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Imaging informatics

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https://www.readbyqxmd.com/read/29136101/identification-of-topological-features-in-renal-tumor-microenvironment-associated-with-patient-survival
#1
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/29125897/image-analysis-of-neural-stem-cell-division-patterns-in-the-zebrafish-brain
#2
Valerio Lupperger, Felix Buggenthin, Prisca Chapouton, Carsten Marr
Proliferating stem cells in the adult body are the source of constant regeneration. In the brain, neural stem cells (NSCs) divide to maintain the stem cell population and generate neural progenitor cells that eventually replenish mature neurons and glial cells. How much spatial coordination of NSC division and differentiation is present in a functional brain is an open question. To quantify the patterns of stem cell divisions, one has to (i) identify the pool of NSCs that have the ability to divide, (ii) determine NSCs that divide within a given time window, and (iii) analyze the degree of spatial coordination...
November 10, 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/29092955/lesiontracker-extensible-open-source-zero-footprint-web-viewer-for-cancer-imaging-research-and-clinical-trials
#3
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/29092947/an-image-analysis-resource-for-cancer-research-piip-pathology-image-informatics-platform-for-visualization-analysis-and-management
#4
Anne L Martel, Dan Hosseinzadeh, Caglar Senaras, Yu Zhou, Azadeh Yazdanpanah, Rushin Shojaii, Emily S Patterson, Anant Madabhushi, Metin N Gurcan
Pathology Image Informatics Platform (PIIP) is an NCI/NIH sponsored project intended for managing, annotating, sharing, and quantitatively analyzing digital pathology imaging data. It expands on an existing, freely available pathology image viewer, Sedeen. The goal of this project is to develop and embed some commonly used image analysis applications into the Sedeen viewer to create a freely available resource for the digital pathology and cancer research communities. Thus far, new plugins have been developed and incorporated into the platform for out of focus detection, region of interest transformation, and IHC slide analysis...
November 1, 2017: Cancer Research
https://www.readbyqxmd.com/read/29082493/challenges-and-opportunities-in-enabling-high-throughput-miniaturized-high-content-screening
#5
Debra Nickischer, Lisa Elkin, Normand Cloutier, Jonathan O'Connell, Martyn Banks, Andrea Weston
Within the Drug Discovery industry, there is a growing recognition of the value of high content screening (HCS), particularly as researchers aim to screen compounds and identify hits using more physiologically relevant in vitro cell-based assays. Image-based high content screening, with its combined ability to yield multiparametric data, provide subcellular resolution, and enable cell population analysis, is well suited to this challenge. While HCS has been in routine use for over a decade, a number of hurdles have historically prohibited very large, miniaturized high-throughput screening efforts with this platform...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29064019/stability-of-mri-metrics-in-the-advanced-research-core-of-the-ncaa-dod-concussion-assessment-research-and-education-care-consortium
#6
Andrew S Nencka, Timothy B Meier, Yang Wang, L Tugan Muftuler, Yu-Chien Wu, Andrew J Saykin, Jaroslaw Harezlak, M Alison Brooks, Christopher C Giza, John Difiori, Kevin M Guskiewicz, Jason P Mihalik, Stephen M LaConte, Stefan M Duma, Steven Broglio, Thomas McAllister, Michael A McCrea, Kevin M Koch
The NCAA-DoD Concussion Assessment, Research, and Education (CARE) consortium is performing a large-scale, comprehensive study of sport related concussions in college student-athletes and military service academy cadets. The CARE "Advanced Research Core" (ARC), is focused on executing a cutting-edge investigative protocol on a subset of the overall CARE athlete population. Here, we present the details of the CARE ARC MRI acquisition and processing protocol along with preliminary analyzes of within-subject, between-site, and between-subject stability across a variety of MRI biomarkers...
