{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,27]],"date-time":"2026-10-27T21:00:36Z","timestamp":1793134836230,"version":"4.5.0"},"reference-count":63,"publisher":"Elsevier BV","issue":"11","license":[{"start":{"date-parts":[[2023,11,1]],"date-time":"2023-11-01T00:00:00Z","timestamp":1698796800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2023,11,1]],"date-time":"2023-11-01T00:00:00Z","timestamp":1698796800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2023,9,27]],"date-time":"2023-09-27T00:00:00Z","timestamp":1695772800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001661","name":"Universit\u00e4t Heidelberg","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001661","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005972","name":"Deutsche Krebshilfe","doi-asserted-by":"publisher","award":["70111964"],"award-info":[{"award-number":["70111964"]}],"id":[{"id":"10.13039\/501100005972","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008316","name":"Baden-W\u00fcrttemberg Stiftung","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008316","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Cell Reports Medicine"],"published-print":{"date-parts":[[2023,11]]},"DOI":"10.1016\/j.xcrm.2023.101249","type":"journal-article","created":{"date-parts":[[2023,10,25]],"date-time":"2023-10-25T10:31:54Z","timestamp":1698229914000},"page":"101249","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":37,"title":["Tumor heterogeneity and tumor-microglia interactions in primary and recurrent IDH1-mutant gliomas"],"prefix":"10.1016","volume":"4","author":[{"given":"Enrique","family":"Blanco-Carmona","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ashwin","family":"Narayanan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Inmaculada","family":"Hernandez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Juan C.","family":"Nieto","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marc","family":"Elosua-Bayes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xueyuan","family":"Sun","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Claudia","family":"Schmidt","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Necmettin","family":"Pamir","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Koray","family":"\u00d6zduman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christel","family":"Herold-Mende","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Francesca","family":"Pagani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manuela","family":"Cominelli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2948-2133","authenticated-orcid":false,"given":"Julian","family":"Taranda","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wolfgang","family":"Wick","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andreas","family":"von Deimling","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pietro Luigi","family":"Poliani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michael","family":"Rehli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matthias","family":"Schlesner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Holger","family":"Heyn","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"\u015eevin","family":"Turcan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.xcrm.2023.101249_bib1","doi-asserted-by":"crossref","first-page":"765","DOI":"10.1056\/NEJMoa0808710","article-title":"IDH1 and IDH2 mutations in gliomas","volume":"360","author":"Yan","year":"2009","journal-title":"N.\u00a0Engl. J. Med."},{"key":"10.1016\/j.xcrm.2023.101249_bib2","doi-asserted-by":"crossref","first-page":"1231","DOI":"10.1093\/neuonc\/noab106","article-title":"The 2021 WHO Classification of Tumors of the Central Nervous System: a summary","volume":"23","author":"Louis","year":"2021","journal-title":"Neuro Oncol."},{"key":"10.1016\/j.xcrm.2023.101249_bib3","doi-asserted-by":"crossref","first-page":"309","DOI":"10.1038\/nature20123","article-title":"Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma","volume":"539","author":"Tirosh","year":"2016","journal-title":"Nature"},{"key":"10.1016\/j.xcrm.2023.101249_bib4","doi-asserted-by":"crossref","DOI":"10.1126\/science.aai8478","article-title":"Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq","volume":"355","author":"Venteicher","year":"2017","journal-title":"Science"},{"key":"10.1016\/j.xcrm.2023.101249_bib5","doi-asserted-by":"crossref","first-page":"1643","DOI":"10.1016\/j.cell.2020.05.007","article-title":"Interrogation of the