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Clinical informatics

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https://www.readbyqxmd.com/read/29154853/standards-and-guidelines-for-validating-next-generation-sequencing-bioinformatics-pipelines-a-joint-recommendation-of-the-association-for-molecular-pathology-and-the-college-of-american-pathologists
#1
REVIEW
Somak Roy, Christopher Coldren, Arivarasan Karunamurthy, Nefize S Kip, Eric W Klee, Stephen E Lincoln, Annette Leon, Mrudula Pullambhatla, Robyn L Temple-Smolkin, Karl V Voelkerding, Chen Wang, Alexis B Carter
Bioinformatics pipelines are an integral component of next-generation sequencing (NGS). Processing raw sequence data to detect genomic alterations has significant impact on disease management and patient care. Because of the lack of published guidance, there is currently a high degree of variability in how members of the global molecular genetics and pathology community establish and validate bioinformatics pipelines. Improperly developed, validated, and/or monitored pipelines may generate inaccurate results that may have negative consequences for patient care...
November 17, 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/29141839/patient-health-record-systems-scope-and-functionalities-literature-review-and-future-directions
#2
REVIEW
Lina Bouayad, Anna Ialynytchev, Balaji Padmanabhan
BACKGROUND: A new generation of user-centric information systems is emerging in health care as patient health record (PHR) systems. These systems create a platform supporting the new vision of health services that empowers patients and enables patient-provider communication, with the goal of improving health outcomes and reducing costs. This evolution has generated new sets of data and capabilities, providing opportunities and challenges at the user, system, and industry levels. OBJECTIVE: The objective of our study was to assess PHR data types and functionalities through a review of the literature to inform the health care informatics community, and to provide recommendations for PHR design, research, and practice...
November 15, 2017: Journal of Medical Internet Research
https://www.readbyqxmd.com/read/29136101/identification-of-topological-features-in-renal-tumor-microenvironment-associated-with-patient-survival
#3
Jun Cheng, Xiaokui Mo, Xusheng Wang, Anil Parwani, Qianjin Feng, Kun Huang
Motivation: As a highly heterogeneous disease, the progression of tumor is not only achieved by unlimited growth of the tumor cells, but also supported, stimulated, and nurtured by the microenvironment around it. However traditional qualitative and/or semi-quantitative parameters obtained by pathologist's visual examination have very limited capability to capture this interaction between tumor and its microenvironment. With the advent of digital pathology, computerized image analysis may provide a better tumor characterization and give new insights into this problem...
November 9, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29132635/need-of-informatics-in-designing-interoperable-clinical-registries
#4
Majid Rastegar-Mojarad, Sunghwan Sohn, Liwei Wang, Feichen Shen, Troy C Bleeker, William A Cliby, Hongfang Liu
Clinical registries are designed to collect information relating to a particular condition for research or quality improvement. Intuitively, informatics in the area of data management and extraction plays a central role in clinical registries. Due to various reasons such as lack of informatics awareness or expertise, there may be little informatics involvement in designing clinical registries. In this paper, we studied a clinical registry from two critical perspectives, data quality and interoperability, where informatics can play a role...
December 2017: International Journal of Medical Informatics
https://www.readbyqxmd.com/read/29132619/a-statistical-analysis-based-recommender-model-for-heart-disease-patients
#5
Anam Mustaqeem, Syed Muhammad Anwar, Abdul Rashid Khan, Muhammad Majid
OBJECTIVES: An intelligent information technology based system could have a positive impact on the life-style of patients suffering from chronic diseases by providing useful health recommendations. In this paper, we have proposed a hybrid model that provides disease prediction and medical recommendations to cardiac patients. The first part aims at implementing a prediction model, that can identify the disease of a patient and classify it into one of the four output classes i.e., non-cardiac chest pain, silent ischemia, angina, and myocardial infarction...
