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Provides access to histopathology photomicrographs and macroscopic images of lesions from mutant or genetically manipulated mice. Pathbase is a resource that can be used for reference, training, and data-sharing. Images are contributed by major research centers, by individual investigators, and from legacy sources. The database can be useful for individual investigators carrying out hypothesis-driven academic research using the mouse as a model organism or in the context of large-scale mouse mutagenesis and phenotyping programs.
Institute of Biotechnology and Department of Life Science, National Tsing Hua University, Hsinchu, Taiwan; National Center for High-performance Computing, Hsinchu, Taiwan; Department of Computer Science, National Chiao Tung University, Hsinchu, Taiwan; Department of Applied Physics, Tunghai University, Taichung, Taiwan; Brain Research Center, National Tsing Hua University, Hsinchu, Taiwan; Kavli Institute for Brain and Mind, University of California at San Diego, La Jolla, CA, USA; Department of Biomedical Science and Environmental Biology, Kaohsiung Medical University, Kaohsiung, Taiwan; Institute of Physics, Academia Sinica, Taipei, Taiwan
Organ system heterogeneity DB
Provides information on the phenotypic effects of 4865 human diseases, 1667 drugs and 5361 genetically modified mouse models on 26 different organ systems. Disease symptoms, drug side effects and mouse phenotypes are mapped to the System Organ Class (SOC) level of the Medical Dictionary of Regulatory Activities (MedDRA). Then, the organ system heterogeneity value, a measurement of the systemic impact of a perturbation, is calculated from the relative frequency of phenotypic features across all SOCs. For perturbations of interest, the database displays the distribution of phenotypic effects across organ systems along with the heterogeneity value and the distance between organ system distributions. In this way, it allows, in an easy and comprehensible fashion, the comparison of the phenotypic organ system distributions of diseases, drugs and their corresponding genetically modified mouse models of associated disease genes and drug targets. The Organ System Heterogeneity DB is thus a platform for the visualization and comparison of organ system level phenotypic effects of drugs, diseases and genes.
PyBase / Patinopecten yessoensis Database
Gives access to a database of periodic structures of curves on scallop shells. PyBase utilizes image processing analytical methods to classify the data. Bifurcation points, crossover points of the growth rings and ribs and connected lines constitutes the patterns of periodic structures. Species identification is enabled by the individual recognition method. The database permits multiscale segmentation, identification cyclic structures and pattern matching.
A useful resource to find gene trap and enhancer trap fish lines that express GFP and Gal4FF in desired patterns, and to find insertions of the gene trap and enhancer trap constructs that are located within or near genes of interest. These transgenic fish can be utilized to observe specific cell types during embryogenesis, to manipulate their functions, and to discover novel genes and cis-regulatory elements. Therefore, zTrap facilitates studies on genomics, developmental biology and neurobiology utilizing the transgenic zebrafish resource.
Aims to facilitate the learning of issues in cardiovascular risk scoring. cvdRiskData consists of a synthetic dataset and curricular materials modeled on a real patient cohort that includes clinical and genetic covariates. The script, Bayesian network, and conditional probability tables (CPTs) used to generate the dataset are also included. The dataset can be used for (1) teaching math, statistics, (2) teaching machine learning techniques to biologists and clinicians, and (3) assessing the performance of machine learning techniques on a tunable dataset.
ALL-IDB / Acute Lymphoblastic Leukemia Image database for Image processing
Provides a repository of image datasets of blood samples specifically designed for the assessment and comparison of the performances algorithms of segmentation and image classification. ALL-IDB is focused on Acute Lymphoblastic Leukemia (ALL) and each image has a lymphoblast classification and position furnished by expert oncologists. This database is an image processing dataset and should not be used for diagnostic or other activities.
ZNSM-iDB / Ziehl–Neelsen Sputum smear Microscopy image DataBase
Gathers Ziehl-Neelsen (ZN) sputum smear microscopy image data. ZNSM-iDB includes 7 categories of different datasets collected from three bright-field microscopes. This database serves as a tool for developing algorithm on several domains: (i) autofocusing of a view field; (ii) autostitching of view fields to get panoramic view of ZN stained slide and (iii) identification and grading of Mycobacterium tuberculosis bacilli for automatic detection of tuberculosis.

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