{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,31]],"date-time":"2025-12-31T03:52:16Z","timestamp":1767153136870,"version":"build-2238731810"},"reference-count":89,"publisher":"Springer Science and Business Media LLC","issue":"8","license":[{"start":{"date-parts":[[2015,11,10]],"date-time":"2015-11-10T00:00:00Z","timestamp":1447113600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-sa\/4.0"},{"start":{"date-parts":[[2015,11,10]],"date-time":"2015-11-10T00:00:00Z","timestamp":1447113600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-sa\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Mol Psychiatry"],"published-print":{"date-parts":[[2016,8]]},"DOI":"10.1038\/mp.2015.167","type":"journal-article","created":{"date-parts":[[2015,11,10]],"date-time":"2015-11-10T04:02:25Z","timestamp":1447128145000},"page":"1099-1111","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":11,"title":["Molecular systems evaluation of oligomerogenic APPE693Q and fibrillogenic APPKM670\/671NL\/PSEN1\u0394exon9 mouse models identifies shared features with human Alzheimer\u2019s brain molecular pathology"],"prefix":"10.1038","volume":"21","author":[{"given":"B","family":"Readhead","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"J-V","family":"Haure-Mirande","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"B","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"V","family":"Haroutunian","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"S","family":"Gandy","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"E E","family":"Schadt","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"J T","family":"Dudley","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"M E","family":"Ehrlich","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2015,11,10]]},"reference":[{"key":"BFmp2015167_CR1","doi-asserted-by":"publisher","first-page":"218","DOI":"10.1038\/nature08454","volume":"461","author":"EE Schadt","year":"2009","unstructured":"Schadt EE . Molecular networks as sensors and drivers of common human diseases. Nature 2009; 461: 218\u2013223.","journal-title":"Nature"},{"key":"BFmp2015167_CR2","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1007\/BF01276421","volume":"103","author":"H Braak","year":"1996","unstructured":"Braak H, Braak E, Yilmazer D, de Vos RA, Jansen EN, Bohl J . Pattern of brain destruction in Parkinson's and Alzheimer's diseases. J Neural Transm 1996; 103: 455\u2013490.","journal-title":"J Neural Transm"},{"key":"BFmp2015167_CR3","doi-asserted-by":"publisher","first-page":"107","DOI":"10.1056\/NEJMoa1211103","volume":"368","author":"T Jonsson","year":"2013","unstructured":"Jonsson T, Stefansson H, Steinberg S, Jonsdottir I, Jonsson PV, Snaedal J et al. Variant of TREM2 associated with the risk of Alzheimer's disease. N Engl J Med 2013; 368: 107\u2013116.","journal-title":"N Engl J Med"},{"key":"BFmp2015167_CR4","doi-asserted-by":"publisher","first-page":"117","DOI":"10.1056\/NEJMoa1211851","volume":"368","author":"R Guerreiro","year":"2013","unstructured":"Guerreiro R, Wojtas A, Bras J, Carrasquillo M, Rogaeva E, Majounie E et al. TREM2 variants in Alzheimer's disease. N Engl J Med 2013; 368: 117\u2013127.","journal-title":"N Engl J Med"},{"key":"BFmp2015167_CR5","doi-asserted-by":"publisher","first-page":"707","DOI":"10.1016\/j.cell.2013.03.030","volume":"153","author":"B Zhang","year":"2013","unstructured":"Zhang B, Gaiteri C, Bodea LG, Wang Z, McElwee J, Podtelezhnikov AA et al. Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer's disease. Cell 2013; 153: 707\u2013720.","journal-title":"Cell"},{"key":"BFmp2015167_CR6","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1002\/ana.22052","volume":"68","author":"S Gandy","year":"2010","unstructured":"Gandy S, Simon AJ, Steele JW, Lublin AL, Lah JJ, Walker LC et al. Days to criterion as an indicator of toxicity associated with human Alzheimer amyloid-beta oligomers. Ann Neurol 2010; 68: 220\u2013230.","journal-title":"Ann Neurol"},{"key":"BFmp2015167_CR7","doi-asserted-by":"publisher","first-page":"1124","DOI":"10.1126\/science.2111584","volume":"248","author":"E Levy","year":"1990","unstructured":"Levy E, Carman MD, Fernandez-Madrid IJ, Power MD, Lieberburg I, van Duinen SG et al. Mutation of the Alzheimer's disease amyloid gene in hereditary cerebral hemorrhage, Dutch type. Science 1990; 248: 1124\u20131126.","journal-title":"Science"},{"key":"BFmp2015167_CR8","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1186\/1750-1326-9-41","volume":"9","author":"KA Price","year":"2014","unstructured":"Price KA, Varghese M, Sowa A, Yuk F, Brautigam H, Ehrlich ME et al. Altered synaptic structure in the hippocampus in a mouse model of Alzheimer's disease with soluble amyloid-beta oligomers and no plaque pathology. Mol Neurodegener 2014; 9: 41.","journal-title":"Mol Neurodegener"},{"key":"BFmp2015167_CR9","doi-asserted-by":"publisher","first-page":"159","DOI":"10.1093\/hmg\/ddh019","volume":"13","author":"JL Jankowsky","year":"2004","unstructured":"Jankowsky JL, Fadale DJ, Anderson J, Xu GM, Gonzales V, Jenkins NA et al. Mutant presenilins specifically elevate the levels of the 42 residue beta-amyloid peptide in vivo: evidence for augmentation of a 42-specific gamma secretase. Hum Mol Genet 2004; 13: 159\u2013170.","journal-title":"Hum Mol Genet"},{"key":"BFmp2015167_CR10","doi-asserted-by":"publisher","first-page":"319","DOI":"10.1097\/NEN.0000000000000176","volume":"74","author":"I Lopez-Gonzalez","year":"2015","unstructured":"Lopez-Gonzalez I, Schluter A, Aso E, Garcia-Esparcia P, Ansoleaga B, LL F et al. Neuroinflammatory signals in Alzheimer disease and APP\/PS1 transgenic mice: correlations with plaques, tangles, and oligomeric species. J Neuropathol Exp Neurol 2015; 74: 319\u2013344.","journal-title":"J Neuropathol Exp Neurol"},{"key":"BFmp2015167_CR11","doi-asserted-by":"publisher","first-page":"1235","DOI":"10.1038\/mp.2014.87","volume":"19","author":"SH Kim","year":"2014","unstructured":"Kim SH, Steele JW, Lee SW, Clemenson GD, Carter TA, Treuner K et al. Proneurogenic Group II mGluR antagonist improves learning and reduces anxiety in Alzheimer Abeta oligomer mouse. Mol Psychiatry 2014; 19: 1235\u20131242.","journal-title":"Mol Psychiatry"},{"key":"BFmp2015167_CR12","doi-asserted-by":"publisher","first-page":"1238","DOI":"10.1021\/cn500156r","volume":"5","author":"A Sebollela","year":"2014","unstructured":"Sebollela A, Mustata GM, Luo K, Velasco PT, Viola KL, Cline EN et al. Elucidating molecular mass and shape of a neurotoxic Abeta oligomer. ACS Chem Neurosci 2014; 5: 1238\u20131245.","journal-title":"ACS Chem Neurosci"},{"key":"BFmp2015167_CR13","doi-asserted-by":"publisher","first-page":"552","DOI":"10.1042\/bst0300552","volume":"30","author":"DM Walsh","year":"2002","unstructured":"Walsh DM, Klyubin I, Fadeeva JV, Rowan MJ, Selkoe DJ . Amyloid-beta oligomers: their production, toxicity and therapeutic inhibition. Biochem Soc Trans 2002; 30: 552\u2013557.","journal-title":"Biochem Soc Trans"},{"key":"BFmp2015167_CR14","doi-asserted-by":"publisher","first-page":"970","DOI":"10.1089\/cmb.2012.0283","volume":"20","author":"SN Hart","year":"2013","unstructured":"Hart SN, Therneau TM, Zhang Y, Poland GA, Kocher JP . Calculating sample size estimates for RNA sequencing data. J Comput Biol 2013; 20: 970\u2013978.","journal-title":"J Comput Biol"},{"key":"BFmp2015167_CR15","doi-asserted-by":"publisher","first-page":"520","DOI":"10.1038\/nature01262","volume":"420","author":"RH Waterston","year":"2002","unstructured":"Mouse Genome Sequencing C Mouse Genome Sequencing C Waterston RH Mouse Genome Sequencing C Lindblad-Toh K Mouse Genome Sequencing C Birney E Mouse Genome Sequencing C Rogers J Mouse Genome Sequencing C Abril JF et al. Initial sequencing and comparative analysis of the mouse genome. Nature 2002; 420: 520\u2013562.","journal-title":"Nature"},{"key":"BFmp2015167_CR16","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","volume":"29","author":"A Dobin","year":"2013","unstructured":"Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 2013; 29: 