December 2017: International Journal of Medical Informatics
https://www.readbyqxmd.com/read/29129497/frailty-and-clinical-outcomes-in-advanced-heart-failure-patients-undergoing-left-ventricular-assist-device-implantation-a-systematic-review-and-meta-analysis
#6
Gary Tse, Mengqi Gong, Sunny Hei Wong, William K K Wu, George Bazoukis, Konstantinos Lampropoulos, Wing Tak Wong, Yunlong Xia, Martin C S Wong, Tong Liu, Jean Woo
BACKGROUND: Frailty has been identified as a risk factor for adverse clinical outcomes after cardiac intervention or surgery. However, whether it increases the risk of adverse outcomes in patients undergoing left ventricular assist device (LVAD) therapy has been controversial. Therefore, we conducted a systematic review and meta-analysis of the frailty measures and clinical outcomes of length of stay and mortality in this setting. METHODS: PubMed and Embase were searched until September 11, 2017, for studies evaluating the association between frailty and clinical outcomes in advanced heart failure patients undergoing LVAD implantation...
November 9, 2017: Journal of the American Medical Directors Association
https://www.readbyqxmd.com/read/29122503/social-media-scholarship-and-alternative-metrics-for-academic-promotion-and%C3%A2-tenure
#7
Daniel Cabrera, Durga Roy, Margaret S Chisolm
Traditionally, scholars focused their efforts in the domains of clinical care, research, and education; however, the last decade has witnessed the rise of novel areas of development such as innovation, quality improvement, informatics, and recently, digital scholarship. Academic institutions adapted and began considering these fields for academic promotion and tenure. Social media has become a critical space for the dissemination of knowledge and outreach to community and policy makers and also for the creation of communities of practice...
November 6, 2017: Journal of the American College of Radiology: JACR
https://www.readbyqxmd.com/read/29121852/an-informatics-approach-to-interprofessional-management-of-low-back-pain-a-feasibility-study-using-the-omaha-system
#8
Robin R Austin, Karen A Monsen, Craig Schulz
BACKGROUND: Low back pain (LBP) is a complex health care issue that often involves multiple providers across various care settings. Health information technology (HIT) holds promise to improve care delivery by providing infrastructure for communication, clinical documentation, and management of patient data. Standardized terminology is essential for interoperability and enables evaluation of clinical data generated by documentation in an electronic health record (EHR). OBJECTIVE: The purpose of this study was to demonstrate the feasibility of mapping evidence-based practice for conservative management of low back pain to the Omaha System and foster inter-professional communication and collaboration among diverse practitioners and patients...
October 6, 2017: Journal of Innovation in Health Informatics
https://www.readbyqxmd.com/read/29094320/rare-diseases-drug-discovery-and-informatics-resource
#9
REVIEW
Mingzhu Zhao, Dong-Qing Wei
A rare disease refers to any disease with very low prevalence individually. Although the impacted population is small for a single disease, more than 6000 rare diseases affect millions of people across the world. Due to the small market size, high cost and possibly low return on investment, only in recent years, the research and development of rare disease drugs have gradually risen globally, in several domains including gene therapy, enzyme replacement therapy, and drug repositioning. Due to the complex etiology and heterogeneous symptoms, there is a large gap between basic research and patient unmet needs for rare disease drug discovery...
November 1, 2017: Interdisciplinary Sciences, Computational Life Sciences
https://www.readbyqxmd.com/read/29093827/obesity-in-individuals-with-schizophrenia-a-case-controlled-study-in-scotland
#10
Isobel M Cameron, Ross J Hamilton, Gordon Fernie, Stephen A MacGillivray
Background: Despite extensive clinical concern about rates of obesity in patients with schizophrenia, there is little evidence of the extent of this problem at a population level. Aims: To estimate levels of obesity in a national population sample by comparing patients with schizophrenia with matched controls. Method: We calculated levels of obesity for each patient with schizophrenia from the national Primary Care Clinical Informatics Unit database (n=4658) matched with age, gender and neighbourhood controls...
