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https://www.readbyqxmd.com/read/28913742/automated-morphological-and-morphometric-analysis-of-mass-spectrometry-imaging-data-application-to-biomarker-discovery
#1
Gaël Picard de Muller, Rima Ait-Belkacem, David Bonnel, Rémi Longuespée, Jonathan Stauber
Mass spectrometry imaging datasets are mostly analyzed in terms of average intensity in regions of interest. However, biological tissues have different morphologies with several sizes, shapes, and structures. The important biological information, contained in this highly heterogeneous cellular organization, could be hidden by analyzing the average intensities. Finding an analytical process of morphology would help to find such information, describe tissue model, and support identification of biomarkers. This study describes an informatics approach for the extraction and identification of mass spectrometry image features and its application to sample analysis and modeling...
September 14, 2017: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/28891675/abstracts-the-society-of-biomolecular-imaging-and-informatics-4th-annual-meeting-poster-session-september-13-15-2017-san-diego-convention-center-san-diego-ca
#2
(no author information available yet)
No abstract text is available yet for this article.
September 11, 2017: Assay and Drug Development Technologies
https://www.readbyqxmd.com/read/28837355/society-of-biomolecular-imaging-and-informatics-special-issue
#3
Myles Fennell, Kaylene J Simpson
No abstract text is available yet for this article.
August 2017: Assay and Drug Development Technologies
https://www.readbyqxmd.com/read/28837354/society-of-biomolecular-imaging-and-informatics-4th-annual-meeting-september-13-15-2017
#4
(no author information available yet)
No abstract text is available yet for this article.
August 2017: Assay and Drug Development Technologies
https://www.readbyqxmd.com/read/28828200/pathedex-uncovering-high-explanatory-visual-diagnostics-heuristics-using-digital-pathology-and-multiscale-gaze-data
#5
Dmitriy Shin, Mikhail Kovalenko, Ilker Ersoy, Yu Li, Donald Doll, Chi-Ren Shyu, Richard Hammer
BACKGROUND: Visual heuristics of pathology diagnosis is a largely unexplored area where reported studies only provided a qualitative insight into the subject. Uncovering and quantifying pathology visual and nonvisual diagnostic patterns have great potential to improve clinical outcomes and avoid diagnostic pitfalls. METHODS: Here, we present PathEdEx, an informatics computational framework that incorporates whole-slide digital pathology imaging with multiscale gaze-tracking technology to create web-based interactive pathology educational atlases and to datamine visual and nonvisual diagnostic heuristics...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/28825969/maldiviz-a-comprehensive-informatics-tool-for-maldi-ms-data-visualization-and-analysis
#6
Kishore Kumar Jagadeesan, Simon Ekström
Recently, mass spectrometry (MS) has emerged as an important tool for high-throughput screening (HTS) providing a direct and label-free detection method, complementing traditional fluorescent and colorimetric methodologies. Among the various MS techniques used for HTS, matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) provides many of the characteristics required for high-throughput analyses, such as low cost, speed, and automation. However, visualization and analysis of the large datasets generated by HTS MALDI-MS can pose significant challenges, especially for multiparametric experiments...
August 1, 2017: SLAS Discovery
https://www.readbyqxmd.com/read/28812221/multimodal-neuroimaging-in-schizophrenia-description-and-dissemination
#7
C J Aine, H J Bockholt, J R Bustillo, J M Cañive, A Caprihan, C Gasparovic, F M Hanlon, J M Houck, R E Jung, J Lauriello, J Liu, A R Mayer, N I Perrone-Bizzozero, S Posse, J M Stephen, J A Turner, V P Clark, Vince D Calhoun
In this paper we describe an open-access collection of multimodal neuroimaging data in schizophrenia for release to the community. Data were acquired from approximately 100 patients with schizophrenia and 100 age-matched controls during rest as well as several task activation paradigms targeting a hierarchy of cognitive constructs. Neuroimaging data include structural MRI, functional MRI, diffusion MRI, MR spectroscopic imaging, and magnetoencephalography. For three of the hypothesis-driven projects, task activation paradigms were acquired on subsets of ~200 volunteers which examined a range of sensory and cognitive processes (e...
August 15, 2017: Neuroinformatics
https://www.readbyqxmd.com/read/28762219/-the-role-and-function-of-informatics-nurses-in-information-technology-decision-making
#8
Tso-Ying Lee
The medical environment has changed greatly with the coming of the information age, and, increasingly, the operating procedures for medical services have been altered in keeping with the trend toward mobile, paperless services. Informatization has the potential to improve the working efficiency of medical personnel, enhance patient care safety, and give medical organizations a positive image. Informatics nurses play an important role in the decision-making processes that accompany informatization. As one of the decision-making links in the information technology lifecycle, this role affects the success of the development and operation of information systems...