15\u201321.","journal-title":"Bioinformatics"},{"key":"BFmp2015167_CR17","doi-asserted-by":"publisher","first-page":"e108","DOI":"10.1093\/nar\/gkt214","volume":"41","author":"Y Liao","year":"2013","unstructured":"Liao Y, Smyth GK, Shi W . The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote. Nucleic Acids Res 2013; 41: e108.","journal-title":"Nucleic Acids Res"},{"key":"BFmp2015167_CR18","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1093\/bioinformatics\/btt656","volume":"30","author":"Y Liao","year":"2014","unstructured":"Liao Y, Smyth GK, Shi W . FeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 2014; 30: 923\u2013930.","journal-title":"Bioinformatics"},{"key":"BFmp2015167_CR19","doi-asserted-by":"publisher","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","volume":"15","author":"MI Love","year":"2014","unstructured":"Love MI, Huber W, Anders S . Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol 2014; 15: 550.","journal-title":"Genome Biol"},{"key":"BFmp2015167_CR20","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","volume":"57","author":"Y Benjamini","year":"1995","unstructured":"Benjamini Y, Hochberg Y . Controlling the false discovery rate - a practical and powerful approach to multiple testing. J Roy Stat Soc B Met 1995; 57: 289\u2013300.","journal-title":"J Roy Stat Soc B Met"},{"key":"BFmp2015167_CR21","doi-asserted-by":"publisher","first-page":"161","DOI":"10.1186\/1471-2105-10-161","volume":"10","author":"W Luo","year":"2009","unstructured":"Luo W, Friedman MS, Shedden K, Hankenson KD, Woolf PJ . GAGE: generally applicable gene set enrichment for pathway analysis. BMC Bioinformatics 2009; 10: 161.","journal-title":"BMC Bioinformatics"},{"key":"BFmp2015167_CR22","doi-asserted-by":"publisher","first-page":"15545","DOI":"10.1073\/pnas.0506580102","volume":"102","author":"A Subramanian","year":"2005","unstructured":"Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci USA 2005; 102: 15545\u201315550.","journal-title":"Proc Natl Acad Sci USA"},{"key":"BFmp2015167_CR23","doi-asserted-by":"publisher","first-page":"322","DOI":"10.1186\/1471-2105-12-322","volume":"12","author":"JA Miller","year":"2011","unstructured":"Miller JA, Cai C, Langfelder P, Geschwind DH, Kurian SM, Salomon DR et al. Strategies for aggregating gene expression data: the collapseRows R function. BMC Bioinformatics 2011; 12: 322.","journal-title":"BMC Bioinformatics"},{"key":"BFmp2015167_CR24","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1093\/bioinformatics\/btr625","volume":"28","author":"EY Chen","year":"2012","unstructured":"Chen EY, Xu H, Gordonov S, Lim MP, Perkins MH, Ma'ayan A . Expression2Kinases: mRNA profiling linked to multiple upstream regulatory layers. Bioinformatics 2012; 28: 105\u2013111.","journal-title":"Bioinformatics"},{"key":"BFmp2015167_CR25","doi-asserted-by":"publisher","first-page":"2438","DOI":"10.1093\/bioinformatics\/btq466","volume":"26","author":"A Lachmann","year":"2010","unstructured":"Lachmann A, Xu H, Krishnan J, Berger SI, Mazloom AR, Ma'ayan A . ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments. Bioinformatics 2010; 26: 2438\u20132444.","journal-title":"Bioinformatics"},{"key":"BFmp2015167_CR26","doi-asserted-by":"publisher","first-page":"D726","DOI":"10.1093\/nar\/gku967","volume":"43","author":"JT Eppig","year":"2015","unstructured":"Eppig JT, Blake JA, Bult CJ, Kadin JA, Richardson JE, Mouse Genome Database G. The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease. Nucleic Acids Res 2015; 43: D726\u2013D736.","journal-title":"Nucleic Acids Res"},{"key":"BFmp2015167_CR27","unstructured":"Carlson M, Falcon S, Pages H, Li N . org.Hs.eg.db: Genome wide annotation for Human, 2013."},{"key":"BFmp2015167_CR28","doi-asserted-by":"publisher","first-page":"2008","DOI":"10.1101\/gr.133744.111","volume":"22","author":"S Anders","year":"2012","unstructured":"Anders S, Reyes A, Huber W . Detecting differential usage of exons from RNA-seq data. Genome Res 2012; 22: 2008\u20132017.","journal-title":"Genome Res"},{"key":"BFmp2015167_CR29","doi-asserted-by":"crossref","unstructured":"Berkeley CA . Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. E-book available at: http:\/\/www.bepress.com\/sagmb\/vol3\/iss1\/art3 , 2004.","DOI":"10.2202\/1544-6115.1027"},{"key":"BFmp2015167_CR30","doi-asserted-by":"publisher","first-page":"R29","DOI":"10.1186\/gb-2014-15-2-r29","volume":"15","author":"CW Law","year":"2014","unstructured":"Law CW, Chen Y, Shi W, Smyth GK . voom: Precision weights unlock linear model analysis tools for RNA-seq read counts. Genome Biol 2014; 15: R29.","journal-title":"Genome Biol"},{"key":"BFmp2015167_CR31","doi-asserted-by":"publisher","first-page":"e47","DOI":"10.1093\/nar\/gkv007","volume":"43","author":"ME Ritchie","year":"2015","unstructured":"Ritchie ME, Phipson B, Wu D, Hu Y, Law CW, Shi W et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res 2015; 43: e47.","journal-title":"Nucleic Acids Res"},{"key":"BFmp2015167_CR32","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1038\/75556","volume":"25","author":"M Ashburner","year":"2000","unstructured":"Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000; 25: 25\u201329.","journal-title":"Nat Genet"},{"key":"BFmp2015167_CR33","doi-asserted-by":"publisher","first-page":"D199","DOI":"10.1093\/nar\/gkt1076","volume":"42","author":"M Kanehisa","year":"2014","unstructured":"Kanehisa M, Goto S, Sato Y, Kawashima M, Furumichi M, Tanabe M . Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res 2014; 42: D199\u2013D205.","journal-title":"Nucleic Acids Res"},{"key":"BFmp2015167_CR34","doi-asserted-by":"publisher","first-page":"27","DOI":"10.1093\/nar\/28.1.27","volume":"28","author":"M Kanehisa","year":"2000","unstructured":"Kanehisa M, Goto S . KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 2000; 28: 27\u201330.","journal-title":"Nucleic Acids Res"},{"key":"BFmp2015167_CR35","doi-asserted-by":"publisher","first-page":"2173","DOI":"10.1073\/pnas.0308512100","volume":"101","author":"EM Blalock","year":"2004","unstructured":"Blalock EM, Geddes JW, Chen KC, Porter NM, Markesbery WR, Landfield PW . Incipient Alzheimer's disease: microarray correlation analyses reveal major transcriptional and tumor suppressor responses. Proc Natl Acad Sci USA 2004; 101: 2173\u20132178.","journal-title":"Proc Natl Acad Sci USA"},{"key":"BFmp2015167_CR36","doi-asserted-by":"publisher","first-page":"462","DOI":"10.1002\/jnr.10351","volume":"70","author":"V Colangelo","year":"2002","unstructured":"Colangelo V, Schurr J, Ball MJ, Pelaez RP, Bazan NG, Lukiw WJ . Gene expression profiling of 12633 genes in Alzheimer hippocampal CA1: transcription and neurotrophic factor down-regulation and up-regulation of apoptotic and pro-inflammatory signaling. J Neurosci Res 2002; 70: 462\u2013473.","journal-title":"J Neurosci Res"},{"key":"BFmp2015167_CR37","doi-asserted-by":"publisher","first-page":"240","DOI":"10.1152\/physiolgenomics.00242.2007","volume":"33","author":"WS Liang","year":"2008","unstructured":"Liang WS, Dunckley T, Beach TG, Grover A, Mastroeni D, Ramsey K et al. Altered neuronal gene expression in brain regions differentially affected by Alzheimer's disease: a reference data set. Physiol Genomics 2008; 33: 240\u2013256.","journal-title":"Physiol Genomics"},{"key":"BFmp2015167_CR38","doi-asserted-by":"publisher","first-page":"2665","DOI":"10.1523\/JNEUROSCI.23-07-02665.2003","volume":"23","author":"ME Bamberger","year":"2003","unstructured":"Bamberger ME, Harris ME, McDonald DR, Husemann J, Landreth GE . A cell surface receptor complex for fibrillar beta-amyloid mediates microglial activation. J Neurosci 2003; 23: 2665\u20132674.","journal-title":"J Neurosci"},{"key":"BFmp2015167_CR39","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1016\/S0002-9440(10)64354-4","volume":"160","author":"IS Coraci","year":"2002","unstructured":"Coraci IS, Husemann J, Berman JW, Hulette C, Dufour JH, Campanella GK et al. CD36, a class B scavenger receptor, is expressed on microglia in Alzheimer's disease brains and can mediate production of reactive oxygen species in response to