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      GD2-CAR T cell therapy for H3K27M-mutated diffuse midline gliomas

      research-article
      1 , 2 , 3 , 1 , 2 , 4 , 1 , 1 , 1 , 2 , 1 , 2 , 5 , 1 , 2 , 6 , 6 , 1 , 3 , 7 , 6 , 6 , 8 , 6 , 1 , 2 , 6 , 6 , 2 , 6 , 1 , 1 , 1 , 1 , 1 , 2 , 1 , 2 , 1 , 2 , 2 , 2 , 2 , 5 , 1 , 8 , 9 , 9 , 6 , 6 , 6 , 5 , 10 , 1 , 2 , 1 , 2 , 1 , 1 , 2 , 3 , 11 , , 1 , 2 , 6 , 8 , 10 , 12 ,
      Nature
      Nature Publishing Group UK
      CNS cancer, Paediatric research

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          Abstract

          Diffuse intrinsic pontine glioma (DIPG) and other H3K27M-mutated diffuse midline gliomas (DMGs) are universally lethal paediatric tumours of the central nervous system 1 . We have previously shown that the disialoganglioside GD2 is highly expressed on H3K27M-mutated glioma cells and have demonstrated promising preclinical efficacy of GD2-directed chimeric antigen receptor (CAR) T cells 2 , providing the rationale for a first-in-human phase I clinical trial (NCT04196413). Because CAR T cell-induced brainstem inflammation can result in obstructive hydrocephalus, increased intracranial pressure and dangerous tissue shifts, neurocritical care precautions were incorporated. Here we present the clinical experience from the first four patients with H3K27M-mutated DIPG or spinal cord DMG treated with GD2-CAR T cells at dose level 1 (1 × 10 6 GD2-CAR T cells per kg administered intravenously). Patients who exhibited clinical benefit were eligible for subsequent GD2-CAR T cell infusions administered intracerebroventricularly 3 . Toxicity was largely related to the location of the tumour and was reversible with intensive supportive care. On-target, off-tumour toxicity was not observed. Three of four patients exhibited clinical and radiographic improvement. Pro-inflammatory cytokine levels were increased in the plasma and cerebrospinal fluid. Transcriptomic analyses of 65,598 single cells from CAR T cell products and cerebrospinal fluid elucidate heterogeneity in response between participants and administration routes. These early results underscore the promise of this therapeutic approach for patients with H3K27M-mutated DIPG or spinal cord DMG.

          Abstract

          A phase I dose-escalation trial of GD2-CAR T cells in children and young adults with diffuse midline gliomas to assess the feasibility of manufacturing, safety and tolerability, and to preliminarily assess efficacy.

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          Comprehensive Integration of Single-Cell Data

          Single-cell transcriptomics has transformed our ability to characterize cell states, but deep biological understanding requires more than a taxonomic listing of clusters. As new methods arise to measure distinct cellular modalities, a key analytical challenge is to integrate these datasets to better understand cellular identity and function. Here, we develop a strategy to "anchor" diverse datasets together, enabling us to integrate single-cell measurements not only across scRNA-seq technologies, but also across different modalities. After demonstrating improvement over existing methods for integrating scRNA-seq data, we anchor scRNA-seq experiments with scATAC-seq to explore chromatin differences in closely related interneuron subsets and project protein expression measurements onto a bone marrow atlas to characterize lymphocyte populations. Lastly, we harmonize in situ gene expression and scRNA-seq datasets, allowing transcriptome-wide imputation of spatial gene expression patterns. Our work presents a strategy for the assembly of harmonized references and transfer of information across datasets.
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            Integrated analysis of multimodal single-cell data

            Summary The simultaneous measurement of multiple modalities represents an exciting frontier for single-cell genomics and necessitates computational methods that can define cellular states based on multimodal data. Here, we introduce “weighted-nearest neighbor” analysis, an unsupervised framework to learn the relative utility of each data type in each cell, enabling an integrative analysis of multiple modalities. We apply our procedure to a CITE-seq dataset of 211,000 human peripheral blood mononuclear cells (PBMCs) with panels extending to 228 antibodies to construct a multimodal reference atlas of the circulating immune system. Multimodal analysis substantially improves our ability to resolve cell states, allowing us to identify and validate previously unreported lymphoid subpopulations. Moreover, we demonstrate how to leverage this reference to rapidly map new datasets and to interpret immune responses to vaccination and coronavirus disease 2019 (COVID-19). Our approach represents a broadly applicable strategy to analyze single-cell multimodal datasets and to look beyond the transcriptome toward a unified and multimodal definition of cellular identity.
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              The 2016 World Health Organization Classification of Tumors of the Central Nervous System: a summary.

