🐾 Species

Tissues 13

Caudal fin Gill Heart Kidney Liver Ovary PBMC Retina and pigment epithelium Skeletal muscle Skin Spleen Testis Whole brain

Species / Fishes / Zebrafish

Zebrafish

Danio rerio

Fishes

5.5 yrs

Max Lifespan

500 mg

Adult Weight

SP084

Species ID

Tissues

Statistics Analysis

Species Overview

A small freshwater cyprinid (family Danionidae) native to South Asia (India, Bangladesh, Nepal, Myanmar). Adults measure 3–5 cm and weigh <1 g. They have a fusiform body with five distinctive horizontal blue-and-silver stripes running from head to tail, giving them their name. They are one of the most important vertebrate model organisms in biology. Their advantages include: (1) transparent embryos allowing live imaging of development; (2) rapid external development (embryogenesis in ~24 hours); (3) high fecundity (200–300 eggs per female per week); (4) short generation time (~3 months); (5) genetic tractability (mutagenesis, transgenics, CRISPR); (6) extensive genomic resources (genome sequenced 2013, 2n=50, ~26,000 genes, ~70% with human orthologs). They are used in genetics, developmental biology, neuroscience, drug screening, toxicology, cancer, cardiovascular disease, and regenerative medicine (they can regenerate heart, fins, retina, and brain). They inhabit shallow, slow-flowing streams and rice paddies. Omnivorous: insects, zooplankton, and algae. Lifespan: 3–5 years. Thousands of mutant and transgenic lines exist. IUCN: Least Concern.

Integrated UMAP Atlas & Gene Explorer

Data processing BioID-standardised Input: Processed matrix Methods Per-dataset records

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Biological System Atlas

9Systems

Cardiovascular system

ID: sys03

ID: sys05

ID: sys02

ID: sys08

ID: sys01

ID: sys06

ID: sys04

ID: sys10

ID: sys09

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Tissue-Level Cell Distribution

13Tissues

Caudal fin

ID: sys08tis05System: Motor system

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Gill

ID: sys04tis05System: Respiratory system

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Heart

ID: sys03tis03System: Cardiovascular system

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Kidney

ID: sys09tis01System: Urinary system

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Liver

ID: sys05tis01System: Digestive system

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Ovary

ID: sys06tis06System: Reproductive system

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PBMC

ID: sys02tis03System: Immune system

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Retina and pigment epithelium

ID: sys01tis19System: Nervous system

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Skeletal muscle

ID: sys08tis01System: Motor system

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Skin

ID: sys10tis02System: Sensory system

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Spleen

ID: sys02tis04System: Immune system

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DataID ↕	Latin Name ↕	Folder ID ↕	Tissue ↕	Title ↕	QC	Analysis
Data0105	Danio rerio	Danio_rerio_34660600_2021_Rank002	Brain	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0104	Danio rerio	Danio_rerio_34660600_2021_Rank001	Blood	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0107	Danio rerio	Danio_rerio_34660600_2021_Rank004	Eye	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0117	Danio rerio	Danio_rerio_34660600_2021_Rank014	Spleen	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0109	Danio rerio	Danio_rerio_34660600_2021_Rank006	Heart	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0108	Danio rerio	Danio_rerio_34660600_2021_Rank005	Gill	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0112	Danio rerio	Danio_rerio_34660600_2021_Rank009	Liver	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0119	Danio rerio	Danio_rerio_34660600_2021_Rank016	Testis	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0115	Danio rerio	Danio_rerio_34660600_2021_Rank012	Ovary	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0114	Danio rerio	Danio_rerio_34660600_2021_Rank011	Muscle	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0106	Danio rerio	Danio_rerio_34660600_2021_Rank003	Caudal fin	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0111	Danio rerio	Danio_rerio_34660600_2021_Rank008	Kidney	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0116	Danio rerio	Danio_rerio_34660600_2021_Rank013	Skin	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0110	Danio rerio	Danio_rerio_34660600_2021_Rank007	Intestine&Pancreas	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0113	Danio rerio	Danio_rerio_34660600_2021_Rank010	Mergeall	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0118	Danio rerio	Danio_rerio_34660600_2021_Rank015	Swim bladder	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0120	Danio rerio	Danio_rerio_34660600_2021_Rank017	Z24h	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data0121	Danio rerio	Danio_rerio_34660600_2021_Rank018	Z72h	Characterization of the Zebrafish Cell Landscape at Single-Cell Resolution.	QC	Analysis
Data1189	Danio rerio	Danio_rerio_31835035_2019_Rank0001	Brain	Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program	QC	Analysis
Data1190	Danio rerio	Danio_rerio_34824389_2022_Rank0001	Brain	Gene family evolution underlies cell-type diversification in the hypothalamus of teleosts	QC	Analysis
Data1410	Danio rerio	BS0000114;BS0000118	Brain	Cross-Species Single-Cell Analysis Reveals Divergence of the Primate Microglia Program;Gene family evolution underlies cell-type diversification in the hypothalamus of teleosts	QC	Analysis
Data1457	Danio rerio	GSE198571_Zebrafish_Aging_Atlas	Whole organism	Construction of a cross-species cell landscape at single-cell level.	QC	Aging Analysis

Zebrafish

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