Deciphering human ribonucleoprotein regulatory networks
Deciphering human ribonucleoprotein regulatory networks
RNA-binding proteins (RBPs) control and coordinate each stage in the life cycle of RNAs. Although in vivo binding sites of RBPs can now be determined genome-wide, most studies typically focused on individual RBPs. Here, we examined a large compendium of 114 high-quality transcriptome-wide in vivo RBP-RNA cross-linking interaction datasets generated by the same protocol in the same cell line and representing 64 distinct RBPs. Comparative analysis of categories of target RNA binding preference, sequence preference, and transcript region specificity was performed, and identified potential posttranscriptional regulatory modules, i.e. specific combinations of RBPs that bind to specific sets of RNAs and targeted regions. These regulatory modules encoded functionally related proteins and exhibited distinct differences in RNA metabolism, expression variance, as well as subcellular localization. This integrative investigation of experimental RBP-RNA interaction evidence and RBP regulatory function in a human cell line will be a valuable resource for understanding the complexity of post-transcriptional regulation.
Akat Kemal、Ghanbari Mahsa、Farazi Thalia、Hoell Jessica I、Mukherjee Neelanjan、Lebedeva Svetlana、Garzia Aitor、Munteanu Alina、Ohler Uwe、Wessels Hans-Hermann、Sajek Marcin、Tuschl Thomas
Howard Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller UniversityBerlin Institute for Medical Systems Biology, Max Delbr¨1ck Center for Molecular MedicineHoward Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller UniversityHoward Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller University||Department of Pediatric Oncology, Hematology and Clinical Immunology, Center for Child and Adolescent Health, Medical Faculty, Heinrich Heine University of DusseldorfDepartment of Biochemistry and Molecular Genetics, University of Colorado School of MedicineBerlin Institute for Medical Systems Biology, Max Delbr¨1ck Center for Molecular MedicineHoward Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller UniversityBerlin Institute for Medical Systems Biology, Max Delbr¨1ck Center for Molecular MedicineBerlin Institute for Medical Systems Biology, Max Delbr¨1ck Center for Molecular MedicineBerlin Institute for Medical Systems Biology, Max Delbr¨1ck Center for Molecular Medicinelnstitute of Human Genetics, Polish Academy of Sciences||Howard Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller UniversityHoward Hughes Medical Institute and Laboratory for RNA Molecular Biology, The Rockefeller University
分子生物学细胞生物学遗传学
Akat Kemal,Ghanbari Mahsa,Farazi Thalia,Hoell Jessica I,Mukherjee Neelanjan,Lebedeva Svetlana,Garzia Aitor,Munteanu Alina,Ohler Uwe,Wessels Hans-Hermann,Sajek Marcin,Tuschl Thomas.Deciphering human ribonucleoprotein regulatory networks[EB/OL].(2025-03-28)[2025-05-21].https://www.biorxiv.org/content/10.1101/295097.点此复制
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