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<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Liver cyst wall - high mag.jpg|220px]]</div>
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'''[[Histopathology]]''' is a branch of histology and pathology that studies and diagnoses diseases on the tissue and cellular level. While histopathology is closely related to [[cytopathology]], the main difference is diagnostic information gained from histopathology is acquired from solid tissue samples, whereas specific disaggregated cell preparations are used in cytopathology. Typically a biopsy or surgical specimen is examined by a pathologist after the specimen has been processed and histological sections have been placed onto glass slides. Testing typically incorporates several stages, from collection and preparation using numerous methods (depending on the sample and test type) down to examination.
'''"[[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]]"'''


Rudolf Ludwig Karl Virchow is considered by many to be one of the fathers of cellular pathology, remembered most for his collection of lectures on the topic, published as ''Cellular Pathology'' in 1858. However, his assistant, David Paul von Hansemann also played an important role in the progress of histopathology during the 1890s, producing his book ''The Microscopic Diagnosis of Malignant Tumours'' and other important research. ('''[[Histopathology|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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''Recently featured'': [[Clinical chemistry]], [[Desktop virtualization]], [[Comprehensive outpatient rehabilitation facility]]
''Recently featured'':
: ▪ [[Journal:Haves and have nots must find a better way: The case for open scientific hardware|Haves and have nots must find a better way: The case for open scientific hardware]]
: ▪ [[Journal:CytoConverter: A web-based tool to convert karyotypes to genomic coordinates|CytoConverter: A web-based tool to convert karyotypes to genomic coordinates]]
: ▪ [[Journal:Implementing a novel quality improvement-based approach to data quality monitoring and enhancement in a multipurpose clinical registry|Implementing a novel quality improvement-based approach to data quality monitoring and enhancement in a multipurpose clinical registry]]

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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