@article{83d9c0ec896f445083217eecf067c6aa,
title = "Immunogenomic Landscape of Hematological Malignancies",
keywords = "antigen presentation, cancer, epigenomics, genomics, hematology, immune checkpoint, immunology, immunotherapy, leukemia, lymphoma",
author = "O Dufva and P P{\"o}l{\"o}nen and O Br{\"u}ck and Kirsi Granberg and Matti Nykter and Olli Lohi",
note = "Funding Information: We thank the Helsinki Biobank and the Digital and Molecular Pathology Unit (University of Helsinki [UH] and Biocenter Finland [BF]). The computational infrastructure was provided by the UEF Bioinformatics Center and CSC IT Center for Science, Finland. We acknowledge the FIMM Sequencing Laboratory, Technology Center, and the High-Throughput Biomedicine unit (HiLIFE, UH). The Genome Biology Unit (HiLIFE) generated constructs. We acknowledge Prof. Peter Steinberger and Dr. Judith Leitner for providing TCR reporter cell lines. The results are in part based upon data generated by the Multiple Myeloma Research Foundation Personalized Medicine Initiative and The Cancer Genome Atlas project established by the NCI and NHGRI. This study was supported by the Cancer Foundation Finland, Sigrid Jus?lius Foundation, Relander Foundation, State funding for university-level health research in Finland, Academy of Finland (321553), Biomedicum Helsinki Foundation, HiLIFE (UH) fellow funds, University of Eastern Finland, and Orion Research Foundation. O.D. P.P. M.A.I.K. M.H. and S.M. conceived the study and wrote the article with contributions from all authors. O.D. and P.P. designed and performed the analyses. O.D. performed experimental validations and visualized data. P.P. performed computational analyses (multi-omics, RRBS, scRNA-seq, elastic nets). O.B. performed mIHC. J.K. generated CRISPR/Cas9-edited cell lines. J.M. developed workflows for scRNA-seq analysis. A.K. J.H. and M.K. performed AML RNA-seq data analysis and C.H. supervised RNA-seq collection. D.M. M.V.-K. and K.W. provided samples and reagents. S.S. generated flow cytometry data. B.G. processed RRBS data. J.L. and P.M. performed scRNA-seq. L.M. S.-K.L. and S.L. constructed the DLBCL tissue microarray. M.N. and O.L. supervised Hemap data harmonization. S.M. and M.H. supervised the project. S.M. has received honoraria and research funding from Novartis, Pfizer, and Bristol-Myers Squibb, and C.H. received funding from Celgene, Novartis, Oncopeptides, Orion Pharma, and the Innovative Medicines Initiative project HARMONY. The remaining authors declare no competing interests. Funding Information: We thank the Helsinki Biobank and the Digital and Molecular Pathology Unit (University of Helsinki [UH] and Biocenter Finland [BF]). The computational infrastructure was provided by the UEF Bioinformatics Center and CSC IT Center for Science, Finland. We acknowledge the FIMM Sequencing Laboratory, Technology Center, and the High-Throughput Biomedicine unit (HiLIFE, UH). The Genome Biology Unit (HiLIFE) generated constructs. We acknowledge Prof. Peter Steinberger and Dr. Judith Leitner for providing TCR reporter cell lines. The results are in part based upon data generated by the Multiple Myeloma Research Foundation Personalized Medicine Initiative and The Cancer Genome Atlas project established by the NCI and NHGRI. This study was supported by the Cancer Foundation Finland , Sigrid Jus{\'e}lius Foundation , Relander Foundation , State funding for university-level health research in Finland, Academy of Finland ( 321553 ), Biomedicum Helsinki Foundation , HiLIFE (UH) fellow funds, University of Eastern Finland , and Orion Research Foundation . Funding Information: S.M. has received honoraria and research funding from Novartis , Pfizer , and Bristol-Myers Squibb , and C.H. received funding from Celgene , Novartis , Oncopeptides , Orion Pharma , and the Innovative Medicines Initiative project HARMONY. The remaining authors declare no competing interests. Publisher Copyright: {\textcopyright} 2020 Elsevier Inc.",
year = "2020",
doi = "10.1016/j.ccell.2020.06.002",
language = "English",
volume = "38",
pages = "380--399.e13",
journal = "Cancer Cell",
issn = "1535-6108",
publisher = "Cell Press",
number = "3",
}
