for identification and authentication, Bluetooth for communication with health devices and web services for wider integration with other platforms. Two CRIP prototypes were implemented and evaluated in laboratory during a period of eight months. The evaluations consisted of identifying users and devices, as well as seamlessly configure and acquire vital data from the last. Also, the entire Carestore platform was deployed in a nursing home where its usability was evaluated with caregivers. The evaluations helped assess that seamless identification of users and seamless configuration and communication with health devices is feasible and can help enable the IoT on healthcare applications. Therefore, the CRIP and similar platforms could be transformed into a valuable enabling technology for secure and reliable IoT deployments on the healthcare sector.This research work was supported under the European Framework Program FP7 Research for the Benefit of SMEs, project FP7-SME-2012-315158-CareStore. The authors would also like to acknowledge the work of all the members of the CareStore team, without whom this work would not be possible

Privacy Labelling and the Story of Princess Privacy and the Seven Helpers

Privacy is currently in 'distress' and in need of 'rescue', much like princesses in the all-familiar fairytales. We employ storytelling and metaphors from fairytales to make reader-friendly and streamline our arguments about how a complex concept of Privacy Labeling (the 'knight in shining armour') can be a solution to the current state of Privacy (the 'princess in distress'). We give a precise definition of Privacy Labeling (PL), painting a panoptic portrait from seven different perspectives (the 'seven helpers'): Business, Legal, Regulatory, Usability and Human Factors, Educative, Technological, and Multidisciplinary. We describe a common vision, proposing several important 'traits of character' of PL as well as identifying 'undeveloped potentialities', i.e., open problems on which the community can focus. More specifically, this position paper identifies the stakeholders of the PL and their needs with regard to privacy, describing how PL should be and look like in order to address these needs. Throughout the paper, we highlight goals, characteristics, open problems, and starting points for creating, what we define as, the ideal PL. In the end we present three approaches to establish and manage PL, through: self-evaluations, certifications, or community endeavors. Based on these, we sketch a roadmap for future developments.Comment: 26 pages, 3 figure