A single-cell atlas of chromatin accessibility in mouse organogenesis

K Sun, X Liu, X Lan - Nature Cell Biology, 2024 - nature.com
Organogenesis is a highly complex and precisely regulated process. Here we profiled the
chromatin accessibility in> 350,000 cells derived from 13 mouse embryos at four …

Application of Single-Cell Assay for Transposase-Accessible Chromatin with High Throughput Sequencing in Plant Science: Advances, Technical Challenges, and …

C Lu, Y Wei, M Abbas, H Agula, E Wang… - International Journal of …, 2024 - mdpi.com
The Single-cell Assay for Transposase-Accessible Chromatin with high throughput
sequencing (scATAC-seq) has gained increasing popularity in recent years, allowing for …

Mapping Cell Atlases at the Single‐Cell Level

F Ye, J Wang, J Li, Y Mei, G Guo - Advanced Science, 2024 - Wiley Online Library
Recent advancements in single‐cell technologies have led to rapid developments in the
construction of cell atlases. These atlases have the potential to provide detailed information …

The single-cell chromatin landscape in gonadal cell lineage specification

HC Suen, F Ou, K Miu, Z Wang, W Chan, J Liao - BMC genomics, 2024 - Springer
Gonad development includes sex determination and divergent maturation of the testes and
ovaries. Recent advances in measuring gene expression in single cells are providing new …

Ploidy inference from single-cell data: application to human and mouse cell atlases

F Takeuchi, N Kato - Genetics, 2024 - academic.oup.com
Ploidy is relevant to numerous biological phenomena, including development, metabolism,
and tissue regeneration. Single-cell RNA-seq and other omics studies are revolutionizing …

Enhancing sensitivity and versatility of Tn5-based single cell omics

I Seufert, P Sant, K Bauer, AP Syed, K Rippe… - … in Epigenetics and …, 2023 - frontiersin.org
The analysis of chromatin features in single cells centers around Tn5 transposase and
exploits its activity to simultaneously fragment target DNA and integrate adapter sequences …

SMARTdb: an integrated database for exploring single-cell multi-omics data of reproductive medicine

Z Liu, Z Yuan, Y Guo, R Wang, Y Guan… - Genomics …, 2024 - academic.oup.com
Single-cell multi-omics sequencing has greatly accelerated reproductive research in recent
years, and the data are continually growing. However, utilizing these data resources is …

Chromatin accessibility analysis suggested vascular induction of the biliary epithelium via the Notch signaling pathway in the human liver

M Yoshihara, T Nakayama, S Takahashi - BMC Research Notes, 2023 - Springer
The biliary epithelial cells (cholangiocytes) in the liver originate from undifferentiated liver
parenchymal cells (hepatoblasts) that are located adjacent to the portal vein. This …

Single-cell chromatin accessibility profiling of cell-state-specific gene regulatory programs during mouse organogenesis

Q Deng, S Wang, Z Huang, Q Lan, G Lai, J Xu… - Frontiers in …, 2023 - frontiersin.org
In mammals, early organogenesis begins soon after gastrulation, accompanied by
specification of various type of progenitor/precusor cells. In order to reveal dynamic …

Statistical methods for genomic sequencing data

A Min - 2023 - search.proquest.com
Genomic sequencing data has revolutionized our understanding of the genetic basis of
biological processes. The cost of sequencing the first human genome was estimated to be …