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      Distinct tau neuropathology and cellular profiles of an APOE3 Christchurch homozygote protected against autosomal dominant Alzheimer’s dementia

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          Abstract

          We describe in vivo follow-up PET imaging and postmortem findings from an autosomal dominant Alzheimer’s disease (ADAD) PSEN1 E280A carrier who was also homozygous for the APOE3 Christchurch (APOE3ch) variant and was protected against Alzheimer’s symptoms for almost three decades beyond the expected age of onset. We identified a distinct anatomical pattern of tau pathology with atypical accumulation in vivo and unusual postmortem regional distribution characterized by sparing in the frontal cortex and severe pathology in the occipital cortex. The frontal cortex and the hippocampus, less affected than the occipital cortex by tau pathology, contained Related Orphan Receptor B (RORB) positive neurons, homeostatic astrocytes and higher APOE expression. The occipital cortex, the only cortical region showing cerebral amyloid angiopathy (CAA), exhibited a distinctive chronic inflammatory microglial profile and lower APOE expression. Thus, the Christchurch variant may impact the distribution of tau pathology, modulate age at onset, severity, progression, and clinical presentation of ADAD, suggesting possible therapeutic strategies.

          Supplementary Information

          The online version contains supplementary material available at 10.1007/s00401-022-02467-8.

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          Most cited references39

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          clusterProfiler: an R package for comparing biological themes among gene clusters.

          Increasing quantitative data generated from transcriptomics and proteomics require integrative strategies for analysis. Here, we present an R package, clusterProfiler that automates the process of biological-term classification and the enrichment analysis of gene clusters. The analysis module and visualization module were combined into a reusable workflow. Currently, clusterProfiler supports three species, including humans, mice, and yeast. Methods provided in this package can be easily extended to other species and ontologies. The clusterProfiler package is released under Artistic-2.0 License within Bioconductor project. The source code and vignette are freely available at http://bioconductor.org/packages/release/bioc/html/clusterProfiler.html.
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            Neuropathological stageing of Alzheimer-related changes

            Eighty-three brains obtained at autopsy from nondemented and demented individuals were examined for extracellular amyloid deposits and intraneuronal neurofibrillary changes. The distribution pattern and packing density of amyloid deposits turned out to be of limited significance for differentiation of neuropathological stages. Neurofibrillary changes occurred in the form of neuritic plaques, neurofibrillary tangles and neuropil threads. The distribution of neuritic plaques varied widely not only within architectonic units but also from one individual to another. Neurofibrillary tangles and neuropil threads, in contrast, exhibited a characteristic distribution pattern permitting the differentiation of six stages. The first two stages were characterized by an either mild or severe alteration of the transentorhinal layer Pre-alpha (transentorhinal stages I-II). The two forms of limbic stages (stages III-IV) were marked by a conspicuous affection of layer Pre-alpha in both transentorhinal region and proper entorhinal cortex. In addition, there was mild involvement of the first Ammon's horn sector. The hallmark of the two isocortical stages (stages V-VI) was the destruction of virtually all isocortical association areas. The investigation showed that recognition of the six stages required qualitative evaluation of only a few key preparations.
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              DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

              Single-cell RNA sequencing (scRNA-seq) data are commonly affected by technical artifacts known as “doublets,” which limit cell throughput and lead to spurious biological conclusions. Here, we present a computational doublet detection tool—Doublet-Finder—that identifies doublets using only gene expression data. DoubletFinder predicts doublets according to each real cell’s proximity in gene expression space to artificial doublets created by averaging the transcriptional profile of randomly chosen cell pairs. We first use scRNA-seq datasets where the identity of doublets is known to show that DoubletFinder identifies doublets formed from transcriptionally distinct cells. When these doublets are removed, the identification of differentially expressed genes is enhanced. Second, we provide a method for estimating DoubletFinder input parameters, allowing its application across scRNA-seq datasets with diverse distributions of cell types. Lastly, we present “best practices” for DoubletFinder applications and illustrate that DoubletFinder is insensitive to an experimentally validated kidney cell type with “hybrid” expression features. scRNA-seq data interpretation is confounded by technical artifacts known as doublets—single-cell transcriptome data representing more than one cell. Moreover, scRNA-seq cellular throughput is purposefully limited to minimize doublet formation rates. By identifying cells sharing expression features with simulated doublets, DoubletFinder detects many real doublets and mitigates these two limitations.
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                Author and article information