Microenvironmental Landscape in Brain Tumors Reveals Disease-Specific Alterations of Immune Cells","volume":"181","author":"Klemm","year":"2020","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib6","doi-asserted-by":"crossref","first-page":"723","DOI":"10.1038\/s43018-021-00201-z","article-title":"Tryptophan metabolism drives dynamic immunosuppressive myeloid states in IDH-mutant gliomas","volume":"2","author":"Friedrich","year":"2021","journal-title":"Nat. Cancer"},{"key":"10.1016\/j.xcrm.2023.101249_bib7","doi-asserted-by":"crossref","first-page":"589","DOI":"10.1056\/NEJMoa2304194","article-title":"Vorasidenib in IDH1- or IDH2-Mutant Low-Grade Glioma","volume":"389","author":"Mellinghoff","year":"2023","journal-title":"N.\u00a0Engl. J. Med."},{"key":"10.1016\/j.xcrm.2023.101249_bib8","doi-asserted-by":"crossref","first-page":"8868","DOI":"10.1038\/s41598-018-27293-5","article-title":"Brain Cell Type Specific Gene Expression and Co-expression Network Architectures","volume":"8","author":"McKenzie","year":"2018","journal-title":"Sci. Rep."},{"key":"10.1016\/j.xcrm.2023.101249_bib9","doi-asserted-by":"crossref","first-page":"835","DOI":"10.1016\/j.cell.2019.06.024","article-title":"An Integrative Model of Cellular States, Plasticity, and Genetics for Glioblastoma","volume":"178","author":"Neftel","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib10","doi-asserted-by":"crossref","first-page":"707","DOI":"10.1016\/j.stem.2019.03.006","article-title":"Single-Cell Transcriptomics Uncovers Glial Progenitor Diversity and Cell Fate Determinants during Development and Gliomagenesis","volume":"24","author":"Weng","year":"2019","journal-title":"Cell Stem Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib11","doi-asserted-by":"crossref","first-page":"1289","DOI":"10.1038\/s41592-019-0619-0","article-title":"Fast, sensitive and accurate integration of single-cell data with Harmony","volume":"16","author":"Korsunsky","year":"2019","journal-title":"Nat. Methods"},{"key":"10.1016\/j.xcrm.2023.101249_bib12","doi-asserted-by":"crossref","first-page":"e50","DOI":"10.1093\/nar\/gkab043","article-title":"SPOTlight: seeded NMF regression to deconvolute spatial transcriptomics spots with single-cell transcriptomes","volume":"49","author":"Elosua-Bayes","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.xcrm.2023.101249_bib13","doi-asserted-by":"crossref","first-page":"vbac016","DOI":"10.1093\/bioadv\/vbac016","article-title":"decoupleR: ensemble of computational methods to infer biological activities from omics data","volume":"2","author":"Badia-I-Mompel","year":"2022","journal-title":"Bioinform. Adv."},{"key":"10.1016\/j.xcrm.2023.101249_bib14","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1186\/s13059-020-1949-z","article-title":"Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data","volume":"21","author":"Holland","year":"2020","journal-title":"Genome Biol."},{"key":"10.1016\/j.xcrm.2023.101249_bib15","doi-asserted-by":"crossref","first-page":"1257","DOI":"10.1515\/BC.2007.159","article-title":"FOXM1, a typical proliferation-associated transcription factor","volume":"388","author":"Wierstra","year":"2007","journal-title":"Biol. Chem."},{"key":"10.1016\/j.xcrm.2023.101249_bib16","doi-asserted-by":"crossref","first-page":"3573","DOI":"10.1016\/j.cell.2021.04.048","article-title":"Integrated analysis of multimodal single-cell data","volume":"184","author":"Hao","year":"2021","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib17","article-title":"Harmonized single-cell landscape, intercellular crosstalk and tumor architecture of glioblastoma","author":"Ruiz-Moreno","year":"2022","journal-title":"bioRxiv"},{"key":"10.1016\/j.xcrm.2023.101249_bib18","doi-asserted-by":"crossref","DOI":"10.3791\/61542","article-title":"Nuclei Isolation from Fresh Frozen Brain Tumors for Single-Nucleus RNA-seq and ATAC-seq","author":"Narayanan","year":"2020","journal-title":"J.\u00a0Vis. Exp."},{"key":"10.1016\/j.xcrm.2023.101249_bib19","doi-asserted-by":"crossref","first-page":"495","DOI":"10.1038\/nbt.1630","article-title":"GREAT improves functional interpretation of cis-regulatory regions","volume":"28","author":"McLean","year":"2010","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.xcrm.2023.101249_bib20","doi-asserted-by":"crossref","first-page":"975","DOI":"10.1038\/nmeth.4401","article-title":"chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data","volume":"14","author":"Schep","year":"2017","journal-title":"Nat. Methods"},{"key":"10.1016\/j.xcrm.2023.101249_bib21","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1038\/nn.4185","article-title":"The role of microglia and macrophages in glioma maintenance and progression","volume":"19","author":"Hambardzumyan","year":"2016","journal-title":"Nat. Neurosci."