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ProteomicsZnf598-mediated Rps10/eS10 Ubiquitination contributes to the ribosome ubiquitination dynamics during zebrafish development
The ribosome is a translational apparatus that comprises about 80 ribosomal proteins and four rRNAs. Recent studies reported that ubiquitination of the ribosomal proteins plays a pivotal role in translational control and ribosome-associated quality control (RQC). However, little is known about the d...
ORGANISM(S): Danio Rerio 
PXD039560 | JPOST Repository
ProteomicsZebrafish embryo_phosphorylation_18O labeling
The zebrafish (Danio rerio) is a popular animal model in studies of vertebrate development and organogenesis. Recent research has shown a similarity of approximately 70% between the human and zebrafish genomes and of 84% in human disease-causing genes, specifically. Zebrafish embryos have a number o...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2015-10-14 | PXD002232 | Pride
: zebrafish embryo 18o labeling Global phosphoproteome 
TranscriptomicsTranscriptomic analyses of Myc-induced zebrafish liver cancer
To study the characteristics and mechanisms of Myc-induced zebrafish liver tumor, next-generation sequencing-based SAGE analyses were used to examine the transcriptomes of tumor and control samples. The results indicated that ribosome proteins were overwhelmingly up-regulated in the Myc-induced live...
ORGANISM(S): Danio rerio 
2013-04-02 | E-GEOD-40745 | biostudies-arrayexpress
TranscriptomicsAdult zebrafish: cornea vs dermis
Transcriptional profiling of adult zebrafish cornea against dermis as a reference. Three biological repeats with dye swap (6 chips of 1x22k for 6 data sets).
ORGANISM(S): Danio rerio 
2015-02-19 | E-GEOD-24593 | biostudies-arrayexpress
ProteomicsZebrafish Deyolking Survey - A Survey of the Impact of Deyolking on Biological Processes Covered by Shotgun Proteomic Analyses of Zebrafish Embryos
Deyolking, the removal of the most abundant protein from the zebrafish (Danio rerio) embryo, is a common technique for in-depth exploration of proteome-level changes in vivo due to various environmental stressors or pharmacological impacts during embryonic stage of development. However, the effect o...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2015-10-14 | PXD002124 | Pride
Bioinformatics Label-free proteomics Zebrafish Deyolking 
GenomicsGenome-wide identification of putative cis-regulatory elements through epigenetic profiling in zebrafish
In this study, we have applied ChIP-Seq to identify putative regulatory elements throughout the zebrafish genome. For this purpose we identified sequences within the zebrafish genome that associate with H3K4me1 and H3K4me3, which are epigenetic modifications known to be associated with active cis-r...
ORGANISM(S): Danio rerio 
2011-02-25 | E-GEOD-20600 | biostudies-arrayexpress
ProteomicsTop-down proteomics study of aging and sexual dimorphism of zebrafish brains
Here, we present the first example of studying the aging and sexual dimorphism of brains using the zebrafish (Danio rerio) model organism by mass spectrometry (MS)-based quantitative top-down proteomics (TDP). We measured the proteoforms in male and female zebrafish brains across three ages (6, 16, ...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2026-01-12 | PXD060426 | Pride
Central nervous system aging proteoform identification zebrafish 
OtherLipidomics of zebrafish liver tissues
Application of an untargeted liquid chromatography- high resolution mass spectrometry platform for lipidomics profiling of zebrafish liver tissues
ORGANISM(S): Danio Rerio (ncbitaxon:7955) 
2022-02-18 | MSV000088860 | MassIVE
TranscriptomicsAdult zebrafish: cornea vs epidermis
Transcriptional profiling of adult zebrafish cornea against epidermis as a reference. Four biological repeats with dye swap (2 chips of 4x44k for 8 data sets).
ORGANISM(S): Danio rerio 
2015-02-19 | E-GEOD-24595 | biostudies-arrayexpress
ProteomicsProteomic analysis of extracellular matrix remodeling during zebrafish heart regeneration
Adult zebrafish, in contrast to mammals, are able to regenerate their hearts in response to injury or experimental amputation. Our understanding of the cellular and molecular bases that underlie this process, although fragmentary, has increased significantly over the last years. However, the role of...
ORGANISM(S): Danio rerio (Zebrafish) (Brachydanio rerio) 
2019-08-26 | PXD010092 | Pride
Extracellular matrix  heart regeneration 
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