{"entity": "researcher", "timestamp": "2026-07-22T17:38:34.471Z", "family": "Gr\u00f6ning", "given": "Remigius", "initials": "R", "orcid": "0000-0001-5384-8038", "affiliations": ["Department of Clinical Microbiology, Ume\u00e5 University, Biomedicinbyggnaden 6M, Ume\u00e5 universitetssjukhus, 901 87, Ume\u00e5, Sweden."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/554e7b2b64da4db890e3330c3766b1d6.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/554e7b2b64da4db890e3330c3766b1d6"}}, "publications": [{"entity": "publication", "iuid": "bb208e8865fc4192b2c539f6a8e46c82", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/bb208e8865fc4192b2c539f6a8e46c82.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/bb208e8865fc4192b2c539f6a8e46c82"}}, "title": "Telomemore enables single-cell analysis of cell cycle and chromatin condensation.", "authors": [{"family": "Yakovenko", "given": "Iryna", "initials": "I", "orcid": "0009-0003-5235-2999", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/03c9f5e054fb4eaaadec42a6e484df3b.json"}}, {"family": "Mihai", "given": "Ionut Sebastian", "initials": "IS", "orcid": "0000-0002-9322-5879", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a992010c915b42e8a5d3b1ab8e6302ee.json"}}, {"family": "Selinger", "given": "Martin", "initials": "M", "orcid": "0000-0002-5420-9702", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/178f194601f84780a0cdee01ab25a12d.json"}}, {"family": "Rosenbaum", "given": "William", "initials": "W", "orcid": "0000-0003-2274-7343", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/452d1628f9ca4fb88ccc432a0258c517.json"}}, {"family": "Dernstedt", "given": "Andy", "initials": "A", "orcid": "0000-0001-6048-5300", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/63ec9ea5d1d64327a301381d7496561a.json"}}, {"family": "Gr\u00f6ning", "given": "Remigius", "initials": "R", "orcid": "0000-0001-5384-8038", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/554e7b2b64da4db890e3330c3766b1d6.json"}}, {"family": "Trygg", "given": "Johan", "initials": "J", "orcid": "0000-0003-3799-6094", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3e227e1e1bb84083b9534f4124830f6d.json"}}, {"family": "Carroll", "given": "Laura", "initials": "L", "orcid": "0000-0002-3677-0192", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/02112eccb0664819af916a3c3dc79daa.json"}}, {"family": "Forsell", "given": "Mattias", "initials": "M", "orcid": "0000-0001-6904-742X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c3209b86680246b898a8442ea43bba0e.json"}}, {"family": "Henriksson", "given": "Johan", "initials": "J", "orcid": "0000-0002-7745-2844", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/598b7031d1c9448a91de58d8544af7fa.json"}}], "type": "journal article", "published": "2025-01-24", "journal": {"title": "Nucleic Acids Res.", "issn": "1362-4962", "volume": "53", "issue": "3", "issn-l": "0305-1048"}, "abstract": "Single-cell RNA-seq methods can be used to delineate cell types and states at unprecedented resolution but do little to explain why certain genes are expressed. Single-cell ATAC-seq and multiome (ATAC + RNA) have emerged to give a complementary view of the cell state. It is however unclear what additional information can be extracted from ATAC-seq data besides transcription factor binding sites. Here, we show that ATAC-seq telomere-like reads counter-inituively cannot be used to infer telomere length, as they mostly originate from the subtelomere, but can be used as a biomarker for chromatin condensation. Using long-read sequencing, we further show that modern hyperactive Tn5 does not duplicate 9 bp of its target sequence, contrary to common belief. We provide a new tool, Telomemore, which can quantify nonaligning subtelomeric reads. By analyzing several public datasets and generating new multiome fibroblast and B-cell atlases, we show how this new readout can aid single-cell data interpretation. We show how drivers of condensation processes can be inferred, and how it complements common RNA-seq-based cell cycle inference, which fails for monocytes. Telomemore-based analysis of the condensation state is thus a valuable complement to the single-cell analysis toolbox.", "doi": "10.1093/nar/gkaf031", "pmid": "39878215", "labels": {"Laura Carroll": null, "DDLS Fellow": null}, "xrefs": [{"db": "pmc", "key": "PMC11775621"}, {"db": "pii", "key": "7986050"}], "notes": [], "created": "2025-03-18T17:32:33.811Z", "modified": "2025-03-18T17:32:34.241Z"}]}