For model species, single-cell RNA-based cell atlases are available. A good cell atlas
includes all major stages in a species' ontogeny, and soon, they will be standard even for …

Cetaceans (dolphins, whales, and porpoises) have large and anatomically sophisticated
brains. To expand our understanding of the cellular makeup of cetacean brains and the …

Understanding the temporal dynamics of gene expression is crucial for developmental
biology, tumour biology and biogerontology. However, some timepoints remain challenging …

Integrative analysis of spatially resolved transcriptomics datasets empowers a deeper
understanding of complex biological systems. However, integrating multiple tissue sections …

The structure and function of the circulatory system, including the heart, have undergone
substantial changes with the vertebrate evolution. Although the basic function of the heart is …

In mammals, early organogenesis begins soon after gastrulation, accompanied by
specification of various type of progenitor/precusor cells. In order to reveal dynamic …

When biologically interpretation of the data obtained from the single-cell RNA sequencing
(scRNA-seq) analysis is attempted, additional information on the location of the single cells …

We present the Manatee variational autoencoder model to predict transcription factor (TF)
perturbation-induced transcriptomes. We demonstrate that the Manatee in silico perturbation …

BACKGROUND: Cardiomyocyte differentiation involves a stepwise clearance of repressors
and fate-restricting regulators through the modulation of BMP (bone morphogenic …

The mechanism by which transcription factor (TF) network instructs cell-type-specific
transcriptional programs to drive primitive endoderm (PrE) progenitors to commit to parietal …