September 2017: BJPsych Open
https://www.readbyqxmd.com/read/29092955/lesiontracker-extensible-open-source-zero-footprint-web-viewer-for-cancer-imaging-research-and-clinical-trials
#11
Trinity Urban, Erik Ziegler, Rob Lewis, Chris Hafey, Cheryl Sadow, Annick D Van den Abbeele, Gordon J Harris
Oncology clinical trials have become increasingly dependent upon image-based surrogate endpoints for determining patient eligibility and treatment efficacy. As therapeutics have evolved and multiplied in number, the tumor metrics criteria used to characterize therapeutic response have become progressively more varied and complex. The growing intricacies of image-based response evaluation, together with rising expectations for rapid and consistent results reporting, make it difficult for site radiologists to adequately address local and multicenter imaging demands...
November 1, 2017: Cancer Research
https://www.readbyqxmd.com/read/29092930/developing-cancer-informatics-applications-and-tools-using-the-nci-genomic-data-commons-api
#12
Shane Wilson, Michael Fitzsimons, Martin Ferguson, Allison Heath, Mark Jensen, Josh Miller, Mark W Murphy, James Porter, Himanso Sahni, Louis Staudt, Yajing Tang, Zhining Wang, Christine Yu, Junjun Zhang, Vincent Ferretti, Robert L Grossman
The NCI Genomic Data Commons (GDC) was launched in 2016 and makes available over 4 petabytes (PB) of cancer genomic and associated clinical data to the research community. This dataset continues to grow and currently includes over 14,500 patients. The GDC is an example of a biomedical data commons, which collocates biomedical data with storage and computing infrastructure and commonly used web services, software applications, and tools to create a secure, interoperable, and extensible resource for researchers...
November 1, 2017: Cancer Research
https://www.readbyqxmd.com/read/29091191/building-a-national-infection-intelligence-platform-to-improve-antimicrobial-stewardship-and-drive-better-patient-outcomes-the-scottish-experience
#13
Marion Bennie, William Malcolm, Charis A Marwick, Kimberley Kavanagh, Jean Sneddon, Dilip Nathwani
Background: The better use of new and emerging data streams to understand the epidemiology of infectious disease and to inform and evaluate antimicrobial stewardship improvement programmes is paramount in the global fight against antimicrobial resistance. Objectives: To create a national informatics platform that synergizes the wealth of disjointed, infection-related health data, building an intelligence capability that allows rapid enquiry, generation of new knowledge and feedback to clinicians and policy makers...
October 1, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29088949/unraveling-the-complexities-of-invasive-multimodality-neuromonitoring
#14
Saurabh Sinha, Eric Hudgins, James Schuster, Ramani Balu
Acute brain injuries are a major cause of death and disability worldwide. Survivors of life-threatening brain injury often face a lifetime of dependent care, and novel approaches that improve outcome are sorely needed. A delayed cascade of brain damage, termed secondary injury, occurs hours to days and even weeks after the initial insult. This delayed phase of injury provides a crucial window for therapeutic interventions that could limit brain damage and improve outcome. A major barrier in the ability to prevent and treat secondary injury is that physicians are often unable to target therapies to patients' unique cerebral physiological disruptions...
November 2017: Neurosurgical Focus
https://www.readbyqxmd.com/read/29084368/electronic-health-record-phenotypes-for-precision-medicine-perspectives-and-caveats-from-treatment-of-breast-cancer-at-a-single-institution
#15
Matthew K Breitenstein, Hongfang Liu, Kara N Maxwell, Jyotishman Pathak, Rui Zhang
Precision medicine is at the forefront of biomedical research. Cancer registries provide rich perspectives and electronic health record(EHR)s are commonly utilized to gather additional clinical data elements needed for translational research. However, manual annotation is resource-intense and not readily scalable. Informatics-based phenotyping presents an ideal solution, but perspectives obtained can be impacted by both data source and algorithm selection. We derived breast cancer(BC) receptor status phenotypes from structured and unstructured EHR data using rule-based algorithms, including natural language processing(NLP)...
October 30, 2017: Clinical and Translational Science
https://www.readbyqxmd.com/read/29082425/review-of-use-and-integration-of-mobile-apps-into-psychiatric-treatments
#16
REVIEW
Steven Chan, Haley Godwin, Alvaro Gonzalez, Peter M Yellowlees, Donald M Hilty
PURPOSE OF REVIEW: Mental health practitioners should understand the features of current, publicly available apps; the features of novel, research apps; and issues behind the integration of mobile apps and digital health services into clinical workflows. RECENT FINDINGS: The review is based on a research literature and the authors' clinical and healthcare administration experiences. Articles searched-on telepsychiatry, telemental health, mobile mental health, informatics, cellular phone, ambulatory monitoring, telemetry, and algorithms-were restricted to 2016 and 2017...