},{"key":"10.1016\/j.xcrm.2023.101249_bib22","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1038\/s41593-020-00789-y","article-title":"Single-cell profiling of myeloid cells in glioblastoma across species and disease stage reveals macrophage competition and specialization","volume":"24","author":"Pombo Antunes","year":"2021","journal-title":"Nat. Neurosci."},{"key":"10.1016\/j.xcrm.2023.101249_bib23","doi-asserted-by":"crossref","first-page":"3458","DOI":"10.1016\/j.neuron.2022.10.020","article-title":"Microglia states and nomenclature: A field at its crossroads","volume":"110","author":"Paolicelli","year":"2022","journal-title":"Neuron"},{"key":"10.1016\/j.xcrm.2023.101249_bib24","doi-asserted-by":"crossref","first-page":"491","DOI":"10.1111\/bpa.12194","article-title":"MIF Receptor CD74 is Restricted to Microglia\/Macrophages, Associated with a M1-Polarized Immune Milieu and Prolonged Patient Survival in Gliomas","volume":"25","author":"Zeiner","year":"2015","journal-title":"Brain Pathol."},{"key":"10.1016\/j.xcrm.2023.101249_bib25","doi-asserted-by":"crossref","DOI":"10.1080\/2162402X.2019.1601478","article-title":"Molecular and clinical characterization of CD163 expression via large-scale analysis in glioma","volume":"8","author":"Liu","year":"2019","journal-title":"OncoImmunology"},{"key":"10.1016\/j.xcrm.2023.101249_bib26","doi-asserted-by":"crossref","first-page":"3224","DOI":"10.1038\/s41467-022-30755-0","article-title":"Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data","volume":"13","author":"Dimitrov","year":"2022","journal-title":"Nat. Commun."},{"key":"10.1016\/j.xcrm.2023.101249_bib27","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1016\/j.immuni.2020.07.008","article-title":"CD47 Ligation Repositions the Inhibitory Receptor SIRPA to Suppress Integrin Activation and Phagocytosis","volume":"53","author":"Morrissey","year":"2020","journal-title":"Immunity"},{"key":"10.1016\/j.xcrm.2023.101249_bib28","doi-asserted-by":"crossref","first-page":"1810","DOI":"10.1182\/blood-2011-09-379214","article-title":"Therapeutic applications of macrophage colony-stimulating factor-1 (CSF-1) and antagonists of CSF-1 receptor (CSF-1R) signaling","volume":"119","author":"Hume","year":"2012","journal-title":"Blood"},{"key":"10.1016\/j.xcrm.2023.101249_bib29","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/j.coi.2005.11.006","article-title":"Colony-stimulating factor-1 in immunity and inflammation","volume":"18","author":"Chitu","year":"2006","journal-title":"Curr. Opin. Immunol."},{"key":"10.1016\/j.xcrm.2023.101249_bib30","doi-asserted-by":"crossref","first-page":"1065","DOI":"10.1016\/j.cell.2013.01.036","article-title":"Targeting placental growth factor\/neuropilin 1 pathway inhibits growth and spread of medulloblastoma","volume":"152","author":"Snuderl","year":"2013","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib31","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1136\/gutjnl-2020-322493","article-title":"Placental growth factor promotes tumour desmoplasia and treatment resistance in intrahepatic cholangiocarcinoma","volume":"71","author":"Aoki","year":"2022","journal-title":"Gut"},{"key":"10.1016\/j.xcrm.2023.101249_bib32","doi-asserted-by":"crossref","first-page":"1460","DOI":"10.1093\/neuonc\/nox054","article-title":"Correlation of immune phenotype with IDH mutation in diffuse glioma","volume":"19","author":"Berghoff","year":"2017","journal-title":"Neuro Oncol."},{"key":"10.1016\/j.xcrm.2023.101249_bib33","doi-asserted-by":"crossref","first-page":"1425","DOI":"10.1172\/JCI90644","article-title":"Isocitrate dehydrogenase mutations suppress STAT1 and CD8+ T\u00a0cell accumulation in gliomas","volume":"127","author":"Kohanbash","year":"2017","journal-title":"J.\u00a0Clin. Invest."