October 24, 2017: Brain Imaging and Behavior
https://www.readbyqxmd.com/read/29063550/sensor-signal-and-imaging-informatics
#7
W Hsu, S Park, Charles E Kahn
Objective: To summarize significant contributions to sensor, signal, and imaging informatics published in 2016. Methods: We conducted an extensive search using PubMed® and Web of Science® to identify the scientific contributions published in 2016 that addressed sensors, signals, and imaging in medical informatics. The three section editors selected 15 candidate best papers by consensus. Each candidate article was reviewed by the section editors and at least two other external reviewers. The final selection of the six best papers was conducted by the editorial board of the Yearbook...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063549/an-assessment-of-imaging-informatics-for-precision-medicine-in-cancer
#8
C Chennubhotla, L P Clarke, A Fedorov, D Foran, G Harris, E Helton, R Nordstrom, F Prior, D Rubin, J H Saltz, E Shalley, A Sharma
Objectives: Precision medicine requires the measurement, quantification, and cataloging of medical characteristics to identify the most effective medical intervention. However, the amount of available data exceeds our current capacity to extract meaningful information. We examine the informatics needs to achieve precision medicine from the perspective of quantitative imaging and oncology. Methods: The National Cancer Institute (NCI) organized several workshops on the topic of medical imaging and precision medicine...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29063545/grappling-with-the-future-use-of-big-data-for-translational-medicine-and-clinical-care
#9
S Murphy, V Castro, K Mandl
Objectives: Although patients may have a wealth of imaging, genomic, monitoring, and personal device data, it has yet to be fully integrated into clinical care. Methods: We identify three reasons for the lack of integration. The first is that "Big Data" is poorly managed by most Electronic Medical Record Systems (EMRS). The data is mostly available on "cloud-native" platforms that are outside the scope of most EMRs, and even checking if such data is available on a patient often must be done outside the EMRS...
August 2017: Yearbook of Medical Informatics
https://www.readbyqxmd.com/read/29054270/the-peptidome-comes-of-age-mass-spectrometry-based-characterization-of-the-circulating-cancer-peptidome
#10
David W Greening, Eugene A Kapp, Richard J Simpson
Peptides play a seminal role in most physiological processes acting as neurotransmitters, hormones, antibiotics, and immune regulation. In the context of tumor biology, it is hypothesized that endogenous peptides, hormones, cytokines, growth factors, and aberrant degradation of select protein networks (e.g., enzymatic activities, protein shedding, and extracellular matrix remodeling) are fundamental in mediating cancer progression. Analysis of peptides in biological fluids by mass spectrometry holds promise of providing sensitive and specific diagnostic and prognostic information for cancer and other diseases...
2017: Enzymes
https://www.readbyqxmd.com/read/28952712/high-throughput-image-analysis-of-fibrillar-materials-a-case-study-on-polymer-nanofiber-packing-alignment-and-defects-in-organic-field-effect-transistors
#11
Nils E Persson, Joshua Rafshoon, Kaylie Naghshpour, Tony Fast, Ping-Hsun Chu, Michael McBride, Bailey Risteen, Martha Grover, Elsa Reichmanis
High-throughput discovery of process-structure-property relationships in materials through an informatics-enabled empirical approach is an increasingly utilized technique in materials research due to the rapidly expanding availability of data. Here, process-structure-property relationships are extracted for the nucleation, growth, and deposition of semiconducting poly(3-hexylthiophene) (P3HT) nanofibers used in organic field effect transistors, via high-throughput image analysis. This study is performed using an automated image analysis pipeline combining existing open-source software and new algorithms, enabling the rapid evaluation of structural metrics for images of fibrillar materials, including local orientational order, fiber length density, and fiber length distributions...
October 18, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28943731/multi-source-multi-target-dictionary-learning-for-prediction-of-cognitive-decline
#12
Jie Zhang, Qingyang Li, Richard J Caselli, Paul M Thompson, Jieping Ye, Yalin Wang
Alzheimer's Disease (AD) is the most common type of dementia. Identifying correct biomarkers may determine pre-symptomatic AD subjects and enable early intervention. Recently, Multi-task sparse feature learning has been successfully applied to many computer vision and biomedical informatics researches. It aims to improve the generalization performance by exploiting the shared features among different tasks. However, most of the existing algorithms are formulated as a supervised learning scheme. Its drawback is with either insufficient feature numbers or missing label information...
June 2017: Information Processing in Medical Imaging: Proceedings of the ... Conference
https://www.readbyqxmd.com/read/28913742/automated-morphological-and-morphometric-analysis-of-mass-spectrometry-imaging-data-application-to-biomarker-discovery
#13
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
#14
(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
#15
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
#16
(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
#17
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
#18
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
#19
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...
October 2017: Neuroinformatics
https://www.readbyqxmd.com/read/28762219/-the-role-and-function-of-informatics-nurses-in-information-technology-decision-making
#20
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
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