{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Schmerer N"],"funding":["Bundesministerium für Bildung und Forschung (Federal Ministry of Education and Research)","Deutsche Forschungsgemeinschaft (German Research Foundation)","Hessisches Ministerium für Wissenschaft und Kunst (Hessen State Ministry of Higher Education, Research and the Arts)","Fritz Thyssen Stiftung (Fritz Thyssen Foundation)"],"pagination":["4733"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12095776"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["16(1)"],"pubmed_abstract":["Long noncoding RNAs (lncRNA) are crucial yet underexplored regulators of human immunity. Here we develop GRADR, a method integrating gradient profiling with RNA-binding proteome analysis, to map the protein interactomes of all expressed RNAs in a single experiment to study mechanisms of lncRNA-mediated regulation of human primary macrophages. Applying GRADR alongside CRISPR-multiomics, we reveal a network of NFκB-dependent lncRNAs, including LINC01215, AC022816.1 and ROCKI, which modulate distinct aspects of macrophage immunity, particularly through interactions with mRNA-processing factors, such as hnRNP proteins. We further uncover the function of ROCKI in repressing the messenger of the anti-inflammatory GATA2 transcription factor, thus promoting macrophage activation. Lastly, all data "],"journal":["Nature communications"],"pubmed_title":["A searchable atlas of pathogen-sensitive lncRNA networks in human macrophages."],"pmcid":["PMC12095776"],"funding_grant_id":["PerMed-COPD (01EK2203A)","10.21.2.024MN","SFB-1213 (Project A01)","Deep Legion (031L0288A)","CIBSS - EXC-2189 - Project ID 390939984","BA 2168/25-1","LOEWE/2/13/519/03/06.001(0002)/74","SFB-TR-84 (subproject C1)","SFB-TR-84 (subproject C10)","LOEWE/5/A004/519/06/00.005(0008)/E31","TRR 167/2 NeuroMac"],"pubmed_authors":["Aillaud M","Wende S","Halder LD","Marsico A","Steding H","Janga H","Schmerer N","Nist A","Aznaourova M","Kirschbaum A","Pullamsetti SS","Ntini E","Schmeck B","Boldt F","Schulte LN","Ruppert C","Linne U","Rossbach O","Hoffmann J","Stiewe T","Uhl M","Backofen R","Jerrentrup L","Valasarajan C"],"additional_accession":[]},"is_claimable":false,"name":"A searchable atlas of pathogen-sensitive lncRNA networks in human macrophages.","description":"Long noncoding RNAs (lncRNA) are crucial yet underexplored regulators of human immunity. Here we develop GRADR, a method integrating gradient profiling with RNA-binding proteome analysis, to map the protein interactomes of all expressed RNAs in a single experiment to study mechanisms of lncRNA-mediated regulation of human primary macrophages. Applying GRADR alongside CRISPR-multiomics, we reveal a network of NFκB-dependent lncRNAs, including LINC01215, AC022816.1 and ROCKI, which modulate distinct aspects of macrophage immunity, particularly through interactions with mRNA-processing factors, such as hnRNP proteins. We further uncover the function of ROCKI in repressing the messenger of the anti-inflammatory GATA2 transcription factor, thus promoting macrophage activation. Lastly, all data ","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 May","modification":"2026-06-02T20:45:04.629Z","creation":"2026-04-20T03:10:48.787Z"},"accession":"S-EPMC12095776","cross_references":{"pubmed":["40399309"],"doi":["10.1038/s41467-025-60084-x"]}}