Cell type specific novel lincRNAs and circRNAs in the BLUEPRINT haematopoietic transcriptomes atlas
Cell type specific novel lincRNAs and circRNAs in the BLUEPRINT haematopoietic transcriptomes atlas
Abstract Transcriptional profiling of hematopoietic cell subpopulations has helped characterize the developmental stages of the hematopoietic system and the molecular basis of malignant and non-malignant blood diseases for the past three decades. The introduction of high-throughput RNA sequencing has increased knowledge of the full repertoire of RNA molecules in hematopoietic cells of different types, without relying on prior gene annotation. Here, we introduce the analysis of the BLUEPRINT consortium gene expression data for mature hematopoietic cells, comprising 90 total RNA and 32 small RNA sequencing experiments, from 27 different cell types. We used these data to describe the transcriptional profile of each we used guided transcriptome assembly to extend the annotation of the transcribed genome, which led to the identification of hundreds of novel non-coding RNA genes, which display a high degree of cell type specificity. We also characterized the expression of circular RNAs and found that these are also highly cell type specific. This resource refines the active transcriptional landscape of mature hematopoietic cells, highlights abundant genes and transcriptional isoforms for each cell type, and provides valuable data and visualisation tools for the scientific community working on hematological development and diseases.
Martin Fergal J.、Jorge Natasha A.N.、Seyres Denis、Frankish Adam、Mudge Jonathan M.、Lambourne John J.、Rowlston Sophia、Martin-Rendon Enca、Ouwehand Willem H.、Farahi Neda、Grassi Luigi、Izuogu Osagie G.、Downes Kate、Turro Ernest、Stunnenberg Hendrik G.、Passetti Fabio、Burden Frances、Kostadima Myrto、Bustamante Mariona、Yaspo Marie-Laure、Farrow Samantha、Martens Joost H.A.、Frontini Mattia、Estivill Xavier、Clarke Laura、Petersen Romina、Flicek Paul
European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusLaboratory of Functional Genomics and Bioinformatics, Oswaldo Cruz Institute, Funda??o Oswaldo CruzDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University HospitalsEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical CampusDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical CampusR&D Division, National Health Service (NHS)-Blood and Transplant, Oxford Centre||Nuffield Division of Clinical Laboratory Sciences, Radcliffe Department of Medicine, University of OxfordDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University Hospitals||Department of Human Genetics, the Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus||British Heart Foundation Centre of Excellence, Cambridge Biomedical CampusDivision of Respiratory Medicine, Department of Medicine, University of Cambridge School of Clinical MedicineDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University HospitalsEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University HospitalsDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University Hospitals||Medical Research Council Biostatistics Unit, Cambridge Institute of Public Health, Cambridge Biomedical CampusRadboud University, Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life SciencesLaboratory of Functional Genomics and Bioinformatics, Oswaldo Cruz Institute, Funda??o Oswaldo Cruz||Laboratory of Gene Expression Regulation, Carlos Chagas Institute, Funda??o Oswaldo CruzDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University HospitalsDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusISGlobal, Institute for Global Health||Center for Genomic Regulation (CRG)||Universitat Pompeu FabraMax Planck Institute for Molecular GeneticsDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||National Institute for Health Research BioResource, Rare Diseases, Cambridge University HospitalsRadboud University, Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life SciencesDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical Campus||British Heart Foundation Centre of Excellence, Cambridge Biomedical CampusGenes and Disease Research Group, Genetics and Genomics Program, Sidra Research Department, Sidra MedicineEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome CampusDepartment of Haematology, University of Cambridge, Cambridge Biomedical Campus||National Health Service Blood and Transplant, Cambridge Biomedical CampusEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus
基础医学细胞生物学分子生物学
Martin Fergal J.,Jorge Natasha A.N.,Seyres Denis,Frankish Adam,Mudge Jonathan M.,Lambourne John J.,Rowlston Sophia,Martin-Rendon Enca,Ouwehand Willem H.,Farahi Neda,Grassi Luigi,Izuogu Osagie G.,Downes Kate,Turro Ernest,Stunnenberg Hendrik G.,Passetti Fabio,Burden Frances,Kostadima Myrto,Bustamante Mariona,Yaspo Marie-Laure,Farrow Samantha,Martens Joost H.A.,Frontini Mattia,Estivill Xavier,Clarke Laura,Petersen Romina,Flicek Paul.Cell type specific novel lincRNAs and circRNAs in the BLUEPRINT haematopoietic transcriptomes atlas[EB/OL].(2025-03-28)[2025-04-30].https://www.biorxiv.org/content/10.1101/764613.点此复制
评论