GEO Browser - GEO

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545 series

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Accession	Title	Series type(s)	Organism(s)	Samples	Supplementary	Contact	Release date
Filter					BEDPE
GSE169088	3D genomics across the tree of life reveals condensin II as a determinant of architecture type	Other	Acropora millepora Aedes aegypti Agaricus bisporus Aplysia californica Arachis hypogaea Branchiostoma lanceolatum Caenorhabditis elegans Chiloscyllium punctatum Ciona intestinalis Clonorchis sinensis Cristatella mucedo Culex quinquefasciatus Drosophila melanogaster Gallus gallus Homo sapiens Hypsibius dujardini Lethenteron camtschaticum Muntiacus muntjak Muntiacus reevesi Notamacropus eugenii Pleurobrachia bachei Pygocentrus nattereri Python bivittatus Saccharomyces cerevisiae Strongylocentrotus purpuratus Triticum aestivum Xenopus laevis	32	BEDPE FASTA HIC VCF WIG SRA Run Selector	Olga Dudchenko	Apr 23, 2021
GSE121111	Approaches for Surveying Cosmic Radiation Damage in Large Populations of Arabidopsis thaliana Seeds- an Antarctic Example	Genome variation profiling by high throughput sequencing	Arabidopsis thaliana	5	BEDPE SRA Run Selector	Robert J. Ferl	Dec 20, 2018
GSE163845	Genome-wide identification of RNA-chromatin interactions in Arabidopsis	Genome binding/occupancy profiling by high throughput sequencing Other	Arabidopsis thaliana	12	BEDPE SRA Run Selector	Yijun Qi	Aug 27, 2021
GSE268050	Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample	Other Third-party reanalysis	Bos taurus Elephas maximus indicus Equus asinus Homo sapiens Mammuthus primigenius	136	BED BEDGRAPH BEDPE FASTA HIC SW TXT XLSX	Olga Dudchenko	May 22, 2024
GSE231771	HiCAR analysis of zebrafish fin regeneration identifies cis-regulatory chromatin reorganization in response to injury	Other	Danio rerio	9	BEDPE	jianhong ou	Dec 22, 2023
GSE247396	Transcription and loop extrusion cooperatively shape the 3D genome of developing slime mold Dictyostelium discoideum [Hi-C]	Other	Dictyostelium discoideum	8	BEDPE MCOOL	Irina V Zhegalova	Dec 31, 2024
GSE122603	Chromatin architecture reorganisation during neuronal cell differentiation in Drosophila genome	Other	Drosophila melanogaster	4	BED BEDPE SRA Run Selector	Nicolae Radu Zabet	Jan 18, 2019
GSE146750	CTCF is required to form regulatory and physical boundaries at limited sites in the Drosophila nervous system [Hi-C]	Other	Drosophila melanogaster	8	BED BEDPE SRA Run Selector	Maria Cristina Gambetta	Jan 18, 2021
GSE146752	CTCF is required to form regulatory and physical boundaries at limited sites in the Drosophila nervous system	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Other	Drosophila melanogaster	33	BEDPE BW TXT	Maria Cristina Gambetta	Jan 18, 2021
GSE147059	The role of insulators and transcription in 3D chromatin organisation of flies	Other Expression profiling by high throughput sequencing	Drosophila melanogaster	18	BED BEDPE TXT SRA Run Selector	Nicolae Radu Zabet	Feb 07, 2022
GSE180375	Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [HiC]	Other	Drosophila melanogaster	16	BED BEDPE SRA Run Selector	Maria Cristina Gambetta	May 12, 2022
GSE180376	Essential role of Cp190 in physical and regulatory boundary formation in Drosophila	Genome binding/occupancy profiling by high throughput sequencing Other	Drosophila melanogaster	48	BEDGRAPH BEDPE BW	Maria Cristina Gambetta	May 12, 2022
GSE218168	GAGA-Associated Factor Fosters Loop Formation in the Drosophila Genome	Expression profiling by high throughput sequencing Other	Drosophila melanogaster	30	BEDPE BIGWIG COOL TXT XLSX	Michael Levine	Feb 14, 2023
GSE150006	The connectome of neural crest enhancers reveals regulatory features of signaling systems	Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Other	Gallus gallus	25	BEDPE BW CSV SRA Run Selector	Marcos Simoes-Costa	Apr 03, 2021
GSE29098	ChimeraScan: A tool for identifying chimeric transcription in sequencing data	Expression profiling by high throughput sequencing	Homo sapiens	3	BAM BEDPE SRA Run Selector	Matthew Iyer	Sep 01, 2011
GSE58135	Breast Cancer RNA-seq	Expression profiling by high throughput sequencing	Homo sapiens	168	BEDPE FPKM_TRACKING SRA Run Selector	Katherine E Varley	Jun 11, 2014
GSE60623	Identifying multi-locus chromatin contacts in human cells using tethered multiple 3C	Other	Homo sapiens	4	BEDPE BEDQE BEDTE SRA Run Selector	Ferhat Ay	Apr 29, 2015
GSE62742	Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions	Genome binding/occupancy profiling by high throughput sequencing Third-party reanalysis	Homo sapiens	249	BEDPE BIGWIG NARROWPEAK TXT SRA Run Selector	Fabian Grubert	Aug 20, 2015
GSE69600	Capture Hi-C reveals novel candidate genes and complex long-range interactions with related autoimmune risk loci	Other	Homo sapiens	4	BED BEDPE SRA Run Selector	Paul Martin	Nov 24, 2015
GSE71551	Characterization of t(15;21) translocations in myeloid disorders	Expression profiling by high throughput sequencing	Homo sapiens	2	BEDPE SRA Run Selector	Alberto L'Abbate	Jul 29, 2016