Decoding the Encoding of Functional Brain Networks: an fMRI Classification Comparison of Non-negative Matrix Factorization (NMF), Independent Component Analysis (ICA), and Sparse Coding Algorithms

Brain networks in fMRI are typically identified using spatial independent component analysis (ICA), yet mathematical constraints such as sparse coding and positivity both provide alternate biologically-plausible frameworks for generating brain networks. Non-negative Matrix Factorization (NMF) would suppress negative BOLD signal by enforcing positivity. Spatial sparse coding algorithms ($L1$ Regularized Learning and K-SVD) would impose local specialization and a discouragement of multitasking, where the total observed activity in a single voxel originates from a restricted number of possible brain networks. The assumptions of independence, positivity, and sparsity to encode task-related brain networks are compared; the resulting brain networks for different constraints are used as basis functions to encode the observed functional activity at a given time point. These encodings are decoded using machine learning to compare both the algorithms and their assumptions, using the time series weights to predict whether a subject is viewing a video, listening to an audio cue, or at rest, in 304 fMRI scans from 51 subjects. For classifying cognitive activity, the sparse coding algorithm of $L1$ Regularized Learning consistently outperformed 4 variations of ICA across different numbers of networks and noise levels (p$<$0.001). The NMF algorithms, which suppressed negative BOLD signal, had the poorest accuracy. Within each algorithm, encodings using sparser spatial networks (containing more zero-valued voxels) had higher classification accuracy (p$<$0.001). The success of sparse coding algorithms may suggest that algorithms which enforce sparse coding, discourage multitasking, and promote local specialization may capture better the underlying source processes than those which allow inexhaustible local processes such as ICA

Disparity between General Symptom Relief and Remission Criteria in the Positive and Negative Syndrome Scale (PANSS): A Post-treatment Bifactor Item Response Theory Model.

Objective: Total scale scores derived by summing ratings from the 30-item PANSS are commonly used in clinical trial research to measure overall symptom severity, and percentage reductions in the total scores are sometimes used to document the efficacy of treatment. Acknowledging that some patients may have substantial changes in PANSS total scores but still be sufficiently symptomatic to warrant diagnosis, ratings on a subset of 8 items, referred to here as the "Remission set," are sometimes used to determine if patients' symptoms no longer satisfy diagnostic criteria. An unanswered question remains: is the goal of treatment better conceptualized as reduction in overall symptom severity, or reduction in symptoms below the threshold for diagnosis? We evaluated the psychometric properties of PANSS total scores, to assess whether having low symptom severity post-treatment is equivalent to attaining Remission. Design: We applied a bifactor item response theory (IRT) model to post-treatment PANSS ratings of 3,647 subjects diagnosed with schizophrenia assessed at the termination of 11 clinical trials. The bifactor model specified one general dimension to reflect overall symptom severity, and five domain-specific dimensions. We assessed how PANSS item discrimination and information parameters varied across the range of overall symptom severity (θ), with a special focus on low levels of symptoms (i.e., θ&lt;-1), which we refer to as "Relief" from symptoms. A score of θ=-1 corresponds to an expected PANSS item score of 1.83, a rating between "Absent" and "Minimal" for a PANSS symptom. Results: The application of the bifactor IRT model revealed: (1) 88% of total score variation was attributable to variation in general symptom severity, and only 8% reflected secondary domain factors. This implies that a general factor may provide a good indicator of symptom severity, and that interpretation is not overly complicated by multidimensionality; (2) Post-treatment, 534 individuals (about 15% of the whole sample) scored in the "Relief" range of general symptom severity, but more than twice that number (n = 1351) satisfied Remission criteria (37%). 2 in 3 Remitted patients had scores that were not in a low symptom range (corresponding to Absent or Minimal item scores); (3) PANSS items vary greatly in their ability to measure the general symptom severity dimension; while many items are highly discriminating and relatively "pure" indicators of general symptom severity (delusions, conceptual disorganization), others are better indicators of specific dimensions (blunted affect, depression). The utility of a given PANSS item for assessing a patient depended on the illness level of the patient. Conclusion: Satisfying conventional Remission criteria was not strongly associated with low levels of symptoms. The items providing the most information for patients in the symptom Relief range were Delusions, Preoccupation, Suspiciousness Persecution, Unusual Thought Content, Conceptual Disorganization, Stereotyped Thinking, Active Social Avoidance, and Lack of Judgment and Insight. Lower scores on these items (item scores ≤2) were strongly associated with having a low latent trait θ or experiencing overall symptom relief. The inter-rater agreement between Remission and Relief subjects suggested that these criteria identified different subsets of patients. Alternative subsets of items may offer better indicators of general symptom severity and provide better discrimination (and lower standard errors) for scaling individuals and judging symptom relief, where the "best" subset of items ultimately depends on the illness range and treatment phase being evaluated

Life as a Parkland Pathways Student

This podcast is the result of an ethnography assignment for Anthropology 103 at Parkland College in Champaign, IL. Students interviewed other students involved with Parkland Pathways, a competitive program that guarantees admission to the University of Illinois through Parkland College transfer credits. Four students were interviewed to discover their likes and dislikes of the program

