{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["De Rop FV"],"funding":["Stichting Tegen Kanker","European Research Council","Belgian Cancer Society","KU Leuven","Fonds Wetenschappelijk Onderzoek","Aligning Science Across Parkinson’s","Foundation Against Cancer","VIB Tech Watch","Michael J. Fox Foundation for Parkinson's Research"],"pagination":["e73971"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC8993220"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["11"],"pubmed_abstract":["Single-cell RNA-seq and single-cell assay for transposase-accessible chromatin (ATAC-seq) technologies are used extensively to create cell type atlases for a wide range of organisms, tissues, and disease processes. To increase the scale of these atlases, lower the cost and pave the way for more specialized multiome assays, custom droplet microfluidics may provide solutions complementary to commercial setups. We developed HyDrop, a flexible and open-source droplet microfluidic platform encompassing three protocols. The first protocol involves creating dissolvable hydrogel beads with custom oligos that can be released in the droplets. In the second protocol, we demonstrate the use of these beads for HyDrop-ATAC, a low-cost noncommercial scATAC-seq protocol in droplets. After validating HyDro"],"journal":["eLife"],"pubmed_title":["Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads."],"pmcid":["PMC8993220"],"funding_grant_id":["ASAP-000430","C14/18/092","724226_cis- CONTROL","2016-070","G0B5619N","724226"],"pubmed_authors":["Christiaens VM","Flerin CC","Marcassa G","Janssens J","Aerts S","de Wit J","Wouters J","Poovathingal S","Ismail JN","De Rop FV","Bravo Gonzalez-Blas C","Theunis K","Hulselmans GJ"],"additional_accession":[]},"is_claimable":false,"name":"Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads.","description":"Single-cell RNA-seq and single-cell assay for transposase-accessible chromatin (ATAC-seq) technologies are used extensively to create cell type atlases for a wide range of organisms, tissues, and disease processes. To increase the scale of these atlases, lower the cost and pave the way for more specialized multiome assays, custom droplet microfluidics may provide solutions complementary to commercial setups. We developed HyDrop, a flexible and open-source droplet microfluidic platform encompassing three protocols. The first protocol involves creating dissolvable hydrogel beads with custom oligos that can be released in the droplets. In the second protocol, we demonstrate the use of these beads for HyDrop-ATAC, a low-cost noncommercial scATAC-seq protocol in droplets. After validating HyDro","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Feb","modification":"2026-05-31T06:01:56.818Z","creation":"2025-02-19T01:54:57.158Z"},"accession":"S-EPMC8993220","cross_references":{"pubmed":["35195064"],"doi":["10.7554/eLife.73971"]}}