GEO Browser - GEO

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95 series

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Accession	Title	Series type(s)	Organism(s)	Samples	Supplementary	Contact	Release date
Filter			Danio rerio		BED
GSE20600	Genome-wide identification of putative cis-regulatory elements through epigenetic profiling in zebrafish	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	6	BED WIG SRA Run Selector	Lihua Julie Zhu	Feb 25, 2011
GSE32483	Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	24	BED WIG SRA Run Selector	Ozren Bogdanovic	May 08, 2012
GSE32880	Conserved Function of lincRNAs in Vertebrate Embryonic Development Despite Rapid Sequence Evolution	Non-coding RNA profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	16	BAM BED BW SRA Run Selector	Igor Ulitsky	Dec 22, 2011
GSE34743	Ribosome profiling of early zebrafish embryos -- miRNA-mediated regulation during embryogenesis causes translational repression before mRNA decay	Expression profiling by high throughput sequencing	Danio rerio	22	BED SRA Run Selector	Antonio J. Giraldez	Mar 15, 2012
GSE35050	Extensive conservation of ancient microsynteny across metazoans	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	1	BED SRA Run Selector	Ozren Bogdanovic	Jun 21, 2012
GSE37453	Extensive alternative polyadenylation during zebrafish development	Expression profiling by high throughput sequencing	Danio rerio	14	BED BW TXT SRA Run Selector	Igor Ulitsky	Jun 17, 2012
GSE41458	Zic3 interacts with distant regulatory elements to regulate zebrafish developmental genes	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	4	BED TXT SRA Run Selector	Vibhor Kumar	Feb 27, 2014
GSE43512	Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates	Methylation profiling by high throughput sequencing	Anolis carolinensis Danio rerio Gallus gallus Homo sapiens Mus musculus Ornithorhynchus anatinus Xenopus tropicalis	24	BED SRA Run Selector	David Sims	Jan 22, 2013
GSE48254	A Cdx4-Sall4 regulatory module controls the transition from mesoderm formation to embryonic hematopoiesis	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	7	BED BW SRA Run Selector	Shaun Mahony	Dec 02, 2013
GSE52110	Whole genome methylation profiling in developing and developed Zebrafish	Methylation profiling by high throughput sequencing	Danio rerio	11	BED SRA Run Selector	David McGaughey	Mar 25, 2014
GSE68087	Active DNA demethylation at enhancers during the vertebrate phylotypic period	Methylation profiling by high throughput sequencing Expression profiling by high throughput sequencing	Danio rerio Mus musculus Xenopus tropicalis	30	BED TXT SRA Run Selector	Ozren Bogdanovic	Jan 29, 2016
GSE70847	Genome-wide epigenetic cross-talk between DNA methylation and H3K27me3 in zebrafish embryos	Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing	Danio rerio	5	BED SRA Run Selector	Ozren Bogdanovic	Jul 22, 2015
GSE71346	Next Generation Sequencing Facilitates Quantitative Analysis of Ochratoxin A treated with 6-48 hpf zebrafish embryos	Non-coding RNA profiling by high throughput sequencing	Danio rerio	2	BED SRA Run Selector	Ting-Shuan Wu	Jul 16, 2018
GSE71434	Allelic reprogramming of the histone modification H3K4me3 in early mammalian development	Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throughput sequencing	Danio rerio Mus musculus	57	BED TXT SRA Run Selector	Bingjie Zhang	Sep 15, 2016
GSE72208	An evolutionarily conserved DNA-encoded logic shapes CpG island formation	Methylation profiling by high throughput sequencing	Danio rerio Mus musculus	17	BED SRA Run Selector	Hannah Katherine Long	Apr 18, 2016
GSE74231	Enhancers reside in a unique epigenetic environment during early zebrafish development [ChIP-seq & ATAC-seq]	Genome binding/occupancy profiling by high throughput sequencing Other	Danio rerio	7	BED COD SRA Run Selector	lucas kaaij	Nov 06, 2015
GSE74617	Enhancers reside in a unique epigenetic environment during early zebrafish development	Genome binding/occupancy profiling by high throughput sequencing Other	Danio rerio	24	BED COD WIG	lucas kaaij	Nov 06, 2015
GSE75734	Comparative analyses of super-enhancers reveal conserved elements in vertebrate genomes	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	18	BED WIG SRA Run Selector	Yuvia Alheli Perez Rico	Nov 14, 2016
GSE76212	Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition	Other	Danio rerio	13	BED SRA Run Selector	Karla M Neugebauer	Mar 24, 2017
GSE76740	Abundant DNA 6mA methylation during early embryogenesis of zebrafish	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	13	BED SRA Run Selector	Guan-Zheng Luo	Oct 10, 2016