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<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Fig1 Bellgard FrontPubHealth2017 5.jpg|240px]]</div>
<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Fig4 Auer CytometryPartA2018 93-7.jpg|240px]]</div>
'''"[[Journal:Comprehending the health informatics spectrum: Grappling with system entropy and advancing quality clinical research|Comprehending the health informatics spectrum: Grappling with system entropy and advancing quality clinical research]]"'''
'''"[[Journal:ChromaWizard: An open-source image analysis software for multicolor fluorescence in situ hybridization analysis|ChromaWizard: An open-source image analysis software for multicolor fluorescence in situ hybridization analysis]]"'''


Clinical research is complex. The knowledge base is [[information]]- and data-rich, where value and success depend upon focused, well-designed connectivity of systems achieved through stakeholder collaboration. Quality data, information, and knowledge must be utilized in an effective, efficient, and timely manner to affect important clinical decisions and communicate health prevention strategies. In recent decades, it has become apparent that information communication technology (ICT) solutions potentially offer multidimensional opportunities for transforming health care and clinical research. However, it is also recognized that successful utilization of ICT in improving patient care and health outcomes depends on a number of factors such as the effective integration of diverse sources of health data; how and by whom quality data are captured; reproducible methods on how data are interrogated and reanalyzed; robust policies and procedures for data privacy, security and access; usable consumer and clinical user interfaces; effective diverse stakeholder engagement; and navigating the numerous eclectic and non-interoperable legacy proprietary health ICT solutions in [[hospital]] and clinic environments. This is broadly termed [[health informatics]] (HI). ('''[[Journal:Comprehending the health informatics spectrum: Grappling with system entropy and advancing quality clinical research|Full article...]]''')<br />
Multicolor image analysis finds its applications in a broad range of biological studies. Specifically, multiplex [[wikipedia:Fluorescence in situ hybridization|fluorescence ''in situ'' hybridization]] (M‐FISH) for chromosome painting facilitates the analysis of individual chromosomes in complex metaphase spreads and is widely used to detect both numerical and structural aberrations. While this is well established for human and mouse [[wikipedia:Karyotype|karyotypes]], for which species sophisticated software and analysis tools are available, other organisms and species are less well served. Commercially available software is proprietary and not easily adaptable to other karyotypes. Therefore, a publicly available open-source software that combines flexibility and customizable functionalities is needed. Here we present such a tool, called “ChromaWizard,” which is based on popular scientific image analysis libraries (OpenCV, scikit‐image, and NumPy). We demonstrate its functionality on the example of primary Chinese hamster (''Cricetulus griseus'') fibroblasts metaphase spreads and on Chinese hamster ovary cell lines, known for their large number of chromosomal rearrangements. ('''[[Journal:ChromaWizard: An open-source image analysis software for multicolor fluorescence in situ hybridization analysis|Full article...]]''')<br />
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Revision as of 22:58, 24 February 2020

Fig4 Auer CytometryPartA2018 93-7.jpg

"ChromaWizard: An open-source image analysis software for multicolor fluorescence in situ hybridization analysis"

Multicolor image analysis finds its applications in a broad range of biological studies. Specifically, multiplex fluorescence in situ hybridization (M‐FISH) for chromosome painting facilitates the analysis of individual chromosomes in complex metaphase spreads and is widely used to detect both numerical and structural aberrations. While this is well established for human and mouse karyotypes, for which species sophisticated software and analysis tools are available, other organisms and species are less well served. Commercially available software is proprietary and not easily adaptable to other karyotypes. Therefore, a publicly available open-source software that combines flexibility and customizable functionalities is needed. Here we present such a tool, called “ChromaWizard,” which is based on popular scientific image analysis libraries (OpenCV, scikit‐image, and NumPy). We demonstrate its functionality on the example of primary Chinese hamster (Cricetulus griseus) fibroblasts metaphase spreads and on Chinese hamster ovary cell lines, known for their large number of chromosomal rearrangements. (Full article...)

Recently featured:

▪ Haves and have nots must find a better way: The case for open scientific hardware
▪ CytoConverter: A web-based tool to convert karyotypes to genomic coordinates
▪ Implementing a novel quality improvement-based approach to data quality monitoring and enhancement in a multipurpose clinical registry
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