October 30, 2017: Current Psychiatry Reports
https://www.readbyqxmd.com/read/29079033/frailty-and-mortality-outcomes-after-percutaneous-coronary-intervention-a-systematic-review-and-meta-analysis
#17
Gary Tse, Mengqi Gong, Julia Nunez, Juan Sanchis, Guangping Li, Sadeq Ali-Hasan-Al-Saegh, Wing Tak Wong, Sunny Hei Wong, William K K Wu, George Bazoukis, Gan-Xin Yan, Konstantinos Lampropoulos, Adrian M Baranchuk, Lap Ah Tse, Yunlong Xia, Tong Liu, Jean Woo
BACKGROUND: Frailty has been identified as a risk factor for mortality. However, whether frailty increases mortality risk in patients undergoing percutaneous coronary intervention (PCI) has been controversial. Therefore, we conducted a systematic review and meta-analysis of the frailty measures and mortality outcomes in this setting. METHODS: PubMed and EMBASE were searched until July 23, 2017 for studies evaluating the association between frailty measures and mortality in individuals who have undergone PCI...
October 24, 2017: Journal of the American Medical Directors Association
https://www.readbyqxmd.com/read/29074561/assessment-of-the-incorporation-of-cnv-surveillance-into-gene-panel-next-generation-sequencing-testing-for-inherited-retinal-diseases
#18
Jamie M Ellingford, Bradley Horn, Christopher Campbell, Gavin Arno, Stephanie Barton, Catriona Tate, Sanjeev Bhaskar, Panagiotis I Sergouniotis, Rachel L Taylor, Keren J Carss, Lucy F L Raymond, Michel Michaelides, Simon C Ramsden, Andrew R Webster, Graeme C M Black
BACKGROUND: Diagnostic use of gene panel next-generation sequencing (NGS) techniques is commonplace for individuals with inherited retinal dystrophies (IRDs), a highly genetically heterogeneous group of disorders. However, these techniques have often failed to capture the complete spectrum of genomic variation causing IRD, including CNVs. This study assessed the applicability of introducing CNV surveillance into first-tier diagnostic gene panel NGS services for IRD. METHODS: Three read-depth algorithms were applied to gene panel NGS data sets for 550 referred individuals, and informatics strategies used for quality assurance and CNV filtering...
October 26, 2017: Journal of Medical Genetics
https://www.readbyqxmd.com/read/29069394/exploring-completeness-in-clinical-data-research-networks-with-dqe-c
#19
Hossein Estiri, Kari A Stephens, Jeffrey G Klann, Shawn N Murphy
Objective: To provide an open source, interoperable, and scalable data quality assessment tool for evaluation and visualization of completeness and conformance in electronic health record (EHR) data repositories. Materials and Methods: This article describes the tool's design and architecture and gives an overview of its outputs using a sample dataset of 200 000 randomly selected patient records with an encounter since January 1, 2010, extracted from the Research Patient Data Registry (RPDR) at Partners HealthCare...
October 23, 2017: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/29068717/the-know%C3%A2-now-project-facilitated-serosorting-in-hiv-status-sexual-partner-communication
#20
Stephen M Haas, Joseph D Perazzo, Andrew H Ruffino, Rachel M Ancona, Michael Lyons
An intervention was conducted providing access to clinic-verified HIV test results via a secure, web-based informatics platform to facilitate sexual partner HIV-status communication. Participants (N = 28) were men who have sex with men (MSM; HIV- n = 8, HIV+ n = 8) and heterosexuals (Non-MSM, n = 12). Focus groups with same-group members explored interest in using the intervention and baseline attitudes and practices relevant to serosorting. HIV-negative participants overwhelmingly expressed interest, regardless of MSM status...
October 2017: AIDS Education and Prevention: Official Publication of the International Society for AIDS Education
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