{"entity": "researcher", "timestamp": "2026-09-23T18:56:12.019Z", "family": "H\u00e4neke", "given": "Timm", "initials": "T", "orcid": "0000-0002-9734-8307", "affiliations": ["Department of Cell and Molecular Biology, Karolinska Institute, Stockholm, Sweden."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/7ce2f05758324386bd21211f0ccd53ac.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/7ce2f05758324386bd21211f0ccd53ac"}}, "publications": [{"entity": "publication", "iuid": "b04fc38ca1bc41219c5789a45d512463", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/b04fc38ca1bc41219c5789a45d512463.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/b04fc38ca1bc41219c5789a45d512463"}}, "title": "The regulatory code of injury-responsive enhancers enables precision cell-state targeting in the CNS.", "authors": [{"family": "Zamboni", "given": "Margherita", "initials": "M", "orcid": "0000-0003-0664-4707", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7dd167b1cb344898bccd0d60315db61c.json"}}, {"family": "Mart\u00ednez-Mart\u00edn", "given": "Adri\u00e1n", "initials": "A", "orcid": "0009-0008-2335-6460", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/482a7b0867014f11a9996fd581b4f705.json"}}, {"family": "Rydholm", "given": "Gabriel", "initials": "G", "orcid": "0009-0006-1667-1214", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/794282761ade47e59420d9ed7b2bf164.json"}}, {"family": "H\u00e4neke", "given": "Timm", "initials": "T", "orcid": "0000-0002-9734-8307", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7ce2f05758324386bd21211f0ccd53ac.json"}}, {"family": "Pintado Almeida", "given": "Laura", "initials": "L"}, {"family": "Se\u00e7ilmi\u015f", "given": "Deniz", "initials": "D"}, {"family": "Ziegenhain", "given": "Christoph", "initials": "C", "orcid": "0000-0003-2208-4877", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/013ce63a80ce45339125f0594cb78bc2.json"}}, {"family": "Llorens-Bobadilla", "given": "Enric", "initials": "E", "orcid": "0000-0002-7891-1272", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/796c6813bb64461485d5e0c966d46547.json"}}], "type": "journal article", "published": "2026-02-00", "journal": {"title": "Nat. Neurosci.", "issn": "1546-1726", "volume": "29", "issue": "2", "pages": "337-349", "issn-l": "1097-6256"}, "abstract": "Enhancer elements direct cell-type-specific gene expression programs. After injury, cells change their transcriptional state to adapt to stress and initiate repair. Here we investigate how injury-induced transcriptional programs are encoded within enhancers in the mammalian CNS. Leveraging single-nucleus transcriptomics and chromatin accessibility profiling, we identify thousands of injury-induced, cell-type-specific enhancers in the mouse spinal cord after a contusion injury. These are abundant in glial cells and retain cell-type specificity, even when regulating shared wound response genes. By modeling glial injury-responsive enhancers using deep learning, we reveal that their architecture encodes cell-type specificity by integrating generic stimulus response elements with cell identity programs. Finally, through in vivo enhancer screening, we demonstrate that injury-responsive enhancers can selectively target reactive astrocytes across the CNS using therapeutically relevant gene delivery vectors. Our decoding of the principles of injury-responsive enhancers enables the design of sequences that can be programmed to target disease-associated cell states.", "doi": "10.1038/s41593-025-02131-w", "pmid": "41331142", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12880913"}, {"db": "pii", "key": "10.1038/s41593-025-02131-w"}], "notes": [], "created": "2026-09-23T12:34:13.828Z", "modified": "2026-09-23T12:34:14.007Z"}]}