},{"key":"10.1016\/j.xcrm.2023.101249_bib34","doi-asserted-by":"crossref","first-page":"211","DOI":"10.1038\/s41586-019-1325-x","article-title":"TOX transcriptionally and epigenetically programs CD8(+) T\u00a0cell exhaustion","volume":"571","author":"Khan","year":"2019","journal-title":"Nature"},{"key":"10.1016\/j.xcrm.2023.101249_bib35","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1038\/s41586-019-1324-y","article-title":"TOX is a critical regulator of tumour-specific T\u00a0cell differentiation","volume":"571","author":"Scott","year":"2019","journal-title":"Nature"},{"key":"10.1016\/j.xcrm.2023.101249_bib36","doi-asserted-by":"crossref","first-page":"1541","DOI":"10.1038\/s41556-022-00994-w","article-title":"Alternative RNA splicing modulates ribosomal composition and determines the spatial phenotype of glioblastoma cells","volume":"24","author":"Larionova","year":"2022","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.xcrm.2023.101249_bib37","article-title":"Epigenetic Control of Translation Checkpoint and Tumor Progression via RUVBL1-EEF1A1 Axis","volume":"10","author":"Li","year":"2023","journal-title":"Adv. Sci."},{"key":"10.1016\/j.xcrm.2023.101249_bib38","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1093\/neuonc\/noaa207","article-title":"TERT and DNMT1 expression predict sensitivity to decitabine in gliomas","volume":"23","author":"Park","year":"2021","journal-title":"Neuro Oncol."},{"key":"10.1016\/j.xcrm.2023.101249_bib39","doi-asserted-by":"crossref","first-page":"1729","DOI":"10.18632\/oncotarget.1412","article-title":"Efficient induction of differentiation and growth inhibition in IDH1 mutant glioma cells by the DNMT Inhibitor Decitabine","volume":"4","author":"Turcan","year":"2013","journal-title":"Oncotarget"},{"key":"10.1016\/j.xcrm.2023.101249_bib40","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1016\/j.stem.2020.04.012","article-title":"Zonation of Ribosomal DNA Transcription Defines a Stem Cell Hierarchy in Colorectal Cancer","volume":"26","author":"Morral","year":"2020","journal-title":"Cell Stem Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib41","doi-asserted-by":"crossref","first-page":"873","DOI":"10.1093\/neuonc\/noy020","article-title":"Glioma through the looking GLASS: molecular evolution of diffuse gliomas and the Glioma Longitudinal Analysis Consortium","volume":"20","year":"2018","journal-title":"Neuro Oncol."},{"key":"10.1016\/j.xcrm.2023.101249_bib42","doi-asserted-by":"crossref","first-page":"112","DOI":"10.1038\/s41586-019-1775-1","article-title":"Longitudinal molecular trajectories of diffuse glioma in adults","volume":"576","author":"Barthel","year":"2019","journal-title":"Nature"},{"key":"10.1016\/j.xcrm.2023.101249_bib43","doi-asserted-by":"crossref","first-page":"2184","DOI":"10.1016\/j.cell.2022.04.038","article-title":"Glioma progression is shaped by genetic evolution and microenvironment interactions","volume":"185","author":"Varn","year":"2022","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib44","doi-asserted-by":"crossref","first-page":"334","DOI":"10.1016\/j.cell.2020.11.045","article-title":"A modular master regulator landscape controls cancer transcriptional identity","volume":"184","author":"Paull","year":"2021","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib45","doi-asserted-by":"crossref","first-page":"1626","DOI":"10.1016\/j.cell.2020.04.055","article-title":"Single-Cell Mapping of Human Brain Cancer Reveals Tumor-Specific Instruction of Tissue-Invading Leukocytes","volume":"181","author":"Friebel","year":"2020","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib46","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1016\/j.abb.2019.05.011","article-title":"STAT1 drives M1 microglia activation and neuroinflammation under hypoxia","volume":"669","author":"Butturini","year":"2019","journal-title":"Arch. Biochem. Biophys."},{"key":"10.1016\/j.xcrm.2023.101249_bib47","doi-asserted-by":"crossref","first-page":"859","DOI":"10.1038\/ni828","article-title":"Sensitization of IFN-gamma Jak-STAT signaling during macrophage activation","volume":"3","author":"Hu","year":"2002","journal-title":"Nat. Immunol."},{"key":"10.1016\/j.xcrm.2023.101249_bib48","doi-asserted-by":"crossref","DOI":"10.3389\/fimmu.2022.958620","article-title":"From protein-protein interactions to immune modulation: Therapeutic prospects of targeting Neuropilin-1 in high-grade glioma","volume":"13","author":"Smith","year":"2022","journal-title":"Front. Immunol."},{"key":"10.1016\/j.xcrm.2023.101249_bib49","doi-asserted-by":"crossref","first-page":"1888","DOI":"10.1016\/j.cell.2019.05.031","article-title":"Comprehensive Integration of Single-Cell Data","volume":"177","author":"Stuart","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.xcrm.2023.101249_bib51","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1016\/j.cels.2018.11.005","article-title":"Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data","volume":"8","author":"Wolock","year":"2019","journal-title":"Cell Syst."