beta-amyloid fibrils. Am J Pathol 2002; 160: 101\u2013112.","journal-title":"Am J Pathol"},{"key":"BFmp2015167_CR40","doi-asserted-by":"publisher","first-page":"9838","DOI":"10.1523\/JNEUROSCI.2557-04.2004","volume":"24","author":"J Koenigsknecht","year":"2004","unstructured":"Koenigsknecht J, Landreth G . Microglial phagocytosis of fibrillar beta-amyloid through a beta1 integrin-dependent mechanism. J Neurosci 2004; 24: 9838\u20139846.","journal-title":"J Neurosci"},{"key":"BFmp2015167_CR41","doi-asserted-by":"publisher","first-page":"1326","DOI":"10.1038\/mp.2013.185","volume":"19","author":"V Chouraki","year":"2014","unstructured":"Chouraki V, De Bruijn RF, Chapuis J, Bis JC, Reitz C, Schraen S et al. A genome-wide association meta-analysis of plasma Abeta peptides concentrations in the elderly. Mol Psychiatry 2014; 19: 1326\u20131335.","journal-title":"Mol Psychiatry"},{"key":"BFmp2015167_CR42","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/S0306-4522(99)00059-7","volume":"91","author":"U Gartner","year":"1999","unstructured":"Gartner U, Holzer M, Arendt T . Elevated expression of p21ras is an early event in Alzheimer's disease and precedes neurofibrillary degeneration. Neuroscience 1999; 91: 1\u20135.","journal-title":"Neuroscience"},{"key":"BFmp2015167_CR43","doi-asserted-by":"publisher","first-page":"50","DOI":"10.1002\/ajmg.b.30767","volume":"150B","author":"SE Poduslo","year":"2009","unstructured":"Poduslo SE, Huang R, Huang J, Smith S . Genome screen of late-onset Alzheimer's extended pedigrees identifies TRPC4AP by haplotype analysis. Am J Med Genet B Neuropsychiatr Genet 2009; 150B: 50\u201355.","journal-title":"Am J Med Genet B Neuropsychiatr Genet"},{"key":"BFmp2015167_CR44","doi-asserted-by":"publisher","first-page":"78","DOI":"10.1086\/498851","volume":"78","author":"A Grupe","year":"2006","unstructured":"Grupe A, Li Y, Rowland C, Nowotny P, Hinrichs AL, Smemo S et al. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. Am J Hum Genet 2006; 78: 78\u201388.","journal-title":"Am J Hum Genet"},{"key":"BFmp2015167_CR45","doi-asserted-by":"publisher","first-page":"e52","DOI":"10.1371\/journal.pbio.0050052","volume":"5","author":"CJ Westmark","year":"2007","unstructured":"Westmark CJ, Malter JS . FMRP mediates mGluR5-dependent translation of amyloid precursor protein. PLoS Biol 2007; 5: e52.","journal-title":"PLoS Biol"},{"key":"BFmp2015167_CR46","doi-asserted-by":"publisher","first-page":"13833","DOI":"10.1074\/jbc.M610146200","volume":"282","author":"M Nizzari","year":"2007","unstructured":"Nizzari M, Venezia V, Repetto E, Caorsi V, Magrassi R, Gagliani MC et al. Amyloid precursor protein and Presenilin1 interact with the adaptor GRB2 and modulate ERK 1,2 signaling. J Biol Chem 2007; 282: 13833\u201313844.","journal-title":"J Biol Chem"},{"key":"BFmp2015167_CR47","doi-asserted-by":"publisher","first-page":"20315","DOI":"10.1074\/jbc.M601016200","volume":"281","author":"YH Chong","year":"2006","unstructured":"Chong YH, Shin YJ, Lee EO, Kayed R, Glabe CG, Tenner AJ . ERK1\/2 activation mediates Abeta oligomer-induced neurotoxicity via caspase-3 activation and tau cleavage in rat organotypic hippocampal slice cultures. J Biol Chem 2006; 281: 20315\u201320325.","journal-title":"J Biol Chem"},{"key":"BFmp2015167_CR48","doi-asserted-by":"publisher","first-page":"49105","DOI":"10.1074\/jbc.M405329200","volume":"279","author":"E Ghersi","year":"2004","unstructured":"Ghersi E, Noviello C, D'Adamio L . Amyloid-beta protein precursor (AbetaPP) intracellular domain-associated protein-1 proteins bind to AbetaPP and modulate its processing in an isoform-specific manner. J Biol Chem 2004; 279: 49105\u201349112.","journal-title":"J Biol Chem"},{"key":"BFmp2015167_CR49","doi-asserted-by":"publisher","first-page":"650","DOI":"10.1016\/j.neurobiolaging.2012.08.005","volume":"34","author":"SM Yun","year":"2013","unstructured":"Yun SM, Cho SJ, Song JC, Song SY, Jo SA, Jo C et al. SUMO1 modulates Abeta generation via BACE1 accumulation. Neurobiol Aging 2013; 34: 650\u2013662.","journal-title":"Neurobiol