Team Keryx: Project Lifelink

First responders such as wildland firefighters, search and rescue crews, and disaster relief workers often operate in cellular-service-denied environments. This lack of long-range communication channels greatly inhibits the spread of vital information. Project LifeLink is Team Keryx’s capstone project designed to solve this issue as well as meeting the course goals of AE 420/421. The course goals for AE 420/421 are to utilize the skills and knowledge obtained in prior classes to design, develop, build, and test an aircraft tailored to a specific challenge. The students will work together in an organized structure and process to prepare them for industry after graduation. Project LifeLink is divided into three parts: the aircraft, a communications payload that will interact with the first responders, and a ground station that assists with communication. Team Keryx is responsible for the aircraft design, and a separate computer/electrical/software engineering capstone team is concurrently designing a communications payload that will be installed into the aircraft. For this project, Team Keryx will be designing and building a wind tunnel model to verify aerodynamic predictions and a vertical flight demonstrator to verify performance and payload integration functionality

Electronic health record phenotyping improves detection and screening of type 2 diabetes in the general United States population: A cross-sectional, unselected, retrospective study

Objectives: In the United States, 25% of people with type 2 diabetes are undiagnosed. Conventional screening models use limited demographic information to assess risk. We evaluated whether electronic health record (EHR) phenotyping could improve diabetes screening, even when records are incomplete and data are not recorded systematically across patients and practice locations. Methods: In this cross-sectional, retrospective study, data from 9,948 US patients between 2009 and 2012 were used to develop a pre-screening tool to predict current type 2 diabetes, using multivariate logistic regression. We compared (1) a full EHR model containing prescribed medications, diagnoses, and traditional predictive information, (2) a restricted EHR model where medication information was removed, and (3) a conventional model containing only traditional predictive information (BMI, age, gender, hypertensive and smoking status). We additionally used a random-forests classification model to judge whether including additional EHR information could increase the ability to detect patients with Type 2 diabetes on new patient samples. Results: Using a patient's full or restricted EHR to detect diabetes was superior to using basic covariates alone (p<0.001). The random forests model replicated on out-of-bag data. Migraines and cardiac dysrhythmias were negatively associated with type 2 diabetes, while acute bronchitis and herpes zoster were positively associated, among other factors. Conclusions: EHR phenotyping resulted in markedly superior detection of type 2 diabetes in a general US population, could increase the efficiency and accuracy of disease screening, and are capable of picking up signals in real-world records

Manejo da Myzus Persicae com folhas de Jatropha Curcas e Ricinus Communis em diferentes estágios vegetativos

Although chemical insecticides are successfully used in agriculture, several problems may be related to their indiscriminate use. This has encouraged the development of alternative methods for pest insect control and societal pressure for pesticide-free products. The jatropha (J. curcas) and castor bean (Ricinus communis) are plants that have shown insecticidal potential. Thus, the objective of this work was to study the effects of leaves of R. communis and J. curcas of different ages on the cabbage aphid (Myzus persicae). Five solution concentrations and five leaf types were used. Each treatment consisted of ten individuals M. persicae, kept in Petri dishes (10.0 x 1.2 cm), about kale leaf discs. Each Petri dish was considered a repeat, totaling ten. An airbrush connected to a compressor calibrated at constant pressure and 5 mL of solution per repetition was used for direct application. The cabbage discs were immersed in the different treatments for five seconds and offered to aphids in the indirect application. For both tests, evaluations were performed 72 hours after application. Data were submitted to linear regression analysis and means test. There was an interaction between the application type, leaf type, and concentrations for both plants. We argue that at their different ages, jatropha and castor bean leaves have insecticidal potential in the management of M. persicae.Embora os inseticidas químicos sejam usados ​​com sucesso na agricultura, vários problemas podem estar relacionados ao seu uso indiscriminado. Isso tem incentivado o desenvolvimento de métodos alternativos para o controle de pragas e insetos, bem como a pressão social por produtos livres de pesticidas. A jatropha (J. curcas) e a mamona (Ricinus communis) são plantas que apresentam potencial inseticida. Assim, o objetivo deste trabalho foi estudar folhas de J. curcas e R. communis de diferentes idades sobre o pulgão-da-couve (Myzus persicae). Foram utilizadas cinco concentrações de solução e cinco tipos de folhas. Cada tratamento consistiu de dez indivíduos M. persicae, mantidos em placas de Petri (10,0 x    1,2 cm), sobre discos de folhas de couve. Cada placa de Petri foi considerada uma repetição, totalizando dez. Para aplicação direta, utilizou-se um aerógrafo conectado a um compressor calibrado a pressão constante e 5 mL de solução por repetição. Na aplicação indireta, os discos de repolho foram imersos por cinco segundos nos diferentes tratamentos e oferecidos aos pulgões. Para ambos os testes, as avaliações foram realizadas 72 horas após a aplicação. Os dados foram submetidos à análise de regressão linear e teste de médias. Para ambas as plantas houve interação entre o tipo de aplicação, tipo de folha e concentrações. Reiteramos que as folhas de pinhão-manso e mamona, em suas diferentes idades, apresentam potencial inseticida no manejo de M. persicae