              The 2016 World Health Organization Classification of Tumors of the Central Nervous System is both a conceptual and practical advance over its 2007 predecessor. For the first time, the WHO classification of CNS tumors uses molecular parameters in addition to histology to define many tumor entities, thus formulating a concept for how CNS tumor diagnoses should be structured in the molecular era. As such, the 2016 CNS WHO presents major restructuring of the diffuse gliomas, medulloblastomas and other embryonal tumors, and incorporates new entities that are defined by both histology and molecular features, including glioblastoma, IDH-wildtype and glioblastoma, IDH-mutant; diffuse midline glioma, H3 K27M-mutant; RELA fusion-positive ependymoma; medulloblastoma, WNT-activated and medulloblastoma, SHH-activated; and embryonal tumour with multilayered rosettes, C19MC-altered. The 2016 edition has added newly recognized neoplasms, and has deleted some entities, variants and patterns that no longer have diagnostic and/or biological relevance. Other notable changes include the addition of brain invasion as a criterion for atypical meningioma and the introduction of a soft tissue-type grading system for the now combined entity of solitary fibrous tumor / hemangiopericytoma-a departure from the manner by which other CNS tumors are graded. Overall, it is hoped that the 2016 CNS WHO will facilitate clinical, experimental and epidemiological studies that will lead to improvements in the lives of patients with brain tumors.
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                Author and article information

                Contributors
                cmackall@stanford.edu
                mmonje@stanford.edu
                Journal
                Nature
                Nature
                Nature
                Nature Publishing Group UK (London )
                0028-0836
                1476-4687
                7 February 2022
                7 February 2022
                2022
                : 603
                : 7903
                : 934-941
                Affiliations
                [1 ]GRID grid.168010.e, ISNI 0000000419368956, Stanford Center for Cancer Cell Therapy, Stanford Cancer Institute, , Stanford University, ; Stanford, CA USA
                [2 ]GRID grid.168010.e, ISNI 0000000419368956, Division of Pediatric Hematology, Oncology, Stem Cell Transplantation & Regenerative Medicine, Department of Pediatrics, , Stanford University, ; Stanford, CA USA
                [3 ]GRID grid.489192.f, ISNI 0000 0004 7782 4884, Parker Institute for Cancer Immunotherapy, ; San Francisco, CA USA
                [4 ]GRID grid.168010.e, ISNI 0000000419368956, Division of Neuroradiology, Department of Radiology, , Stanford University, ; Stanford, CA USA
                [5 ]GRID grid.65499.37, ISNI 0000 0001 2106 9910, Division of Pediatric Neuro-Oncology, Dana Farber Cancer Institute, ; Boston, MA USA
                [6 ]GRID grid.168010.e, ISNI 0000000419368956, Department of Neurology and Neurological Sciences, , Stanford University, ; Stanford, CA USA
                [7 ]GRID grid.168010.e, ISNI 0000000419368956, Department of Biomedical Data Science, , Stanford University, ; Stanford, CA USA
                [8 ]GRID grid.168010.e, ISNI 0000000419368956, Department of Pathology, , Stanford University, ; Stanford, CA USA
                [9 ]GRID grid.168010.e, ISNI 0000000419368956, Division of Critical Care Medicine, Department of Pediatrics, , Stanford University, ; Stanford, CA USA
                [10 ]GRID grid.168010.e, ISNI 0000000419368956, Department of Neurosurgery, , Stanford University, ; Stanford, CA USA
                [11 ]GRID grid.168010.e, ISNI 0000000419368956, Division of Stem Cell Transplantation and Cell Therapy, Department of Medicine, , Stanford University, ; Stanford, CA USA
                [12 ]GRID grid.168010.e, ISNI 0000000419368956, Howard Hughes Medical Institute, , Stanford University, ; Stanford, CA USA
                Author information
                http://orcid.org/0000-0001-6969-8011
                http://orcid.org/0000-0001-9860-3368
                http://orcid.org/0000-0002-4809-5569
                http://orcid.org/0000-0003-2343-5771
                http://orcid.org/0000-0003-1073-916X
                http://orcid.org/0000-0001-6630-6289
                http://orcid.org/0000-0002-1196-1590
                http://orcid.org/0000-0002-3519-1375
                http://orcid.org/0000-0002-7182-2592
                http://orcid.org/0000-0001-6323-4304
                http://orcid.org/0000-0002-3547-237X
                Article
                4489
                10.1038/s41586-022-04489-4
                8967714
                35130560
                a5692a39-121b-441d-8712-d487029182e0
                © The Author(s) 2022

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 2 August 2021
                : 28 January 2022
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                © The Author(s), under exclusive licence to Springer Nature Limited 2022

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                cns cancer,paediatric research
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                cns cancer, paediatric research

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