A growing community is constructing a next-generation file format (NGFF) for bioimaging to
overcome problems of scalability and heterogeneity. Organized by the Open Microscopy …

Motivation: Rapid advances in live-cell imaging analysis and mathematical modeling have
produced a large amount of quantitative data on spatiotemporal dynamics of biological …

During animal development, cells undergo dynamic changes in position and gene expression.
A collection of quantitative information about morphological dynamics under a wide …

In this paper we introduce a new inference method of a gene regulatory network from steadystate
gene expression data. Our method determines a regulatory structure consistent with an …

High-throughput chromosome conformation capture (Hi-C) is a widely used assay for studying
the three-dimensional (3D) genome organization across the whole genome. Here, we …

In this paper, we report development of a generalized simulation system based on ordinary
differential equations for multi-cellular organisms, and results of the analysis on a Smad …

Motivation: Large-scale gene expression profiles measured in gene deletion mutants are
invaluable sources for identifying gene regulatory networks. Signed directed graph (SDG) is …

Motivation: Recent progress in live-cell imaging and modeling techniques has resulted in
generation of a large amount of quantitative data (from experimental measurements and …

The formation of Drosophila wings and legs are major research topics in Drosophila development,
and several hypotheses, such as the polar-coordinate model and the boundary model…

Complete genome sequence has enabled whole-genome expression profiling and genome
deletion projects, which are generating large-scale gene expression profiles corresponding …