Category Ranking
98%
Total Visits
921
Avg Visit Duration
2 minutes
Citations
20
Article Abstract
The development of a multicellular organism is a highly intricate process tightly regulated by numerous genes and pathways in both spatial and temporal manners. Here, we present Flysta3D-v2, a comprehensive multi-omics atlas of the model organism Drosophila spanning its developmental lifespan from embryo to pupa. Our datasets encompass 3D single-cell spatial transcriptomic, single-cell transcriptomic, and single-cell chromatin accessibility information. Through the integration of multimodal data, we generated developmentally continuous in silico 3D models of the entire organism. We further constructed tissue development trajectories that uncover the detailed profiles of cell-type differentiation. With a focus on the midgut, we identified transcription factors involved in midgut cell-type regulation and validated exex as a key regulator of copper cell development. This extensive atlas provides a rich resource and serves as a systematic platform for studying Drosophila development with integrated single-cell data at ultra-high spatiotemporal resolution.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1016/j.cell.2025.05.047 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Lung cancer is the most common cause of cancer-related death worldwide. Recent advancements in targeted therapies and immunotherapies have achieved remarkable success. However, patient responses to treatments with lung cancer vary substantially.
View Article and Find Full Text PDFMultiview-cooperated graph neural network enables novel multi-omics cancer subtype classification.
Comput Biol Chem
September 2025
School of Information Engineering, Nanchang Institute of Technology Nanchang, Jiangxi 330099, PR China; Jiangxi Province Key Laboratory of Smart Water Conservancy, Nanchang Institute of Technology, Nanchang, Jiangxi, PR China. Electronic address:
Cancer presents a significant challenge in the field of public health due to its high incidence, mortality rate, and inherent heterogeneity. Integrating multi-omics biological data offers a comprehensive and intricate understanding of biological processes, disease mechanisms, and cancer subtyping, rendering it an influential tool for scientific research. Nevertheless, current approaches to integrating multi-omics data often fail to consider the scale of data in feature information and overlook the analysis of the individual and shared feature expressions in multi-omics data.
View Article and Find Full Text PDFLarge-scale, open-access data sets such as the Genotype Tissue Expression Project (GTEx) and The Cancer Genome Atlas (TCGA) include multi-omic data on large numbers of samples along with extensive clinical and phenotypic information. These datasets provide a unique opportunity to discover correlations among clinical and genomic data features that can lead to testable hypotheses and new discoveries. SEAHORSE ( http://seahorse.
View Article and Find Full Text PDFThe Open Pediatric Cancer Project.
Gigascience
January 2025
Center for Data-Driven Discovery in Biomedicine, Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Background: In 2019, the Open Pediatric Brain Tumor Atlas (OpenPBTA) was created as a global, collaborative open-science initiative to genomically characterize 1,074 pediatric brain tumors and 22 patient-derived cell lines. Here, we present an extension of the OpenPBTA called the Open Pediatric Cancer (OpenPedCan) Project, a harmonized open-source multiomic dataset from 6,112 pediatric cancer patients with 7,096 tumor events across more than 100 histologies. Combined with RNA sequencing (RNA-seq) from the Genotype-Tissue Expression and The Cancer Genome Atlas projects, OpenPedCan contains nearly 48,000 total biospecimens (24,002 tumor and 23,893 normal specimens).
View Article and Find Full Text PDFClaudin-1, a Biomarker of Epithelial-Mesenchymal Transformation, Enhances Lipid Metabolism in Colorectal Cancer Cells to Promote Tumor Metastasis.
J Gene Med
September 2025
Department 1 of General Surgery, Shaanxi Provincial People's Hospital, Xi'an, Shaanxi, China.
Claudin-1 (CLDN1), a vital tight junction protein, is linked to epithelial-mesenchymal transition (EMT) of tumor cells. In this study, multi-omics including expression profiles of colorectal cancer (CRC) from The Cancer Genome Atlas (TCGA) dataset, colon expression profiles from the Genotype-Tissue Expression (GTEx) database, and the expression profiles from the Gene Expression Omnibus (GEO) dataset GSE251845 were combined and analyzed. We screened for differentially expressed genes (DEGs) in CRC and identified 218 intersected genes related to EMT.
View Article and Find Full Text PDF