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Author Details

Frederik Otzen Bagger
Center for Genomic Medicine, Rigshospitalet Copenhagen University Hospital
2012
43
23
PMIDPaper TitleJournal TitlePublished Year
37933860BloodSpot 3.0: a database of gene and protein expression data in normal and malignant haematopoiesis.Nucleic Acids Res2024
36631623The histone demethylase KDM5C functions as a tumor suppressor in AML by repression of bivalently marked immature genes.Leukemia2023
37902999Clinical implication of genetic intratumor heterogeneity for targeted therapy in head and neck cancer.Acta Oncol2023
37373397A Protocol for Low-Input RNA-Sequencing of Patients with Febrile Neutropenia Captures Relevant Immunological Information.Int J Mol Sci2023
35302840H3K9 dimethylation safeguards cancer cells against activation of the interferon pathway.Sci Adv2022
34478550Unveiling mRNP composition by fluorescence correlation and cross-correlation spectroscopy using cell lysates.Nucleic Acids Res2021
33587817Transcriptional characterization of human megakaryocyte polyploidization and lineage commitment.J Thromb Haemost2021
35011647Interpretable Autoencoders Trained on Single Cell Sequencing Data Can Transfer Directly to Data from Unseen Tissues.Cells2021
31558671Transforming activities of the <i>NUP98-KMT2A</i> fusion gene associated with myelodysplasia and acute myeloid leukemia.Haematologica2020
33235258Identification and validation of 174 COVID-19 vaccine candidate epitopes reveals low performance of common epitope prediction tools.Sci Rep2020
32949400Single Cell Sequencing in Cancer Diagnostics.Adv Exp Med Biol2020
32350520Human erythroleukemia genetics and transcriptomes identify master transcription factors as functional disease drivers.Blood2020
32533074Nuclear interacting SET domain protein 1 inactivation impairs GATA1-regulated erythroid differentiation and causes erythroleukemia.Nat Commun2020
30635567The splicing factor RBM25 controls MYC activity in acute myeloid leukemia.Nat Commun2019
31775043ERG Controls B Cell Development by Promoting Igh V-to-DJ Recombination.Cell Rep2019
31286861Deconvolution of autoencoders to learn biological regulatory modules from single cell mRNA sequencing data.BMC Bioinformatics2019
31618640Single mRNP Analysis Reveals that Small Cytoplasmic mRNP Granules Represent mRNA Singletons.Cell Rep2019
31068365A Gain-of-Function p53-Mutant Oncogene Promotes Cell Fate Plasticity and Myeloid Leukemia through the Pluripotency Factor FOXH1.Cancer Discov2019
30395307BloodSpot: a database of healthy and malignant haematopoiesis updated with purified and single cell mRNA sequencing profiles.Nucleic Acids Res2019
29879932Deep sequencing of human papillomavirus positive loco-regionally advanced oropharyngeal squamous cell carcinomas reveals novel mutational signature.BMC Cancer2018
28345074Single-cell RNA-seq and computational analysis using temporal mixture modelling resolves Th1/Tfh fate bifurcation in malaria.Sci Immunol2017
28126036Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types.Genome Biol2017
26981425Analysis of telomerase target gene expression effects from murine models in patient cohorts by homology translation and random survival forest modeling.Genom Data2016
26507857BloodSpot: a database of gene expression profiles and transcriptional programs for healthy and malignant haematopoiesis.Nucleic Acids Res2016
27863251Genetic Drivers of Epigenetic and Transcriptional Variation in Human Immune Cells.Cell2016
26887813Classification of low quality cells from single-cell RNA-seq data.Genome Biol2016
27095194Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality.Nucleic Acids Res2016
24847672Software-supported USER cloning strategies for site-directed mutagenesis and DNA assembly.ACS Synth Biol2015
26385962ERG promotes the maintenance of hematopoietic stem cells by restricting their differentiation.Genes Dev2015