Aging"},{"key":"BFmp2015167_CR50","doi-asserted-by":"publisher","first-page":"3769","DOI":"10.1128\/MCB.01432-06","volume":"27","author":"D Pasini","year":"2007","unstructured":"Pasini D, Bracken AP, Hansen JB, Capillo M, Helin K . The polycomb group protein Suz12 is required for embryonic stem cell differentiation. Mol Cell Biol 2007; 27: 3769\u20133779.","journal-title":"Mol Cell Biol"},{"key":"BFmp2015167_CR51","doi-asserted-by":"publisher","first-page":"3441","DOI":"10.1242\/jcs.039859","volume":"122","author":"WD Bradley","year":"2009","unstructured":"Bradley WD, Koleske AJ . Regulation of cell migration and morphogenesis by Abl-family kinases: emerging mechanisms and physiological contexts. J Cell Sci 2009; 122: 3441\u20133454.","journal-title":"J Cell Sci"},{"key":"BFmp2015167_CR52","doi-asserted-by":"publisher","first-page":"pii: a004952","DOI":"10.1101\/cshperspect.a004952","volume":"3","author":"S Sarrazin","year":"2011","unstructured":"Sarrazin S, Lamanna WC, Esko JD . Heparan sulfate proteoglycans. Cold Spring Harb Perspect Biol 2011; 3: pii: a004952.","journal-title":"Cold Spring Harb Perspect Biol"},{"key":"BFmp2015167_CR53","unstructured":"Synapse. Accelerating Medicines Partnership (AMP) Alzheimer\u2019s Disease Knowledge Portal. https:\/\/www.synapse.org\/#!Synapse:syn2580853\/wiki\/ doi:10.7303\/syn2580853, 2015."},{"key":"BFmp2015167_CR54","doi-asserted-by":"publisher","first-page":"499","DOI":"10.1111\/j.1600-0854.2006.00400.x","volume":"7","author":"G Lansbergen","year":"2006","unstructured":"Lansbergen G, Akhmanova A . Microtubule plus end: a hub of cellular activities. Traffic 2006; 7: 499\u2013507.","journal-title":"Traffic"},{"key":"BFmp2015167_CR55","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","volume":"13","author":"P Shannon","year":"2003","unstructured":"Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 2003; 13: 2498\u20132504.","journal-title":"Genome Res"},{"key":"BFmp2015167_CR56","doi-asserted-by":"publisher","first-page":"147","DOI":"10.12688\/f1000research.4460.1","volume":"3","author":"JH Morris","year":"2014","unstructured":"Morris JH, Kuchinsky A, Ferrin TE, Pico AR . enhancedGraphics: a Cytoscape app for enhanced node graphics. F1000Res 2014; 3: 147.","journal-title":"F1000Res"},{"key":"BFmp2015167_CR57","doi-asserted-by":"publisher","first-page":"e26549","DOI":"10.1371\/journal.pone.0026549","volume":"6","author":"CJ Westmark","year":"2011","unstructured":"Westmark CJ, Westmark PR, O'Riordan KJ, Ray BC, Hervey CM, Salamat MS et al. Reversal of fragile X phenotypes by manipulation of AbetaPP\/Abeta levels in Fmr1KO mice. PloS One 2011; 6: e26549.","journal-title":"PloS One"},{"key":"BFmp2015167_CR58","doi-asserted-by":"publisher","first-page":"360","DOI":"10.3389\/fgene.2014.00360","volume":"5","author":"AJ Renoux","year":"2014","unstructured":"Renoux AJ, Carducci NM, Ahmady AA, Todd PK . Fragile X mental retardation protein expression in Alzheimer's disease. Front Genet 2014; 5: 360.","journal-title":"Front Genet"},{"key":"BFmp2015167_CR59","doi-asserted-by":"publisher","first-page":"4848","DOI":"10.1111\/j.1742-4658.2007.06006.x","volume":"274","author":"SV Orlov","year":"2007","unstructured":"Orlov SV, Kuteykin-Teplyakov KB, Ignatovich IA, Dizhe EB, Mirgorodskaya OA, Grishin AV et al. Novel repressor of the human FMR1 gene - identification of p56 human (GCC)(n)-binding protein as a Kruppel-like transcription factor ZF5. FEBS J 2007; 274: 4848\u20134862.","journal-title":"FEBS J"},{"key":"BFmp2015167_CR60","doi-asserted-by":"publisher","first-page":"13110","DOI":"10.1523\/JNEUROSCI.3872-10.2010","volume":"30","author":"RF Lane","year":"2010","unstructured":"Lane RF, Raines SM, Steele JW, Ehrlich ME, Lah JA, Small SA et al. Diabetes-associated SorCS1 regulates Alzheimer's amyloid-beta metabolism: evidence for involvement of SorL1 and the retromer complex. J Neurosci 2010; 30: 13110\u201313115.","journal-title":"J Neurosci"},{"key":"BFmp2015167_CR61","doi-asserted-by":"publisher","first-page":"30919","DOI":"10.1074\/jbc.M804029200","volume":"283","author":"CY Ko","year":"2008","unstructured":"Ko CY, Hsu HC, Shen MR, Chang WC, Wang JM . Epigenetic silencing of CCAAT\/enhancer-binding protein delta activity by YY1\/polycomb group\/DNA methyltransferase complex. J Biol Chem 2008; 283: 30919\u201330932.","journal-title":"J Biol Chem"},{"key":"BFmp2015167_CR62","doi-asserted-by":"publisher","first-page":"365","DOI":"10.1038\/nature14252","volume":"518","author":"E Gjoneska","year":"2015","unstructured":"Gjoneska E, Pfenning AR, Mathys H, Quon G, Kundaje A, Tsai LH et al. Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer's disease. Nature 2015; 518: 365\u2013369.","journal-title":"Nature"},{"key":"BFmp2015167_CR63","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1001\/jamaneurol.2014.3049","volume":"72","author":"L Yu","year":"2015","unstructured":"Yu L, Chibnik LB, Srivastava GP, Pochet N, Yang J, Xu J et al. Association of Brain DNA methylation in SORL1, ABCA7, HLA-DRB5, SLC24A4, and BIN1 with pathological diagnosis of Alzheimer disease. JAMA Neurol 2015; 72: 15\u201324.","journal-title":"JAMA Neurol"},{"key":"BFmp2015167_CR64","doi-asserted-by":"publisher","first-page":"1164","DOI":"10.1038\/nn.3782","volume":"17","author":"K Lunnon","year":"2014","unstructured":"Lunnon K, Smith R, Hannon E, De Jager PL, Srivastava G, Volta M et al. Methylomic profiling implicates cortical deregulation of ANK1 in Alzheimer's disease. Nat Neurosci 2014; 17: 1164\u20131170.","journal-title":"Nat Neurosci"},{"key":"BFmp2015167_CR65","doi-asserted-by":"publisher","first-page":"215","DOI":"10.1007\/s00401-012-1042-0","volume":"125","author":"D Lendvai","year":"2013","unstructured":"Lendvai D, Morawski M, Negyessy L, Gati G, Jager C, Baksa G et al. Neurochemical mapping of the human hippocampus reveals perisynaptic matrix around functional synapses in Alzheimer's disease. Acta Neuropathol 2013; 125: 215\u2013229.","journal-title":"Acta Neuropathol"},{"key":"BFmp2015167_CR66","first-page":"76","volume":"2","author":"MJ Vegh","year":"2014","unstructured":"Vegh MJ, Heldring CM, Kamphuis W, Hijazi S, Timmerman AJ, Li KW et al. Reducing hippocampal extracellular matrix reverses early memory deficits in a mouse model of Alzheimer's disease. Acta Neuropathol Commun 2014; 2: 76.","journal-title":"Acta Neuropathol Commun"},{"key":"BFmp2015167_CR67","doi-asserted-by":"publisher","first-page":"4833","DOI":"10.1523\/JNEUROSCI.5221-09.2010","volume":"30","author":"E Jorissen","year":"2010","unstructured":"Jorissen E, Prox J, Bernreuther C, Weber S, Schwanbeck R, Serneels L et al. The disintegrin\/metalloproteinase ADAM10 is essential for the establishment of the brain cortex. J Neurosci 2010; 30: 4833\u20134844.","journal-title":"J Neurosci"},{"key":"BFmp2015167_CR68","doi-asserted-by":"publisher","first-page":"1456","DOI":"10.1172\/JCI20864","volume":"113","author":"R Postina","year":"2004","unstructured":"Postina R, Schroeder A, Dewachter I, Bohl J, Schmitt U, Kojro E et al. A disintegrin-metalloproteinase prevents amyloid plaque formation and hippocampal defects in an Alzheimer disease mouse model. J Clin Invest 2004; 113: 1456\u20131464.","journal-title":"J Clin Invest"},{"key":"BFmp2015167_CR69","doi-asserted-by":"publisher","first-page":"385","DOI":"10.1016\/j.neuron.2013.08.035","volume":"80","author":"J Suh","year":"2013","unstructured":"Suh J, Choi SH, Romano DM, Gannon MA, Lesinski AN, Kim DY et al. ADAM10 missense mutations potentiate beta-amyloid accumulation by impairing prodomain chaperone function. Neuron 2013; 80: 385\u2013401.","journal-title":"Neuron"},{"key":"BFmp2015167_CR70","doi-asserted-by":"publisher","first-page":"721","DOI":"10.3233\/JAD-2010-1271","volume":"19","author":"MA Tremblay","year":"2010","unstructured":"Tremblay MA, Acker CM, Davies P . Tau phosphorylated at tyrosine 394 is found in Alzheimer's disease tangles and can be a product of the Abl-related kinase, Arg. J Alzheimer's Dis 2010; 19: 721\u2013733.","journal-title":"J Alzheimer's