August 2017: Hu Li za Zhi the Journal of Nursing
https://www.readbyqxmd.com/read/28748461/applications-of-mass-spectrometry-imaging-for-safety-evaluation
#9
David Bonnel, Jonathan Stauber
Mass spectrometry imaging (MSI) was first derived from techniques used in physics, which were then incorporated into chemistry followed by application in biology. Developed over 50 years ago, and with different principles to detect and map compounds on a sample surface, MSI supports modern biology questions by detecting biological compounds within tissue sections. MALDI (matrix-assisted laser desorption/ionization) imaging trend analysis in this field shows an important increase in the number of publications since 2005, especially with the development of the MALDI imaging technique and its applications in biomarker discovery and drug distribution...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28730549/creation-and-curation-of-the-society-of-imaging-informatics-in-medicine-hackathon-dataset
#10
Marc Kohli, James J Morrison, Judy Wawira, Matthew B Morgan, Jason Hostetter, Brad Genereaux, Mohannad Hussain, Steve G Langer
In order to support innovation, the Society of Imaging Informatics in Medicine (SIIM) elected to create a collaborative computing experience called a "hackathon." The SIIM Hackathon has always consisted of two components, the event itself and the infrastructure and resources provided to the participants. In 2014, SIIM provided a collection of servers to participants during the annual meeting. After initial server setup, it was clear that clinical and imaging "test" data were also needed in order to create useful applications...
July 20, 2017: Journal of Digital Imaging: the Official Journal of the Society for Computer Applications in Radiology
https://www.readbyqxmd.com/read/28655203/kronos-a-workflow-assembler-for-genome-analytics-and-informatics
#11
M Jafar Taghiyar, Jamie Rosner, Diljot Grewal, Bruno M Grande, Radhouane Aniba, Jasleen Grewal, Paul C Boutros, Ryan D Morin, Ali Bashashati, Sohrab P Shah
Background: The field of next generation sequencing informatics has matured to a point where algorithmic advances in sequence alignment and individual feature detection methods have stabilized. Practical and robust implementation of complex analytical workflows (where such tools are structured into 'best practices' for automated analysis of NGS datasets) still requires significant programming investment and expertise. Results: We present Kronos , a software platform for facilitating the development and execution of modular, auditable and distributable bioinformatics workflows...
June 26, 2017: GigaScience
https://www.readbyqxmd.com/read/28648871/creation-of-an-open-framework-for-point-of-care-computer-assisted-reporting-and-decision-support-tools-for-radiologists
#12
Tarik K Alkasab, Bernardo C Bizzo, Lincoln L Berland, Sujith Nair, Pari V Pandharipande, H Benjamin Harvey
Decreasing unnecessary variation in radiology reporting and producing guideline-concordant reports is fundamental to radiology's success in value-based payment models and good for patient care. In this article, we present an open authoring system for point-of-care clinical decision support tools integrated into the radiologist reporting environment referred to as the computer-assisted reporting and decision support (CAR/DS) framework. The CAR/DS authoring system, described herein, includes: (1) a definition format for representing radiology clinical guidelines as structured, machine-readable Extensible Markup Language documents and (2) a user-friendly reference implementation to test the fidelity of the created definition files with the clinical guideline...
June 22, 2017: Journal of the American College of Radiology: JACR
https://www.readbyqxmd.com/read/28609000/the-role-of-informatics-in-patient-centered-care-and-personalized-medicine
#13
Matthew G Hanna, Liron Pantanowitz
The practice of cytopathology has dramatically changed due to advances in genomics and information technology. Cytology laboratories have accordingly become increasingly dependent on pathology informatics support to meet the emerging demands of precision medicine. Pathology informatics deals with information technology in the laboratory, and the impact of this technology on workflow processes and staff who interact with these tools. This article covers the critical role that laboratory information systems, electronic medical records, and digital imaging plays in patient-centered personalized medicine...
June 2017: Cancer
https://www.readbyqxmd.com/read/28608010/transcriptome-architecture-of-adult-mouse-brain-revealed-by-sparse-coding-of-genome-wide-in-situ-hybridization-images
#14
Yujie Li, Hanbo Chen, Xi Jiang, Xiang Li, Jinglei Lv, Meng Li, Hanchuan Peng, Joe Z Tsien, Tianming Liu
Highly differentiated brain structures with distinctly different phenotypes are closely correlated with the unique combination of gene expression patterns. Using a genome-wide in situ hybridization image dataset released by Allen Mouse Brain Atlas, we present a data-driven method of dictionary learning and sparse coding. Our results show that sparse coding can elucidate patterns of transcriptome organization of mouse brain. A collection of components obtained from sparse coding display robust region-specific molecular signatures corresponding to the canonical neuroanatomical subdivisions including fiber tracts and ventricular systems...
