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Tohsato, Y.

Publications and source records attributed to Tohsato, Y..

2 recordsLinked to original sources

Phenotype-driven screening reveals a causal role for the cortex in pupil control

Phenotype-driven forward screening offers a powerful strategy to discover neuronal substrates underlying physical and behavioral traits without prior anatomical or functional assumptions. Historically, such approaches have identified many important neuronal circuits using invertebrate model organisms, but application to mammals has remained limited by the lack of appropriate strategies. Here we quantitatively profiled 56 neurological phenotypic features across more than 200 adult mice when neurodevelopmentally classified neurons were activated or inhibited by chemogenetics. This screen yielded a wide spectrum of robust neurological phenotypes. Upon analyzing these phenotypes computationally, we narrowed down to the hypothesis that activation of cortical neurons enlarges pupil size. Experimental evidence using optogenetics and in utero electroporation indicated that this hypothesis is true. Our results provide proof of principle that phenotype-driven forward approach in mammals is a powerful alternative as a laboratory approach to uncover brain substrates, and offers a general framework for systematically mapping neural circuits that regulate physical and behavioral phenotypes.

neuroscience↗

BD5: an open HDF5-based data format to represent quantitative biological dynamics data

BD5 is a new binary data format based on HDF5 (hierarchical data format version 5). It can be used for representing quantitative biological dynamics data obtained from bioimage informatics techniques and mechanobiological simulations. Biological Dynamics Markup Language (BDML) is an XML(Extensible Markup Language)-based open format that is also used to represent such data; however, it becomes difficult to access quantitative data in BDML files when the file size is large because parsing XML- based files requires large computational resources to first read the whole file sequentially into computer memory. BD5 enables fast random (i.e., direct) access to quantitative data on disk without parsing the entire file. Therefore, it allows practical reuse of data for understanding biological mechanisms underlying the dynamics.

bioinformatics↗