26679766A computational method for identification of vaccine targets from protein regions of conserved human leukocyte antigen binding.BMC Med Genomics2015
25886910Loss of TET2 in hematopoietic cells leads to DNA hypermethylation of active enhancers and induction of leukemogenesis.Genes Dev2015
25652644Amplification of pico-scale DNA mediated by bacterial carrier DNA for small-cell-number transcription factor ChIP-seq.BMC Genomics2015
25670329Cellular origin of prognostic chromosomal aberrations in AML patients.Leukemia2015
25788702Autophagy is required for stem cell mobilization by G-CSF.Blood2015
24501218shRNA screening identifies JMJD1C as being required for leukemia maintenance.Blood2014
25479751Telomerase inhibition effectively targets mouse and human AML stem cells and delays relapse following chemotherapy.Cell Stem Cell2014
24585878Modification of T cell responses by stem cell mobilization requires direct signaling of the T cell by G-CSF and IL-10.J Immunol2014
24670763An atlas of active enhancers across human cell types and tissues.Nature2014
24363398Comparing cancer vs normal gene expression profiles identifies new disease entities and common transcriptional programs in AML patients.Blood2014
24415956C/EBPα is required for long-term self-renewal and lineage priming of hematopoietic stem cells and for the maintenance of epigenetic configurations in multipotent progenitors.PLoS Genet2014
23143109HemaExplorer: a database of mRNA expression profiles in normal and malignant haematopoiesis.Nucleic Acids Res2013
23831605Lack of the p42 form of C/EBPα leads to spontaneous immortalization and lineage infidelity of committed myeloid progenitors.Exp Hematol2013
22745298HemaExplorer: a Web server for easy and fast visualization of gene expression in normal and malignant hematopoiesis.Blood2012
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Collaborators

Nicolas Rapin
Rigshospitalet, University of Copenhagen
Co-authored papers 15
Kristian Helin
The Institute of Cancer Research
Co-authored papers 4
Oliver Stegle
Wellcome Sanger Institute
Co-authored papers 3
Sarah A Teichmann
Wellcome Sanger Institute
Co-authored papers 3
Kate Downes
Co-authored papers 3
Mattia Frontini
Co-authored papers 3
Samantha Farrow
Co-authored papers 2
Willem H Ouwehand
University of Cambridge
Co-authored papers 2
Alice L Mann
Wellcome Sanger Institute
Co-authored papers 2
Stephan Beck
UCL Cancer Institute, University College London
Co-authored papers 2
Alfonso Valencia
Josep Carreras Leukaemia Research Institute (IJC)
Co-authored papers 2
Frances Burden
Co-authored papers 2
Hendrik G Stunnenberg
Co-authored papers 2
Nicole Soranzo
Wellcome Sanger Institute
Co-authored papers 2
Jos?? M Fern??ndez
Hospital Universitario y Politecnico la Fe
Co-authored papers 2
Stephen Watt
Wellcome Sanger Institute
Co-authored papers 2
Dirk S Paul
Co-authored papers 2
Bogumil Kaczkowski
RIKEN Center for Integrative Medical Sciences
Co-authored papers 2
Nikos Sidiropoulos
Rigshospitalet, University of Copenhagen
Co-authored papers 2
Lu Chen
Co-authored papers 2
Vera Pancaldi
Universite de Toulouse, Inserm, CNRS, Universite Toulouse III-Paul Sabatier
Co-authored papers 2
Tomi Pastinen
Co-authored papers 2
Emmanouil T Dermitzakis
University of Geneva
Co-authored papers 1
Thomas Bock
University of Basel
Co-authored papers 1
Ole N Jensen
VILLUM Center for Bioanalytical Sciences, University of Southern Denmark
Co-authored papers 1
Yun Chen
Hospital of Obstetrics and Gynecology, Fudan University
Co-authored papers 1
Johanna Raithel
Leibniz Institute for Immunotherapy, c/o University Hospital Regensburg
Co-authored papers 1
Erina Furuhata
RIKEN Center for Integrative Medical Sciences
Co-authored papers 1
Augusto Rendon
Genomics England Ltd
Co-authored papers 1
Marie-Laure Yaspo
Max Planck Institute for Molecular Genetics
Co-authored papers 1
Release 1.2