July 2017: Neuroinformatics
https://www.readbyqxmd.com/read/28551930/-laboratory-tests-and-radiological-imaging-diagnostic-tools-that-share-information-and-can-be-functionally-integrated
#15
Michael Mayer
In spite of apparent disparity between the specialties of radiological imaging, pathology and laboratory analysis, the medical diagnostic information that these sources provide have a lot in common and can be effectively utilized by sharing quantitative and qualitative results through modern information technology processes. Informaticsbased integration of radiological imaging, digital images of anatomical and molecular pathology and clinical laboratory results enables earlier, more sensitive and precise diagnosis, resulting in the more efficient treatment of patients...
March 2017: Harefuah
https://www.readbyqxmd.com/read/28538724/applying-systems-level-spectral-imaging-and-analysis-to-reveal-the-organelle-interactome
#16
Alex M Valm, Sarah Cohen, Wesley R Legant, Justin Melunis, Uri Hershberg, Eric Wait, Andrew R Cohen, Michael W Davidson, Eric Betzig, Jennifer Lippincott-Schwartz
The organization of the eukaryotic cell into discrete membrane-bound organelles allows for the separation of incompatible biochemical processes, but the activities of these organelles must be coordinated. For example, lipid metabolism is distributed between the endoplasmic reticulum for lipid synthesis, lipid droplets for storage and transport, mitochondria and peroxisomes for β-oxidation, and lysosomes for lipid hydrolysis and recycling. It is increasingly recognized that organelle contacts have a vital role in diverse cellular functions...
June 1, 2017: Nature
https://www.readbyqxmd.com/read/28514892/single-case-cognitive-neuropsychology-in-the-age-of-big-data
#17
Jared Medina, Simon Fischer-Baum
Historically, single-case studies of brain-damaged individuals have contributed substantially to our understanding of cognitive processes. However, the role of single-case cognitive neuropsychology has diminished with the proliferation of techniques that measure neural activity in humans. Instead, large-scale informatics approaches in which data are gathered from hundreds of neuroimaging studies have become popular. It has been claimed that utilizing these informatics approaches can address problems found in single imaging studies...
May 17, 2017: Cognitive Neuropsychology
https://www.readbyqxmd.com/read/28365740/effective-biomedical-document-classification-for-identifying-publications-relevant-to-the-mouse-gene-expression-database-gxd
#18
Xiangying Jiang, Martin Ringwald, Judith Blake, Hagit Shatkay
The Gene Expression Database (GXD) is a comprehensive online database within the Mouse Genome Informatics resource, aiming to provide available information about endogenous gene expression during mouse development. The information stems primarily from many thousands of biomedical publications that database curators must go through and read. Given the very large number of biomedical papers published each year, automatic document classification plays an important role in biomedical research. Specifically, an effective and efficient document classifier is needed for supporting the GXD annotation workflow...
January 1, 2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28358291/feasibility-and-utility-of-an-integrated-medical-imaging-and-informatics-smartphone-system-for-management-of-acute-stroke
#19
Kristina Shkirkova, Eftitan Y Akam, Josephine Huang, Sunil A Sheth, May Nour, Conrad W Liang, Michael McManus, Van Trinh, Gary Duckwiler, Jason Tarpley, Fernando Vinuela, Jeffrey L Saver
Background Rapid dissemination and coordination of clinical and imaging data among multidisciplinary team members are essential for optimal acute stroke care. Aim To characterize the feasibility and utility of the Synapse Emergency Room mobile (Synapse ERm) informatics system. Methods We implemented the Synapse ERm system for integration of clinical data, computerized tomography, magnetic resonance, and catheter angiographic imaging, and real-time stroke team communications, in consecutive acute neurovascular patients at a Comprehensive Stroke Center...
January 1, 2017: International Journal of Stroke: Official Journal of the International Stroke Society
https://www.readbyqxmd.com/read/28348249/deciphering-tissue-morphodynamics-using-bioimage-informatics
#20
REVIEW
Alexandre C Dufour, Anneliene H Jonker, Jean-Christophe Olivo-Marin
In recent years developmental biology has greatly benefited from the latest advances in fluorescence microscopy techniques. Consequently, quantitative and automated analysis of this data is becoming a vital first step in the quest for novel insights into the various aspects of development. Here we present an introductory overview of the various image analysis methods proposed for developmental biology images, with particular attention to openly available software packages. These tools, as well as others to come, are rapidly paving the way towards standardized and reproducible bioimaging studies at the whole-tissue level...
May 19, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
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