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A better understanding of this dichotomy is critical to developing effective therapeutics that target the appropriate pathobiology, but a major challenge has been the large cellular heterogeneity that results in immensely complex cellular interactions. In this study, we used single-cell RNA sequencing to assess virtually all cell types that comprise the mouse spinal cord injury site. In addition to discovering novel subpopulations, we used expression values of receptor\u2013ligand pairs to identify signaling pathways that are predicted to regulate specific cellular interactions during angiogenesis, gliosis, and fibrosis. Our dataset is a valuable resource that provides novel mechanistic insight into the pathobiology of not only spinal cord injury but also other traumatic disorders of the CNS.<\/jats:p>","DOI":"10.1084\/jem.20210040","type":"journal-article","created":{"date-parts":[[2021,5,27]],"date-time":"2021-05-27T02:21:38Z","timestamp":1622082098000},"update-policy":"https:\/\/doi.org\/10.1084\/jem.crossmarkpolicy","source":"Crossref","is-referenced-by-count":289,"title":["Single-cell analysis of the cellular heterogeneity and interactions in the injured mouse spinal cord"],"prefix":"10.1084","volume":"218","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0683-9996","authenticated-orcid":true,"given":"Lindsay M.","family":"Milich","sequence":"first","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"},{"name":"University of Miami Neuroscience Graduate Program, Miami, FL 2"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6392-5268","authenticated-orcid":true,"given":"James S.","family":"Choi","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4715-8564","authenticated-orcid":true,"given":"Christine","family":"Ryan","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"},{"name":"University of Miami Neuroscience Graduate Program, Miami, FL 2"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9412-237X","authenticated-orcid":true,"given":"Susana R.","family":"Cerqueira","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4689-1112","authenticated-orcid":true,"given":"Sofia","family":"Benavides","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3267-0992","authenticated-orcid":true,"given":"Stephanie L.","family":"Yahn","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"},{"name":"University of Miami Neuroscience Graduate Program, Miami, FL 2"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1974-6366","authenticated-orcid":true,"given":"Pantelis","family":"Tsoulfas","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7413-9783","authenticated-orcid":true,"given":"Jae K.","family":"Lee","sequence":"additional","affiliation":[{"name":"Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami School of Medicine, Miami, FL 1"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"291","published-online":{"date-parts":[[2021,6,16]]},"reference":[{"key":"2025080616214152300_bib1","doi-asserted-by":"publisher","first-page":"10299","DOI":"10.1523\/JNEUROSCI.2500-09.2009","article-title":"Sonic hedgehog pathway activation is induced by acute brain injury and regulated by injury-related inflammation","volume":"29","author":"Amankulor","year":"2009","journal-title":"J. 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