PUBLICATION
A ligand-receptor interactome atlas of the zebrafish
- Authors
- Chodkowski, M., Zielezinski, A., Anbalagan, S.
- ID
- ZDB-PUB-230804-47
- Date
- 2023
- Source
- iScience 26: 107309107309 (Journal)
- Registered Authors
- Anbalagan, Savani
- Keywords
- Cell biology, Omics, Specialized functions of cells
- MeSH Terms
- none
- PubMed
- 37539027 Full text @ iScience
Citation
Chodkowski, M., Zielezinski, A., Anbalagan, S. (2023) A ligand-receptor interactome atlas of the zebrafish. iScience. 26:107309107309.
Abstract
Studies in zebrafish can unravel the functions of cellular communication and thus identify novel bench-to-bedside drugs targeting cellular communication signaling molecules. Due to the incomplete annotation of zebrafish proteome, the knowledge of zebrafish receptors, ligands, and tools to explore their interactome is limited. To address this gap, we de novo predicted the cellular localization of zebrafish reference proteome using deep learning algorithm. We combined the predicted and existing annotations on cellular localization of zebrafish proteins and created repositories of zebrafish ligands, membrane receptome, and interactome as well as associated diseases and targeting drugs. Unlike other tools, our interactome atlas is based on both the physical interaction data of zebrafish proteome and existing human ligand-receptor pair databases. The resources are available as R and Python scripts. DanioTalk provides a novel resource for researchers interested in targeting cellular communication in zebrafish, as we demonstrate in applications studying synapse and axo-glial interactome. DanioTalk methodology can be applied to build and explore the ligand-receptor atlas of other non-mammalian model organisms.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping