4,543 results match your criteria integrating existing

scConsensus: combining supervised and unsupervised clustering for cell type identification in single-cell RNA sequencing data.

BMC Bioinformatics 2021 Apr 12;22(1):186. Epub 2021 Apr 12.

Laboratory of Systems Biology and Data Analytics, Genome Institute of Singapore, 60 Biopolis Street, Singapore, 138672, Singapore.

Background: Clustering is a crucial step in the analysis of single-cell data. Clusters identified in an unsupervised manner are typically annotated to cell types based on differentially expressed genes. In contrast, supervised methods use a reference panel of labelled transcriptomes to guide both clustering and cell type identification. Read More

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The lipidome in nonalcoholic fatty liver disease: Actionable targets.

J Lipid Res 2021 Apr 9:100073. Epub 2021 Apr 9.

Universidad de Buenos Aires, Facultad de Medicina, Instituto de Investigaciones Médicas A Lanari, Ciudad Autónoma de Buenos Aires, Argentina; Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET)-Universidad de Buenos Aires, Instituto of Investigaciones Médicas (IDIM), Departamento de Hepatología Clínica y Molecular, Ciudad Autónoma de Buenos Aires, Argentina. Electronic address:

Nonalcoholic fatty liver disease (NAFLD) has become the most prevalent chronic liver disease. Recent technological advances, combined with OMICs experiments and explorations involving different biological samples, have uncovered vital aspects of NAFLD biology. In this review, we summarize recent work by our group and others that expands what is known about the role of lipidome in NAFLD pathogenesis. Read More

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Congenital Diaphragmatic Hernia Management: A Systematic Review and Care Pathway Description Including Volume-Targeted Ventilation.

Adv Neonatal Care 2021 Apr 8. Epub 2021 Apr 8.

Divisions of Neonatology (Ms Duncan and Dr Scottoline) and Pediatric Surgery (Drs Polites and Krishnaswami), Oregon Health and Science University, Portland.

Background: Although it is well established that standardized treatment protocols improve outcomes for infants with congenital diaphragmatic hernia (CDH), there remains variance between existing protocols.

Purpose: The purpose of this article was to review current literature on protocols for CDH management in the preoperative period and to describe a care pathway integrating best practice elements from existing literature with volume-targeted ventilation strategies previously in place at a major tertiary care center in the Pacific Northwestern United States.

Methods/search Strategy: A systematic review of literature was performed according to PRISMA guidelines to identify current publications on CDH protocols and examine them for similarities and differences, particularly regarding ventilation strategies. Read More

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Integrating multi-scale neighbouring topologies and cross-modal similarities for drug-protein interaction prediction.

Brief Bioinform 2021 Apr 12. Epub 2021 Apr 12.

Center for Frontier Medical Engineering, Chiba University, Chiba 2638522, Japan.

Motivation: Identifying the proteins that interact with drugs can reduce the cost and time of drug development. Existing computerized methods focus on integrating drug-related and protein-related data from multiple sources to predict candidate drug-target interactions (DTIs). However, multi-scale neighboring node sequences and various kinds of drug and protein similarities are neither fully explored nor considered in decision making. Read More

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Driver monitoring systems (DMS): The future of impaired driving management?

Traffic Inj Prev 2021 Apr 8:1-9. Epub 2021 Apr 8.

Centre for Human Psychopharmacology, Swinburne University of Technology, Hawthorn, Australia.

Objective: Driver monitoring systems (DMS) are the next generation of vehicle safety technology. Broadly, these refer to the embedded, aftermarket wearable or vehicle-mounted devices that collect observable information about the operator to make real-time assessment of their capacity to perform the driving task. Integrating biobehavioral monitoring (primarily ocular metrics) with driving performance assessments, these systems function to infer driver state in real time to identify operator conditions that negatively affect driving (such as fatigue, inattention, or distraction). Read More

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Implementing care coordination in a large dental care organization in the United States by upskilling front office personnel.

Hum Resour Health 2021 Apr 7;19(1):48. Epub 2021 Apr 7.

Department of Preventive and Restorative Dental Sciences, School of Dentistry, University of California, San Francisco, 490 Illinois Street, Floor 11, Box 1242, San Francisco, CA, 94143, United States of America.

Background: Care coordination is a key strategy used to improve health outcomes and efficiency, yet there are limited examples in dentistry. A large dental accountable care organization piloted care coordination by retraining existing administrative staff to coordinate the care of high-risk patients. Following the pilot's success, a formal "dental care advocate" (DCA) role was integrated system-wide. Read More

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"The SOFTVETS Competence Model" - a preliminary project report.

GMS J Med Educ 2021 15;38(3):Doc50. Epub 2021 Mar 15.

University of Zagreb, Faculty of Veterinary Medicine, Zagreb, Croatia.

