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. 2021 Oct 6;41(40):8441–8459. doi: 10.1523/JNEUROSCI.0860-21.2021

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Copyright © 2021 Hakim et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license, which permits unrestricted use, distribution and reproduction in any medium provided that the original work is properly attributed.

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Figure 8. — A, B, tSNE plot of 4659 CD45⁺ immune cells from the CNS. Data from this study is integrated with data from Li et al. (2019; Table 6). C, D, Each dataset represented by one tSNE. Cells are annotated using color representing their cell type. bMicroglia: baseline microglia; aMicroglia: activated microglia; pmMicroglia: proliferation-mediating microglia; maMicroglia: monocyte-activating microglia; DAM: disease-associated microglia in SCI; elMicroglia: embryonic-like microglia; pvMacrophages: perivascular macrophages; mdMacrophages: monocyte-derived macrophages; DCs: dendritic cells; imB-cells: immature B-cells; mB-cells: mature B-cells; pimMicroglia: postnatal immature microglia; IEG+Microglia: immediate early genes microglia; sMicroglia: s-phase microglia; pPAM: postnatal proliferative-region-associated microglia; eMicroglia: embryonic microglia; pcpMacrophages: postnatal choroid plexus macrophages; acpMacrophages: adult choroid plexus macrophages; iMonocytes: inflammatory monocytes; pMonocytes: patrolling monocytes; cpEpithelial cells: choroid plexus epithelial cells. E, tSNE plots of 4659 CD45⁺ immune cells for selected genes indicating the log2(cpm) expression with a continuous color for each cell separately. F, Proliferation rate of CD45^low and CD45^high cells at 7 and 21 d post-SCI. Hoechst 33342 expression presented on a log-scale was used for defining cells in S-phase. Right most plot reports the percentage of cells in S-phase. Each dot represents one biological replicate (four mice per time point). Mean is surrounded by a 95% CI. This figure is extended in Extended Data Figure 8-1.