title: Chapter 17: bioimage informatics for systems pharmacology.
abstract: Recent advances in automated high-resolution fluorescence microscopy and robotic handling have made the systematic and cost effective study of diverse morphological changes within a large population of cells possible under a variety of perturbations, e.g., drugs, compounds, metal catalysts, RNA interference (RNAi). Cell population-based studies deviate from conventional microscopy studies on a few cells, and could provide stronger statistical power for drawing experimental observations and conclusions. However, it is challenging to manually extract and quantify phenotypic changes from the large amounts of complex image data generated. Thus, bioimage informatics approaches are needed to rapidly and objectively quantify and analyze the image data. This paper provides an overview of the bioimage informatics challenges and approaches in image-based studies for drug and target discovery. The concepts and capabilities of image-based screening are first illustrated by a few practical examples investigating different kinds of phenotypic changes caEditorsused by drugs, compounds, or RNAi. The bioimage analysis approaches, including object detection, segmentation, and tracking, are then described. Subsequently, the quantitative features, phenotype identification, and multidimensional profile analysis for profiling the effects of drugs and targets are summarized. Moreover, a number of publicly available software packages for bioimage informatics are listed for further reference. It is expected that this review will help readers, including those without bioimage informatics expertise, understand the capabilities, approaches, and tools of bioimage informatics and apply them to advance their own studies.
authors: NCI Center for Modeling Cancer Development, Department of Systems Medicine and Bioengineering, The Methodist Hospital Research Institute, Weil Medical College of Cornell University, Houston, Texas, USA.
authors: Fuhai
authors: F
authors: Li
authors: Zheng
authors: Z
authors: Yin
authors: Guangxu
authors: G
authors: Jin
authors: Hong
authors: H
authors: Zhao
authors: Stephen T C
authors: ST
authors: Wong
mesh_terms: D000818:Animals; D001185:Artificial Intelligence; D001331:Automation; D019295:Computational Biology / Q000379:methods; D015195:Drug Design; D004345:Drug Industry / Q000295:instrumentation*; D006801:Humans; D007091:Image Processing, Computer-Assisted / Q000379:methods; D008856:Microscopy, Fluorescence; D004364:Pharmaceutical Preparations; D010600:Pharmacology / Q000379:methods*; D010641:Phenotype; D034622:RNA Interference; D012984:Software; D013678:Technology, Pharmaceutical / Q000295:instrumentation
chemical_list: D004364:Pharmaceutical Preparations
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