Recent developments measured using statistics and surveys among veterinarians show that integrating key competence training into veterinary education is becoming increasingly important. This article describes the collaborative development process of the first work package within the SOFTVETS project. The SOFTVETS project aims to create a competence model and an ideal version of a soft skills curriculum that can be implemented in veterinary higher education throughout Europe. Read More

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Ten years of collaborative progress in the Quest for Orthologs.

Mol Biol Evol 2021 Apr 2. Epub 2021 Apr 2.

Department of Theoretical Biology, National Institute for Basic Biology, National Institutes of Natural Sciences, Okazaki, Aichi, 444-8585, Japan.

Accurate determination of the evolutionary relationships between genes is a foundational challenge in biology. Homology - evolutionary relatedness - is in many cases readily determined based on sequence similarity analysis. By contrast, whether or not two genes directly descended from a common ancestor by a speciation event (orthologs) or duplication event (paralogs) is more challenging, yet provides critical information on the history of a gene. Read More

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Costs of integrating hypertension care into HIV care in rural East African clinics.

AIDS 2021 May;35(6):911-919

Division of HIV, Infectious Diseases & Global Medicine, University of California, San Francisco, California, USA.

Objective: Sub-Saharan Africa faces twin epidemics of HIV and noncommunicable diseases including hypertension. Integrating hypertension care into chronic HIV care is a global priority, but cost estimates are lacking. In the SEARCH Study, we performed population-level HIV/hypertension testing, and offered integrated streamlined chronic care. Read More

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An application of Systematic Anomalous Case Analysis to improve models predicting contraceptive use in the Philippines.

J Biosoc Sci 2021 Apr 5:1-14. Epub 2021 Apr 5.

Department of Community Health Sciences, Fielding School of Public Health, University of California, Los Angeles, CA, USA.

Amidst persistently high unintended pregnancy rates and lags in contraceptive use, novel methodological approaches may prove useful in investigating sexual and reproductive health outcomes in the Philippines. Systematic Anomalous Case Analysis (SACA) - a mixed-methods technique - was employed to examine predictors of women's lifetime contraceptive use. First, multivariable, longitudinal Poisson regression models predicted fertility and sexual debut using the 1998-2009 Cebu Longitudinal Health and Nutrition Surveys (CLHNS), then regression outliers and normative cases were used to identify 48 participants for in-depth interviews (2013-2014) for further examination. Read More

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Online supervised attention-based recurrent depth estimation from monocular video.

PeerJ Comput Sci 2020 23;6:e317. Epub 2020 Nov 23.

School of Data Analysis and Artificial Intelligence, HSE University, Moscow, Russia.

Autonomous driving highly depends on depth information for safe driving. Recently, major improvements have been taken towards improving both supervised and self-supervised methods for depth reconstruction. However, most of the current approaches focus on single frame depth estimation, where quality limit is hard to beat due to limitations of supervised learning of deep neural networks in general. Read More

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November 2020

Adaptations of data mining methodologies: a systematic literature review.

PeerJ Comput Sci 2020 25;6:e267. Epub 2020 May 25.

Institute of Computer Science, University of Tartu, Tartu, Estonia.

The use of end-to-end data mining methodologies such as CRISP-DM, KDD process, and SEMMA has grown substantially over the past decade. However, little is known as to how these methodologies are used in practice. In particular, the question of whether data mining methodologies are used 'as-is' or adapted for specific purposes, has not been thoroughly investigated. Read More

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A Novel Pyramid Network with Feature Fusion and Disentanglement for Object Detection.

Comput Intell Neurosci 2021 15;2021:6685954. Epub 2021 Mar 15.

School of Computer Science, South China Normal University, Guangzhou 510631, China.

In order to alleviate the scale variation problem in object detection, many feature pyramid networks are developed. In this paper, we rethink the issues existing in current methods and design a more effective module for feature fusion, called multiflow feature fusion module (MFM). We first construct gate modules and multiple information flows in MFM to avoid information redundancy and enhance the completeness and accuracy of information transfer between feature maps. Read More

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[The role of structural and functional insular cortex abnormalities in body perception disturbance in schizophrenia].

J Tran The

Encephale 2021 Apr 1. Epub 2021 Apr 1.

Faculté de biologie et de médecine, université de Lausanne, rue du Bugnon 21, 1005 Lausanne, Suisse; Institut humanités, sciences et société, université de Paris, 5, rue Thomas-Mann, 75013 Paris, France; Fondation Agalma, campus biotech, chemin des Mines 9, 1202 Genève, Suisse. Electronic address:

Objectives: The present study focuses on a review of scientific literature upon structural and functional abnormalities of the insular cortex found in schizophrenic patients in order to emphasize links between the pathophysiology of this brain region and the symptomatology of schizophrenia.

Methods: From a review based upon journal articles published since 2002 and indexed into the Pubmed data base, we first studied the main findings on the function of the insular cortex and its involvement in the perception and representation of the body states, as it is one of the main neural substrates for the interoception sense. Then, we highlighted various structural abnormalities found in schizophrenic patients in order to study links existing between dysfunctions in the insular cortex and an altered perception of body states and of self-awareness in schizophrenia. Read More

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Converging Robotic Technologies in Targeted Neural Rehabilitation: A Review of Emerging Solutions and Challenges.

