biostudies-arrayexpressLine Moesgaard StraussMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-13634Single cell RNA sequencing of monocytes and macrophages harvested from a YUMM1.7 tumor of mice 21 weeks after subcutaneous inoculation.biostudies-arrayexpressNucleic Acid Extraction - Single cell transcriptomes were generated from roughly 4000 cells per mouse using 10x Genomics Chromium Next GEM Single Cell 3’ GEM kit v2.Sequencing - Samples were sequenced to an average depth of 45000 reads per cell using a NovaSeq S2 flow cell.Sample Treatment - Mice were injected s.c. with 1x10^6 cells from YUMM1.7.Library Construction - Sequencing libraries were generated using 10x Genomics Chromium Next GEM Single Cell 3’ GEM kit v2.Sample Collection - Single cell suspensions were prepared from YUMM1.7 tumors in 8 week-old wild-type male C57BL6/J, Junf/f, Il4f/f, JunDCsf1r and IL4RaDcsf1R mice. Monocytes/macrophages were isolated by flow cytometry gating on CD11b+, Lin-(CD3, CD19, Ly6G, NK1.1, Siglec F). Prior to cell sorting, tumor cell suspensions from Junf/f, Il4f/f, JunDCsf1r and IL4RaDcsf1R mice were labelled with barcoded hashtag antibodies for MHCI/CD45 (Biolegend) and CiteSeq antibodies for CD169 and Ly6C. Single-cell transcriptomes were generated from individual samples (Y1,Y3,Y4) or pools of oligo-labelled cells (S1,S2,S3,S4) with roughly 4,000 cells per sample using Chromium Next GEM Single Cell 3ʹ GEM kit v2 and sequenced to a depth that averaged ∼1,800 genes per cell. After sequencing, samples were processed with 10x Genomics CellRanger pipeline (version 2.1.0) using mm10 (v2.1.0) reference genome.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Filtered gene counts were generated with 10x Genomics CellRanger pipeline (version 2.1.0) using mm10 (v2.1.0) reference genome.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsCellRanger v2.1.010x Genomics ChromiumIllumina NovaSeq 6000RNA-seq of coding RNA from single cellsMus musculusLine Moesgaard StraussAnders EtzerodtfalseSingle cell RNA sequencing of murine subcutaneous tumor after inoculation with YUMM1.7Single cell RNA sequencing of monocytes and macrophages harvested from a YUMM1.7 tumor of mice 21 weeks after subcutaneous inoculation.2026-05-14T00:00:00Z2026-05-14T01:01:44.48Z2024-01-05T17:18:54.593ZE-MTAB-13634ERP156490EFO_0002944EFO_0004170EFO_0005684EFO_0005518EFO_0003816EFO_0004184EFO_0003969