},{"key":"10.1016\/j.xcrm.2023.101249_bib53","series-title":"Klarman Cell Observatory","article-title":"inferCNV of the Trinity CTAT Project","author":"Tickle","year":"2019"},{"key":"10.1016\/j.xcrm.2023.101249_bib54","doi-asserted-by":"crossref","first-page":"1333","DOI":"10.1038\/s41592-021-01282-5","article-title":"Single-cell chromatin state analysis with Signac","volume":"18","author":"Stuart","year":"2021","journal-title":"Nat. Methods"},{"key":"10.1016\/j.xcrm.2023.101249_bib50","doi-asserted-by":"crossref","first-page":"792","DOI":"10.1038\/s41591-020-0844-1","article-title":"A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors","volume":"26","author":"Slyper","year":"2020","journal-title":"Nat. Med."},{"key":"10.1016\/j.xcrm.2023.101249_bib52","article-title":"Generating publication ready visualizations for Single Cell transcriptomics using SCpubr","author":"Blanco-Carmona","year":"2022","journal-title":"bioRxiv"},{"key":"10.1016\/j.xcrm.2023.101249_bib55","series-title":"EnsDb.Hsapiens.v86: Ensembl Based Annotation Package","author":"Rainer","year":"2017"},{"key":"10.1016\/j.xcrm.2023.101249_bib56","doi-asserted-by":"crossref","first-page":"9354","DOI":"10.1038\/s41598-019-45839-z","article-title":"The ENCODE Blacklist: Identification of Problematic Regions of the Genome","volume":"9","author":"Amemiya","year":"2019","journal-title":"Sci. Rep."},{"key":"10.1016\/j.xcrm.2023.101249_bib57","doi-asserted-by":"crossref","first-page":"925","DOI":"10.1038\/s41587-019-0206-z","article-title":"Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T\u00a0cell exhaustion","volume":"37","author":"Satpathy","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.xcrm.2023.101249_bib58","doi-asserted-by":"crossref","first-page":"747","DOI":"10.1038\/s41587-020-0469-4","article-title":"Benchmarking single-cell RNA-sequencing protocols for cell atlas projects","volume":"38","author":"Mereu","year":"2020","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.xcrm.2023.101249_bib59","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1038\/s41586-019-1434-6","article-title":"Resolving medulloblastoma cellular architecture by single-cell genomics","volume":"572","author":"Hovestadt","year":"2019","journal-title":"Nature"},{"key":"10.1016\/j.xcrm.2023.101249_bib60","doi-asserted-by":"crossref","first-page":"W90","DOI":"10.1093\/nar\/gkw377","article-title":"Enrichr: a comprehensive gene set enrichment analysis web server 2016 update","volume":"44","author":"Kuleshov","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.xcrm.2023.101249_bib61","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J.\u00a0Roy. Stat. Soc. B"},{"key":"10.1016\/j.xcrm.2023.101249_bib62","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1038\/s41467-017-02391-6","article-title":"Perturbation-response genes reveal signaling footprints in cancer gene expression","volume":"9","author":"Schubert","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.xcrm.2023.101249_bib63","doi-asserted-by":"crossref","first-page":"1363","DOI":"10.1101\/gr.240663.118","article-title":"Benchmark and integration of resources for the estimation of human transcription factor activities","volume":"29","author":"Garcia-Alonso","year":"2019","journal-title":"Genome Res."}],"container-title":["Cell Reports Medicine"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2666379123004263?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2666379123004263?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,2,12]],"date-time":"2026-02-12T01:00:27Z","timestamp":1770858027000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2666379123004263"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,11]]},"references-count":63,"journal-issue":{"issue":"11","published-print":{"date-parts":[[2023,11]]}},"alternative-id":["S2666379123004263"],"URL":"https:\/\/doi.org\/10.1016\/j.xcrm.2023.101249","relation":{},"ISSN":["2666-3791"],"issn-type":[{"value":"2666-3791","type":"print"}],"subject":[],"published":{"date-parts":[[2023,11]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Tumor heterogeneity and tumor-microglia interactions in primary and recurrent IDH1-mutant gliomas","name":"articletitle","label":"Article Title"},{"value":"Cell Reports Medicine","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.xcrm.2023.101249","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2023 The Author(s).","name":"copyright","label":"Copyright"}],"article-number":"101249"}}