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To date, the majority of efforts to study cellular heterogeneity in testis has been focused on single-cell gene expression rather than the chromatin landscape shaping gene expression. To advance our understanding of the regulatory programs underlying testicular cell types, we analyzed single-cell chromatin accessibility profiles in more than 25,000 cells from mouse developing testis. We showed that single-cell sequencing assay for transposase-accessible chromatin (scATAC-Seq) allowed us to deconvolve distinct cell populations and identify\n                    <jats:italic>cis<\/jats:italic>\n                    -regulatory elements (CREs) underlying cell-type specification. We identified sets of transcription factors associated with cell type-specific accessibility, revealing novel regulators of cell fate specification and maintenance. Pseudotime reconstruction revealed detailed regulatory dynamics coordinating the sequential developmental progressions of germ cells and somatic cells. This high-resolution dataset also unveiled previously unreported subpopulations within both the Sertoli and Leydig cell groups. Further, we defined candidate target cell types and genes of several genome-wide association study (GWAS) signals, including those associated with testosterone levels and coronary artery disease. Collectively, our data provide a blueprint of the \u2018regulon\u2019 of the mouse male germline and supporting somatic cells.\n                  <\/jats:p>","DOI":"10.7554\/elife.75624","type":"journal-article","created":{"date-parts":[[2023,4,25]],"date-time":"2023-04-25T06:17:07Z","timestamp":1682403427000},"update-policy":"https:\/\/doi.org\/10.7554\/elife.75624","source":"Crossref","is-referenced-by-count":15,"title":["The single-cell chromatin accessibility landscape in mouse perinatal testis development"],"prefix":"10.7554","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4060-8603","authenticated-orcid":true,"given":"Hoi Ching","family":"Suen","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/00t33hh48","id-type":"ROR","asserted-by":"publisher"}],"name":"Developmental and Regenerative Biology Program, School of Biomedical Sciences, Faculty of Medicine, The Chinese University of Hong Kong, Shatin","place":["Hong Kong, Hong 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