The common murre (Uria aalge), an auk seabird, reacts to underwater sound

Author Posting. © Acoustical Society of America, 2020. This article is posted here by permission of Acoustical Society of America for personal use, not for redistribution. The definitive version was published in Journal of the Acoustical Society of America 147(6), (2020): 4069, doi:10.1121/10.0001400.Marine mammals have fine-tuned hearing abilities, which makes them vulnerable to human-induced sounds from shipping, sonars, pile drivers, and air guns. Many species of marine birds, such as penguins, auks, and cormorants, find their food underwater where light is often limited, suggesting sound detection may play a vital role. Yet, for most marine birds, it is unknown whether they are using, and can thereby be affected by, underwater sound. The authors conducted a series of playback experiments to test whether Alcid seabirds responded to and were disrupted by, underwater sound. Underwater broadband sound bursts and mid-frequency naval 53 C sonar signals were presented to two common murres (Uria aalge) in a quiet pool. The received sound pressure levels varied from 110 to 137 dB re 1 μPa. Both murres showed consistent reactions to sounds of all intensities, as compared to no reactions during control trials. For one of the birds, there was a clearly graded response, so that more responses were found at higher received levels. The authors' findings indicate that common murres may be affected by, and therefore potentially also vulnerable to, underwater noise. The effect of man-made noise on murres, and possibly other marine birds, requires more thorough consideration.This project was funded by the U. S. Navy's Living Marine Resources Program (BAA N39433015R7203) and Woods Hole Oceanographic Institution. Birds were loaned from Copenhagen Zoo. Work was conducted under permission from the WHOI Institutional Animal Care and Use Committee, and animal permit to University of Southern Denmark No. 2300-50120-00003-09 from the Danish Ministry of Food and Agriculture. Statistical analysis was assisted by Simeon Smeele (MPI Konstanz, Germany) and Owen Jones (University of Southern Denmark).2020-12-2

Defining and distinguishing infant behavioral states using acoustic cry analysis: is colic painful?

BackgroundTo characterize acoustic features of an infant's cry and use machine learning to provide an objective measurement of behavioral state&nbsp;in a cry-translator. To apply the&nbsp;cry-translation algorithm to colic hypothesizing that these cries sound painful.MethodsAssessment of 1000 cries in a mobile app (ChatterBabyTM). Training a cry-translation&nbsp;algorithm by evaluating &gt;6000 acoustic features to predict whether infant cry was due to a pain (vaccinations, ear-piercings), fussy, or hunger states. Using the algorithm to predict the behavioral state of infants with reported colic.ResultsThe cry-translation&nbsp;algorithm was 90.7% accurate for identifying pain cries, and achieved 71.5% accuracy in discriminating cries from fussiness, hunger, or pain. The ChatterBaby&nbsp;cry-translation&nbsp;algorithm overwhelmingly predicted that colic cries were most likely from pain, compared to fussy and hungry states. Colic cries had average pain ratings of 73%, significantly greater than the pain measurements found in fussiness and hunger (p &lt; 0.001, 2-sample t test). Colic cries outranked pain cries by measures of acoustic intensity, including energy, length of voiced periods, and fundamental frequency/pitch, while fussy and hungry cries showed reduced intensity measures compared to pain and colic.ConclusionsAcoustic features of cries are consistent across a diverse infant population and can be utilized as objective markers of pain, hunger, and fussiness. The&nbsp;ChatterBaby algorithm detected significant acoustic similarities between colic and painful cries, suggesting that they may share a neuronal pathway

The association of cold weather and all-cause and cause-specific mortality in the island of Ireland between 1984 and 2007

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.This article has been made available through the Brunel Open Access Publishing Fund.Background This study aimed to assess the relationship between cold temperature and daily mortality in the Republic of Ireland (ROI) and Northern Ireland (NI), and to explore any differences in the population responses between the two jurisdictions. Methods A time-stratified case-crossover approach was used to examine this relationship in two adult national populations, between 1984 and 2007. Daily mortality risk was examined in association with exposure to daily maximum temperatures on the same day and up to 6 weeks preceding death, during the winter (December-February) and cold period (October-March), using distributed lag models. Model stratification by age and gender assessed for modification of the cold weather-mortality relationship. Results In the ROI, the impact of cold weather in winter persisted up to 35 days, with a cumulative mortality increase for all-causes of 6.4% (95%CI=4.8%-7.9%) in relation to every 1oC drop in daily maximum temperature, similar increases for cardiovascular disease (CVD) and stroke, and twice as much for respiratory causes. In NI, these associations were less pronounced for CVD causes, and overall extended up to 28 days. Effects of cold weather on mortality increased with age in both jurisdictions, and some suggestive gender differences were observed. Conclusions The study findings indicated strong cold weather-mortality associations in the island of Ireland; these effects were less persistent, and for CVD mortality, smaller in NI than in the ROI. Together with suggestive differences in associations by age and gender between the two Irish jurisdictions, the findings suggest potential contribution of underlying societal differences, and require further exploration. The evidence provided here will hope to contribute to the current efforts to modify fuel policy and reduce winter mortality in Ireland