Cross-Speices Brain Atlas in the light of evolution

CytoPedia

CytoPedia compartment is composed of 12 modules: Rats, Cattle, Tiger, Rabbit, Dog, Dragon, Snake, Horse, Sheep, Monkey, Rooster, Pig

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: Rats; A total of 142 viruses from 23 families were included in Rats module, covering Adenoviridae, Arenaviridae, Arteriviridae, Caliciviridae, Coronaviridae, Filoviridae, Flaviviridae, Hantaviridae, Herpesviridae, Orthomyxoviridae, Papillomaviridae, Paramyxoviridae, Parvoviridae, Phenuiviridae, Picornaviridae, Pneumoviridae, Polyomaviridae, Reoviridae, Retroviridae, Rhabdoviridae, Togaviridae.

: Cattle; Cattle module provides detailed information on potential cell communication mediated by ligands and corresponding receptors using scRNA-seq data. C2C module provides potential cell interaction networks and signaling pathways between different cell types of 46 species. Each species is accompanied by a series of viualization of cell interaction networks and a series of heatmaps of signalling pathways between certain cell types, as well as a table summarizing every ligand-receptor interaction and signaling pathway between any two cell types.

: Tiger; Tiger module provides the inference of cell diferentiation pathways. Through Tiger module, mechanisms of regulation of clldifferentiation,timelines and movement trajectories could be explored.

: Rabbit; Rabbit module provides genetic information on the transcriptional regulation of 46 species. G2G module predicted the putative gene regulatory networks (GRNs) between transcription factors (TFs) and their candidate targets, promoting the understanding of the gene transcriptional regulation on the cell type level. Each of the 46 species comprises GRNs of each TF, GO (Gene Ontology) term enrichment analysis on candidate target genes of each regulon, and a table summarizing all detailed information about TF and target genes on certain cell types.

: Dragon; The Dragon module offers rapid annotation of 10 million cell references from 147 species. It facilitates quick categorization and analysis of cellular identities using single-cell omics data across diverse species.

: Snake; The Snake module systematically names and analyzes key cell types involved in embryogenesis and neurogenesis, providing insights into developmental processes and neural formation.

: Horse; The Horse module explores hybridization omics by mapping spatial expression patterns, allowing for the analysis of gene expression across different tissues and regions.

: Sheep; The Sheep module focuses on sorting high-expression cell-surface proteins, providing a comprehensive dataset for immunotyping and analysis of key cell markers.

: Monkey; Monkey module encodes approximately 10 million cells and assigns every single cell a passport. The passport is a visualization and cadastral management system for single cells. Every single cell belongs to the United Kingdom of Single Cell and each cell is assigned a unique system code. The passport includes a picture of each cell and information on the origin of the species, time of development, tissue of origin, cell type, physiological status and an identifier. Monkey module will convert the matrix of cell information into images. Every single cell will be visualized directly, and basic science researchers will be able to perform single-cell analysis more efficiently.

: Rooster; Cross-species homologous gene conversion is essential in biological research. It allows scientists to identify and compare functionally similar genes across different species, revealing gene function conservation and evolutionary processes. This conversion is crucial for understanding complex biological mechanisms, developing new therapies, and validating gene functions in various model organisms. The Couple module converts genes from over 1,000 common species to their human homologs, providing conversion tables for users to query and download.

: Dog; Dog module is a disease-oriented gene-to-cell single-cell analysis. It provides correlations between disease-causing genes and cell type through disease enrichment analysis, which will help to localize disease-causing genes in cells.

: Pig; The Pig module serves as a platform for integrated genomics data mining, offering tools for analyzing single-cell data across multiple species. Currently, it includes enrichment for six aspects: PSEA, OSEA, SSEA, TSEA, ESEA, RSEA.