                Contributors
                dsepulve@uke.de
                yquiroz@mgh.harvard.edu
                Journal
                Acta Neuropathol
                Acta Neuropathol
                Acta Neuropathologica
                Springer Berlin Heidelberg (Berlin/Heidelberg )
                0001-6322
                1432-0533
                15 July 2022
                15 July 2022
                2022
                : 144
                : 3
                : 589-601
                Affiliations
                [1 ]GRID grid.13648.38, ISNI 0000 0001 2180 3484, Molecular Neuropathology of Alzheimer’s Disease, Institute of Neuropathology, , University Medical Center Hamburg-Eppendorf, ; Hamburg, Germany
                [2 ]GRID grid.38142.3c, ISNI 000000041936754X, Department of Neurology, Massachusetts General Hospital, , Harvard Medical School, ; Boston, MA USA
                [3 ]GRID grid.133342.4, ISNI 0000 0004 1936 9676, Department of Molecular, Cellular and Developmental Biology, Neuroscience Research Institute, , University of California, ; Santa Barbara, CA 93106 USA
                [4 ]GRID grid.412368.a, ISNI 0000 0004 0643 8839, Center for Natural and Human Sciences, , Federal University of ABC, ; São Bernardo do Campo, SP Brazil
                [5 ]GRID grid.266100.3, ISNI 0000 0001 2107 4242, National Center for Microscopy and Imaging Research (NCMIR), San Diego School of Medicine (UCSD), , University of California, ; La Jolla, San Diego, CA 92093 USA
                [6 ]GRID grid.266100.3, ISNI 0000 0001 2107 4242, Department of Neurosciences, San Diego School of Medicine (UCSD), , University of California, ; La Jolla, San Diego, CA 92093 USA
                [7 ]GRID grid.38142.3c, ISNI 000000041936754X, Department of Psychiatry, Massachusetts General Hospital, , Harvard Medical School, ; Boston, MA USA
                [8 ]GRID grid.412881.6, ISNI 0000 0000 8882 5269, Grupo de Neurociencias de Antioquia, Facultad de Medicina, , Universidad de Antioquia, ; Medellín, Antioquia Colombia
                [9 ]GRID grid.414208.b, ISNI 0000 0004 0619 8759, Department of Neuropathology, , Banner Sun Health Research Institute, ; Sun City, AZ USA
                [10 ]GRID grid.267313.2, ISNI 0000 0000 9482 7121, Department of Pathology, Neuropathology Laboratory, , University of Texas Southwestern Medical Center, ; Dallas, USA
                [11 ]GRID grid.13648.38, ISNI 0000 0001 2180 3484, Institute of Neuropathology, , University Medical Center Hamburg-Eppendorf, ; Hamburg, Germany
                [12 ]GRID grid.13648.38, ISNI 0000 0001 2180 3484, Experimental Pathology Core Facility, , University Medical Center Hamburg-Eppendorf, ; Hamburg, Germany
                [13 ]GRID grid.38142.3c, ISNI 000000041936754X, Department of Radiology, Massachusetts General Hospital, , Harvard Medical School, ; Boston, MA USA
                [14 ]GRID grid.418204.b, ISNI 0000 0004 0406 4925, The Banner Alzheimer’s Institute, ; Phoenix, AZ USA
                [15 ]GRID grid.38142.3c, ISNI 000000041936754X, Schepens Eye Research Institute of Mass Eye and Ear and Department of Ophthalmology, , Harvard Medical School, ; Boston, MA USA
                Author information
                http://orcid.org/0000-0003-0176-2042
                Article
                2467
                10.1007/s00401-022-02467-8
                9381462
                35838824
                0fb25edf-51a4-465a-abb5-1ffbd6581d29
                © The Author(s) 2022

                Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 29 March 2022
                : 21 June 2022
                : 1 July 2022
                Funding
                Funded by: National Institute of Aging
                Award ID: R01 AG054671
                Award Recipient :
                Funded by: Massachusetts General Hospital Executive Committee on Research
                Funded by: Alzheimer’s Association Research Grant
                Funded by: Deutsche Forschungsgemeinschaft
                Award ID: CellNetFAD # 458854216
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/100000065, National Institute of Neurological Disorders and Stroke;
                Award ID: RF1 NS110048
                Award ID: RF1 NS110048
                Award ID: UH3 NS100121
                Award Recipient :
                Funded by: Alzheimer’s Association Research Fellowship
                Funded by: Universidad de Antioquia
                Funded by: FundRef http://dx.doi.org/10.13039/501100001807, Fundação de Amparo à Pesquisa do Estado de São Paulo;
                Award ID: 2019/22819-8
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100017519, Werner Otto Stiftung;
                Funded by: FundRef http://dx.doi.org/10.13039/501100002347, Bundesministerium für Bildung und Forschung;
                Award ID: UndoAD
                Award Recipient :
                Funded by: Universitätsklinikum Hamburg-Eppendorf (UKE) (5411)
                Categories
                Case Report
                Custom metadata
                © Springer-Verlag GmbH Germany, part of Springer Nature 2022

                Neurology
                alzheimer’s disease,dementia,tau,pet,transcriptomics,apoe
                Neurology
                alzheimer’s disease, dementia, tau, pet, transcriptomics, apoe

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