biostudies-arrayexpressValentina LorenziHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15479scATAC-seq of first and second trimester human reproductive tract (including female and male internal and external genitalia)biostudies-arrayexpressLibrary Construction - Library preparation was carried out according to the manufacturer’s protocol.Sequencing - Libraries for scATAC-seq were sequenced on Illumina NovaSeq 6000, aiming at a minimum coverage of 10,000 fragments per cell, with the following sequencing format; read 1: 50 cycles; i7 index: 8 cycles, i5 index: 16 cycles; read 2: 50 cycles.Sample Collection - Single-nuclei suspensions were isolated from dissociated cells when performing scATAC-seq, following the manufacturers’ instructions, and from frozen tissue sections when performing multiomic snRNA-seq/scATAC-seq. For the latter, thick (300 µm) sections were cryosectioned, and kept in a tube on dry ice until subsequent processing. Nuclei were released via Dounce homogenisation as described in detail in the protocols.io.Nucleic Acid Extraction - For the scATAC-seq and multimodal snRNA-seq/scATAC-seq experiments, cells were loaded according to the manufacturer’s protocol for the Chromium Single Cell ATAC v2 and Chromium Next GEM Single Cell Multiome ATAC+Gene Expression (10X Genomics) to attain between 2,000 and 10,000 cells per well.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - scATAC-seq libraries were processed (read filtering, alignment, barcode counting, and cell calling) with 10x Genomics Cell Ranger ATAC pipeline v.2 using the pre-built 10x GRCh38 genome (version 3.1.0) as reference.UnknownTranscriptomicsGenomicsIllumina NovaSeq 6000scATAC-seqHomo sapiensRoser Vento TormoValentina LorenziLuz Garcia AlonsofalsescATAC-seq of first and second trimester human reproductive tractscATAC-seq of first and second trimester human reproductive tract (including female and male internal and external genitalia)2025-08-07T00:00:00Z2025-08-07T23:45:50.117Z2025-08-07T23:45:50.117ZE-MTAB-15479ERP178531EFO_0002944EFO_0004170EFO_0010891EFO_0005518EFO_0003816EFO_0004184