Sensors (Basel) 2021 Mar 16;21(6). Epub 2021 Mar 16.

Lab of Medical Physics, School of Medicine, Faculty of Health Sciences, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.

Recent advances in the field of neural rehabilitation, facilitated through technological innovation and improved neurophysiological knowledge of impaired motor control, have opened up new research directions. Such advances increase the relevance of existing interventions, as well as allow novel methodologies and technological synergies. New approaches attempt to partially overcome long-term disability caused by spinal cord injury, using either invasive bridging technologies or noninvasive human-machine interfaces. Read More

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Plant-Based Cheeses: A Systematic Review of Sensory Evaluation Studies and Strategies to Increase Consumer Acceptance.

Foods 2021 Mar 30;10(4). Epub 2021 Mar 30.

Department of Food Science, University of Massachusetts, Amherst, MA 01003, USA.

Animal protein provides unique sensory and textural properties to foods that are not easily replicated when replaced with plant-based alternatives. Food scientists and researchers are currently developing innovative approaches to improve their physical and sensory characteristics in plant-based analogs. In terms of plant-based cheese substitutes (PBCS), soy is the most commonly used plant-based protein but is associated with undesirable sensory attributes (i. Read More

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Understanding Traditional Chinese Medicine Therapeutics: An Overview of the Basics and Clinical Applications.

Healthcare (Basel) 2021 Mar 1;9(3). Epub 2021 Mar 1.

ICBAS-Institute of Biomedical Sciences Abel Salazar, University of Porto, 4050-313 Porto, Portugal.

Traditional Chinese medicine (TCM) is a systematic healthcare system developed from clinical experience based on a scientific model of regulation. TCM relies on unique theories and practices to treat diseases and enhance health. These practices include Chinese herbal medicine and dietetics, acupuncture and moxibustion, and other non-medication therapies such as Chinese bodywork or manual therapy, known as "Tuina", and traditional biofeedback exercises, known as "Qigong" and "Taijiquan". Read More

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Edge-Enhanced with Feedback Attention Network for Image Super-Resolution.

Chunmei Fu Yong Yin

Sensors (Basel) 2021 Mar 15;21(6). Epub 2021 Mar 15.

School of Microelectronics and Communication Engineering, Chongqing University, Chongqing 400044, China.

Significant progress has been made in single image super-resolution (SISR) based on deep convolutional neural networks (CNNs). The attention mechanism can capture important features well, and the feedback mechanism can realize the fine-tuning of the output to the input. However, they have not been reasonably applied in the existing deep learning-based SISR methods. Read More

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Approaches to Integrating Metabolomics and Multi-Omics Data: A Primer.

Takoua Jendoubi

Metabolites 2021 Mar 21;11(3). Epub 2021 Mar 21.

Department of Statistical Science, University College London, London WC1E 6BT, UK.

Metabolomics deals with multiple and complex chemical reactions within living organisms and how these are influenced by external or internal perturbations. It lies at the heart of omics profiling technologies not only as the underlying biochemical layer that reflects information expressed by the genome, the transcriptome and the proteome, but also as the closest layer to the phenome. The combination of metabolomics data with the information available from genomics, transcriptomics, and proteomics offers unprecedented possibilities to enhance current understanding of biological functions, elucidate their underlying mechanisms and uncover hidden associations between omics variables. Read More

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PredNTS: Improved and Robust Prediction of Nitrotyrosine Sites by Integrating Multiple Sequence Features.

Int J Mol Sci 2021 Mar 8;22(5). Epub 2021 Mar 8.

Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680-4 Kawazu, Iizuka, Fukuoka 820-8502, Japan.

Nitrotyrosine, which is generated by numerous reactive nitrogen species, is a type of protein post-translational modification. Identification of site-specific nitration modification on tyrosine is a prerequisite to understanding the molecular function of nitrated proteins. Thanks to the progress of machine learning, computational prediction can play a vital role before the biological experimentation. Read More

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IPCARF: improving lncRNA-disease association prediction using incremental principal component analysis feature selection and a random forest classifier.

BMC Bioinformatics 2021 Apr 1;22(1):175. Epub 2021 Apr 1.

School of Computer Science, Qufu Normal University, Rizhao, China.

Background: Identifying lncRNA-disease associations not only helps to better comprehend the underlying mechanisms of various human diseases at the lncRNA level but also speeds up the identification of potential biomarkers for disease diagnoses, treatments, prognoses, and drug response predictions. However, as the amount of archived biological data continues to grow, it has become increasingly difficult to detect potential human lncRNA-disease associations from these enormous biological datasets using traditional biological experimental methods. Consequently, developing new and effective computational methods to predict potential human lncRNA diseases is essential. Read More

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