Project description:This study used droplet-based snATAC-seq to profile gene expression of 45,103 nuclei in the developing marmoset female and male gonads across several timepoints during development, from gestational day (GD) 92 until 3 weeks after birth (wo). Embryos were collected via hysterotomy. A specialized veterinarian performed all surgical procedures, including anesthesia and analgesia. Additionally, postnatal samples from newborn and 3weeks-old marmoset were collected following euthanasia. Single-cell barcoding and library preparation were performed using 10x single-cell ATAC reagent kit (v1.0) and a Chromium controller. Libraries were sequenced using paired-reads on Illumina NextSeq 550 and initial data processing was performed using Cellranger ATAC (1.1).
Project description:This study used droplet-based snATAC-seq to profile the chromatin accessibility landscape of 22,032 nuclei in the developing marmoset female and male gonads across several timepoints during development, from gestational day (GD) 74 until 3 weeks after birth (wo). Embryos were collected via hysterotomy. A specialized veterinarian performed all surgical procedures, including anesthesia and analgesia. Additionally, postnatal samples from newborn and 3 weeks-old marmoset were collected following euthanasia. Single-cell barcoding and library preparation were performed using Chromium Single Cell 3' Reagent Kits (v3 chemistry) and the Chromium Controller instrument (10x Genomics). Sequencing of the libraries was carried out on the Illumina NextSeq 500/550 and initial data processing was performed using Cellranger.
Project description:This study used droplet-based snRNA-seq to profile the gene expression of 127,371 nuclei in the developing human female and male gonads across eleven timepoints, from Carnegie Stage (CS) 14 until 21 weeks post conception (WPC). For most timepoints the study includes two biological replicates for each sex. Additionally, the study includes three technical replicates of a Klinefelter Syndrome (XXY karyotype) testis sample at 13WPC. Human prenatal tissue samples were provided by the MRC-Wellcome Trust Human Developmental Biology Resource (HDBR) and obtained from elective terminations of pregnancy. The samples were classified according to a particular Carnegie stage or week post conception based on their external physical appearance and measurements. Single-cell barcoding and library preparation were performed using Chromium Single Cell 3' Reagent Kits (v3 chemistry) and the Chromium Controller instrument (10x Genomics). Sequencing of the libraries was carried out on the Illumina NextSeq 500/550 and initial data processing was performed using Cellranger.
Project description:Single-nucleus RNA sequencing (snRNA-seq) was used to profile the transcriptome of 7,318 nuclei in marmoset adult testis. This dataset includes two samples from two different individuals. This dataset is part of a larger evolutionary study of adult testis at the single-nucleus level (97,521 single-nuclei in total) across mammals including 10 representatives of the three main mammalian lineages: human, chimpanzee, bonobo, gorilla, gibbon, rhesus macaque, marmoset, mouse (placental mammals); grey short-tailed opossum (marsupials); and platypus (egg-laying monotremes). Corresponding data were generated for a bird (red junglefowl, the progenitor of domestic chicken), to be used as an evolutionary outgroup.
Project description:This study used droplet-based snATAC-seq to profile the chromatin accessibility landscape of 22,032 nuclei in the developing human female and male gonads across several timepoints during prenatal development, from Carnegie Stage (CS) 17 until 21 weeks post conception (WPC). For most timepoints the study includes two biological replicates for each sex. Additionally, the study includes three technical replicates of a Klinefelter Syndrome (XXY karyotype) testis sample at 13WPC. Human prenatal tissue samples were provided by the MRC-Wellcome Trust Human Developmental Biology Resource (HDBR) and obtained from elective terminations of pregnancy. The samples were classified according to a particular Carnegie stage or week post conception based on their external physical appearance and measurements. Single-cell barcoding and library preparation were performed using 10x single-cell ATAC reagent kit (v1.0) and a Chromium controller. Libraries were sequenced using paired-reads on Illumina NextSeq 550 and initial data processing was performed using Cellranger ATAC (1.1).