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The aim of this study was to compare transcriptome differences between lrpap1-/- mutant and wild-type zebrafish eyeballs. Eye tissue mRNA profiles of three-month-old wild-type (WT) and low-density lipoprotein receptor-related protein-associated protein 1 knockout (lrpap1-/-) zebrafishes were generated by deep sequencing using Illumina HiSeq2500. RNA-seq reads were aligned to the zebrafish genome(Ensembl, GRCz11) using HISAT2, TPM was used to further normalize gene expression counts between all samples. Differentially expressed genes (DEG) were determined by DESeq2, which was based on the Negative Binomial Generalize Linear Model. Finally, there are 1661 differentially expressed genes between the mutant and the wild-type zebrafish eyeballs using the criterion of p-value 1 ,among which 1209 genes are up-regulated, and 452 genes are down-regulated in the mutants. Our study shows the first detailed analysis of zebrafish eyes transcriptomes by RNA-seq technology. The transcriptome information provided in this study may help to reveal the molecular mechanism of genetic myopia. Overall design: mRNA profiles of three-month-old wild type (WT) and lrpap1-/- zebrafish eyes."],"repository":["ENA"],"description_synonyms":["RAP, zebra fish, MGC130048, HBP44, MYP23, leopard danio, visual_system, Zebra Fish, SGCG_HUMAN, compound eye, determination, 35 kDa dystrophin-associated glycoprotein, regio orbitalis, AA617339, SG-gamma, adult compound eye, A4, RNA-seq, vertebrate eye, TYPE, visual apparatus., SGCG, LGMD2C, DAGA4, Eyes, zebra danio, camera-type eye plus associated structures, Facettenauge, chemical analysis, Danio rerio frankei, 35DAG, MRAP, eye, Whole Transcriptome Shotgun Sequencing, Brachydanio rerio, sarcoglycan, MAM, gamma-SG, Cyprinus rerio, zusammengesetztes Auge, SCG3, D. rerios, eyeball, gamma sarcoglycan, Orbital region, Zebra, Danio rerio, DMDA1, Danio frankei, Zebrafishes, eyes, visual system, Orbital part of face, Fishes, danio, gamma (35kDa dystrophin-associated glycoprotein), Zebra danios, Zebra danio, C77774, DMDA, AU042172, Komplexauge, alpha-2-MRAP, A2MRAP, orbital region, orbital part of face, 35kD dystrophin-associated glycoprotein, B. rerio, SCARMD2, Zebra Fishes, D. rerio, gamma-sarcoglycan, assay, AI790446, A2RAP, zebrafish, Brachydanio rerio frankei"],"name_synonyms":["RAP, zebra fish, MGC130048, HBP44, MYP23, leopard danio, visual_system, Zebra Fish, SGCG_HUMAN, compound eye, determination, 35 kDa dystrophin-associated glycoprotein, regio orbitalis, AA617339, SG-gamma, adult compound eye, A4, RNA-seq, vertebrate eye, TYPE, visual apparatus., SGCG, LGMD2C, DAGA4, Eyes, zebra danio, camera-type eye plus associated structures, Facettenauge, chemical analysis, Danio rerio frankei, 35DAG, MRAP, eye, Whole Transcriptome Shotgun Sequencing, Brachydanio rerio, sarcoglycan, MAM, gamma-SG, Cyprinus rerio, zusammengesetztes Auge, SCG3, D. rerios, eyeball, gamma sarcoglycan, Orbital region, Zebra, Danio rerio, DMDA1, Danio frankei, Zebrafishes, eyes, visual system, Orbital part of face, Fishes, danio, gamma (35kDa dystrophin-associated glycoprotein), Zebra danios, Zebra danio, C77774, DMDA, AU042172, Komplexauge, alpha-2-MRAP, A2MRAP, orbital region, orbital part of face, 35kD dystrophin-associated glycoprotein, B. rerio, SCARMD2, Zebra Fishes, D. rerio, gamma-sarcoglycan, assay, AI790446, A2RAP, zebrafish, Brachydanio rerio frankei"],"additional_accession":[]},"is_claimable":false,"name":"RNA-Seq analysis of Wild Type and lrpap1-/- zebrafish eyes at three month","description":"RNA-Seq analysis of Wild Type and lrpap1-/- zebrafish eyes at three month","dates":{"last_updated":"2025-09-24","first_public":"2021-11-03"},"accession":"PRJNA776645","cross_references":{"GEO":["GSE186889"],"taxon":["7955"],"PubMed":["36261846"]}}