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101 series

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Accession	Title	Series type(s)	Organism(s)	Samples	Supplementary	Contact	Release date
Filter		Genome binding/occupancy profiling by high throughput sequencing	Danio rerio		BW
GSE68737	A single 3D chromatin compartment in amphioxus Hox cluster suggests a stepwise evolutionary origin for vertebrate Hox bimodal regulatory topologies	Other Genome binding/occupancy profiling by high throughput sequencing	Branchiostoma lanceolatum Danio rerio	74	BEDGRAPH BW FA SRA Run Selector	Juan J. Tena	Dec 16, 2015
GSE142238	Cross-species analysis of melanoma enhancer logic using deep learning	Genome binding/occupancy profiling by high throughput sequencing	Canis lupus familiaris Danio rerio Equus caballus Homo sapiens Mus musculus Sus scrofa domesticus	23	BW SRA Run Selector	Stein Aerts	Apr 22, 2020
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
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
GSE70727	Genome-wide mapping of Hif-1α binding sites in zebrafish [ChIP-seq]	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	4	BW TXT SRA Run Selector	Justin Jeyakani Joseph Gnanakkan	Mar 22, 2016
GSE70886	Genome-wide mapping of Hif-1α binding sites in zebrafish	Genome binding/occupancy profiling by high throughput sequencing Expression profiling by array	Danio rerio	10	BW TXT	Justin Jeyakani Joseph Gnanakkan	Mar 22, 2016
GSE75356	A zebrafish melanoma model reveals emergence of neural crest identity during melanoma initiation	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Other Expression profiling by array	Danio rerio Homo sapiens	48	BW NARROWPEAK	Leonard Zon	Feb 01, 2016
GSE89670	The Biotagging toolkit for analysis of specific cell populations in zebrafish reveals gene regulatory logic encoded in the nuclear transcriptome	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	18	BW SRA Run Selector	Tatjana Sauka-Spengler	Apr 07, 2017
GSE90637	Differential Roles of the Maternal and Zygotic FGF in Neural Induction in the Zebrafish Embryo	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	8	BW TXT SRA Run Selector	Juan J. Tena	Nov 29, 2019
GSE94933	Genomic dissection of conserved transcriptional regulation in intestinal epithelial cells [zebrafish]	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	7	BED BW TXT SRA Run Selector	John Rawls	May 02, 2017
GSE94936	Genomic dissection of conserved transcriptional regulation in intestinal epithelial cells	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio Gasterosteus aculeatus Homo sapiens	21	BED BW TXT	John Rawls	May 02, 2017
GSE95030	‘Placeholder’ nucleosomes underlie germline-to-embryo DNA methylation reprogramming [ChIP-Seq]	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	49	BED BW SRA Run Selector	Patrick Murphy	Dec 12, 2017
GSE96576	Identification of Gon4l-associated genomic regions by DamID-seq	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	6	BW SRA Run Selector	Bo Zhang	Sep 13, 2017
GSE97255	FANS-assisted ATAC-Seq to identify developmentally active endothelial enhancers [ATAC-seq]	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	6	BW NARROWPEAK SRA Run Selector	Nathan D. Lawson	Jun 08, 2017
GSE97257	FANS-assisted ATAC-Seq to identify developmentally active endothelial enhancers	Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throughput sequencing	Danio rerio	10	BW NARROWPEAK	Nathan D. Lawson	Jun 08, 2017
GSE101779	Inherited DNA methylation primes the establishment of accessible chromatin during genome activation	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	38	BW SRA Run Selector	Yong Zhang	May 16, 2018
GSE106341	Comparative chromatin accessibility profiling of wildtype and supt16h-/- zebrafish using ATAC-sequencing	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	12	BW XLSX SRA Run Selector	David Traver	Sep 01, 2020
GSE106676	From pioneer to repressor: Bimodal foxd3 activity dynamically remodels neural crest regulatory landscape in vivo	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	151	BED BW TXT WIG SRA Run Selector	Tatjana Sauka-Spengler	Dec 07, 2018
GSE109219	The evolutionary emergence of the rac3b/rfng/sgca regulatory cluster refined mechanisms for hindbrain boundaries formation	Genome binding/occupancy profiling by high throughput sequencing Other	Danio rerio	4	BEDGRAPH BW SRA Run Selector	Juan J. Tena	Apr 25, 2018
GSE113471	Krox20 hindbrain regulation in Zebrafish [ATAC-seq]	Genome binding/occupancy profiling by high throughput sequencing	Danio rerio	10	BW SRA Run Selector	samuel Collombet	Jul 26, 2018