Danio rerio
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA156231 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:This SuperSeries is composed of the following subset Series: GSE34682: Expression analysis of Nanog-like-MO1 injected zebrafish embryos at the sphere stage GSE34683: Genome-wide maps of binding sites of Nanog-like and Mxtx2 in blastula stage zebrafish embryos Refer to individual Series
2011-12-28 | E-GEOD-34684 | biostudies-arrayexpress
Project description:Investigation of whole genome gene expression level changes in nanog-like knockdown embryos , compared to the control-MO injected embryos. Knockdown of nanog-like impaired early gastrulation. To globally analyze which target genes Nanog-like regulates during early embryogenesis, we performed a genome-wide transcription analysis using sphere stage (4 hpf) nanog-like morphants. A six chip study using total RNA recovered from three separate control-MO injected embryos and three separate nanog-like-MO1 injected embryos at the sphere stage
2011-12-28 | E-GEOD-34682 | biostudies-arrayexpress
Project description:Investigation of whole genome gene expression level changes in nanog-like knockdown embryos , compared to the control-MO injected embryos. Knockdown of nanog-like impaired early gastrulation. To globally analyze which target genes Nanog-like regulates during early embryogenesis, we performed a genome-wide transcription analysis using sphere stage (4 hpf) nanog-like morphants.
2011-12-28 | GSE34682 | GEO
Project description:Zebrafish 22 hpf embryos: WT vs. MO-grnA injected
| PRJNA139337 | ENA
Project description:Genome-wide maps of binding sites of Nanog-like and Mxtx2 in blastula stage zebrafish embryos
| PRJNA156233 | ENA
Project description:Zebrafish embryos: Control MO vs. Lin28A MO vs. Lin28B MO injected
| PRJNA229134 | ENA
Project description:This project aimed at identifying developmental stage specific transcript profiles for catecholaminergic neurons in embryos and early larvae of zebrafish (Danio rerio). Catecholaminergic neurons were labeled using transgenic zebrafish strains to drive expression of GFP. At stages 24, 36, 72 and 96 hrs post fertilization, embryos were dissociated and GFP expressing cells sorted by FACS. Isolated RNAs were processed using either polyA selection and libray generation or NanoCAGE. This is the first effort to determine stage specific mRNA profiles of catecholaminergic neurons in zebrafish.
2012-10-15 | GSE41373 | GEO
Project description:RNAseq of wild type and maternal-zygotic Nanog mutant (MZnanog) zebrafish embryos
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Project description:Expression data after Dmrt2a brief overexpression at bud-stage zebrafish embryos
| PRJNA400184 | ENA
Project description:This project aimed at identifying developmental stage specific transcript profiles for catecholaminergic neurons in embryos and early larvae of zebrafish (Danio rerio). Catecholaminergic neurons were labeled using transgenic zebrafish strains to drive expression of GFP. At stages 24, 36, 72 and 96 hrs post fertilization, embryos were dissociated and GFP expressing cells sorted by FACS. Isolated RNAs were processed using either polyA selection and libray generation or NanoCAGE. This is the first effort to determine stage specific mRNA profiles of catecholaminergic neurons in zebrafish. Catecholaminergic neurons were labeled by four different strategies: (1) 24 hrs old embryos: we used the ETvmat2:GFP transgenic line (Wen et al. 2007). Visualization of monoaminergic neurons and neurotoxicity of MPTP in live transgenic zebrafish. Dev Biol. 2008 Vol 314 p84-92) which at this early stage labels catecholaminergic neurons in posterior tuberculum and locus coeruleus; (2) 24 hrs old embryos: we used Tg(otpb.A:egfp)zc48 transgenic line (Fujimoto et al. Identification of a dopaminergic enhancer indicates complexity in vertebrate dopamine neuron phenotype specification. Dev Biol 2011, Vol 352, p393–404) which at this stage label ventral diencephalic dopaminergic neurons and some preoptic neurons. (3) For 72 and 96 hrs old zebrafish larvae we used a th:GFP BAC transgenic lines that labels catecholaminergic neurons (Tay et al., Comprehensive catecholaminergic projectome analysis reveals single-neuron integration of zebrafish ascending and descending dopaminergic systems. Nat Comms 2011 Vol 2, 171; also: T. Leng and W. Driever, unpublished). (4) for the 36 and 48 hrs old zebrafish larvae we used a th:Gal4VP16 driver and UAS:EGFP responder transgenic line system to label catecholaminergic cells (Fernandes et al., Deep brain photoreceptors control light-seeking behavior in zebrafish larvae. Curr Biol. 2012 Vol 22 DOI 10.1016/j.cub.2012.08.016). We used the different transgenic lines, because lines (3) and (4) do not efficiently label catecholaminergic neurons at early stages, while lines (1) and (2) also have GFP expression in several other non-catecholaminergic populations at later stages of development. Embryos were dissociated and catecholaminergic neurons were FACS sorted from GFP-tagged zebrafish (Manoli and Driever, 2012, Cold Spring Harbor Protoc. DOI 10.1101/pdb.prot069633). RNA was either processed for NanoCAGE, or mRNA was isolated and amplified. cDNA was sequenced by Illumina technique. This data submission is a series of data files consisting of three independent experiments with diffrent RNA-Seq depth: Samples 1-4 (NanoCage): Samples 5-8 (RNA-Seq high read numbers), and SAmples 9-12 (RNA-Seq low read numbers).
2012-10-15 | E-GEOD-41373 | biostudies-arrayexpress