biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsAymeric SilvinBD RhapsodyIllumina HiSeq 4000RNA-seq of coding RNA from single cellsMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14797Microglia are brain-resident macrophages critical for cerebral development, function and homeostasis. During development, yolk-sac-derived microglial progenitors colonize and populate the brain following a well-defined spatiotemporal pattern. However, the mechanisms driving microglial colonization and proliferation are largely unknown. Herein, using scRNA-seq of conditional inactivation of Colony Stimulating Factor 1 (Csf1), we revealed that embryonic cortical microglia critically rely on neural Csf1, mainly produced by cortical progenitors but also by post-mitotic neurons, and that the action of Csf1 is local, dose-dependent and transient. Alongside, intrinsic Csf1 expressed by ATM contributed to their sustained proliferation at developmental hotspots.biostudies-arrayexpressNucleic Acid Extraction - cells were captured and processed in a two run. Run 1 = Sample 1 ; Run 2 = Sample 2. Four sample tags were used in Run 1 (comprising 2 mix, and 2 wild type), pooled using the BDTM Ms Single Cell Sample Multiplexing Kit (Cat No: 633793). Six sample tags were used in Run 2 (comprising 1 mix, 2 wild type and 3 EMX1creCSF1flox)Sample Collection - CD45+ cells were enriched using CD45 microbeads from Miltenyi (Cat# 130-052-301) and the Automacs using possel function.Library Construction - The sample was processed according to the BD Rhapsody™ Whole Transcriptom protocolSequencing - ome Analysis (WTA) Amplification Kit (Cat No: 633801) and the BD Rhapsody™ Whole Transcriptome Analysis (WTA) Reagent Kit (Cat No: 665915). The library was then subjected to an indexed paired-end sequencing run of 2x151 cycles on an Illumina HiSeq 4000 system (Illumina, San Diego, CA, USA) with 20% PhiX spike in. Over 3 753 million reads were sequenced.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesAymeric SilvinfalseMicroglial colonization is shaped by intrinsic and extrinsic CSF-1 during early forebrain developmentMicroglia are brain-resident macrophages critical for cerebral development, function and homeostasis. During development, yolk-sac-derived microglial progenitors colonize and populate the brain following a well-defined spatiotemporal pattern. However, the mechanisms driving microglial colonization and proliferation are largely unknown. Herein, using scRNA-seq of conditional inactivation of Colony Stimulating Factor 1 (Csf1), we revealed that embryonic cortical microglia critically rely on neural Csf1, mainly produced by cortical progenitors but also by post-mitotic neurons, and that the action of Csf1 is local, dose-dependent and transient. Alongside, intrinsic Csf1 expressed by ATM contributed to their sustained proliferation at developmental hotspots.2025-09-18T00:00:00Z2025-09-18T01:02:33.788Z2025-01-29T17:33:27.138ZE-MTAB-14797ERP168786EFO_0002944EFO_0004170EFO_0005684EFO_0005518EFO_0004184