Dis"},{"key":"BFmp2015167_CR71","doi-asserted-by":"publisher","first-page":"575","DOI":"10.1016\/j.neuron.2013.05.007","volume":"78","author":"S Gandy","year":"2013","unstructured":"Gandy S, Heppner FL . Microglia as dynamic and essential components of the amyloid hypothesis. Neuron 2013; 78: 575\u2013577.","journal-title":"Neuron"},{"key":"BFmp2015167_CR72","doi-asserted-by":"publisher","first-page":"1452","DOI":"10.1038\/ng.2802","volume":"45","author":"JC Lambert","year":"2013","unstructured":"Lambert JC, Ibrahim-Verbaas CA, Harold D, Naj AC, Sims R, Bellenguez C et al. Meta-analysis of 74,046 individuals identifies 11 new susceptibility loci for Alzheimer's disease. Nat Genet 2013; 45: 1452\u20131458.","journal-title":"Nat Genet"},{"key":"BFmp2015167_CR73","doi-asserted-by":"publisher","first-page":"631","DOI":"10.1016\/j.neuron.2013.04.014","volume":"78","author":"A Griciuc","year":"2013","unstructured":"Griciuc A, Serrano-Pozo A, Parrado AR, Lesinski AN, Asselin CN, Mullin K et al. Alzheimer's disease risk gene CD33 inhibits microglial uptake of amyloid beta. Neuron 2013; 78: 631\u2013643.","journal-title":"Neuron"},{"key":"BFmp2015167_CR74","doi-asserted-by":"publisher","first-page":"7587","DOI":"10.1523\/JNEUROSCI.20-20-07587.2000","volume":"20","author":"J Tan","year":"2000","unstructured":"Tan J, Town T, Mori T, Wu Y, Saxe M, Crawford F et al. CD45 opposes beta-amyloid peptide-induced microglial activation via inhibition of p44\/42 mitogen-activated protein kinase. J Neurosci 2000; 20: 7587\u20137594.","journal-title":"J Neurosci"},{"key":"BFmp2015167_CR75","doi-asserted-by":"publisher","first-page":"5594","DOI":"10.4049\/jimmunol.1203331","volume":"191","author":"F Ebner","year":"2013","unstructured":"Ebner F, Brandt C, Thiele P, Richter D, Schliesser U, Siffrin V et al. Microglial activation milieu controls regulatory T cell responses. J Immunol 2013; 191: 5594\u20135602.","journal-title":"J Immunol"},{"key":"BFmp2015167_CR76","doi-asserted-by":"publisher","first-page":"534","DOI":"10.1016\/j.neuron.2014.12.068","volume":"85","author":"MV Guillot-Sestier","year":"2015","unstructured":"Guillot-Sestier MV, Doty KR, Gate D, Rodriguez J Jr, Leung BP, Rezai-Zadeh K et al. Il10 deficiency rebalances innate immunity to mitigate Alzheimer-like pathology. Neuron 2015; 85: 534\u2013548.","journal-title":"Neuron"},{"key":"BFmp2015167_CR77","doi-asserted-by":"publisher","first-page":"519","DOI":"10.1016\/j.neuron.2014.11.020","volume":"85","author":"P Chakrabarty","year":"2015","unstructured":"Chakrabarty P, Li A, Ceballos-Diaz C, Eddy JA, Funk CC, Moore B et al. IL-10 alters immunoproteostasis in APP mice, increasing plaque burden and worsening cognitive behavior. Neuron 2015; 85: 519\u2013533.","journal-title":"Neuron"},{"key":"BFmp2015167_CR78","doi-asserted-by":"publisher","first-page":"286","DOI":"10.4049\/jimmunol.165.1.286","volume":"165","author":"M Tone","year":"2000","unstructured":"Tone M, Powell MJ, Tone Y, Thompson SA, Waldmann H . IL-10 gene expression is controlled by the transcription factors Sp1 and Sp3. J Immunol 2000; 165: 286\u2013291.","journal-title":"J Immunol"},{"key":"BFmp2015167_CR79","doi-asserted-by":"publisher","first-page":"393","DOI":"10.1042\/BJ20040682","volume":"383","author":"F Docagne","year":"2004","unstructured":"Docagne F, Gabriel C, Lebeurrier N, Lesne S, Hommet Y, Plawinski L et al. Sp1 and Smad transcription factors co-operate to mediate TGF-beta-dependent activation of amyloid-beta precursor protein gene transcription. Biochem J 2004; 383: 393\u2013399.","journal-title":"Biochem J"},{"key":"BFmp2015167_CR80","doi-asserted-by":"publisher","first-page":"865","DOI":"10.1128\/MCB.24.2.865-874.2004","volume":"24","author":"MA Christensen","year":"2004","unstructured":"Christensen MA, Zhou W, Qing H, Lehman A, Philipsen S, Song W . Transcriptional regulation of BACE1, the beta-amyloid precursor protein beta-secretase, by Sp1. Mol Cell Biol 2004; 24: 865\u2013874.","journal-title":"Mol Cell Biol"},{"key":"BFmp2015167_CR81","doi-asserted-by":"publisher","first-page":"1408","DOI":"10.1046\/j.1471-4159.2000.0751408.x","volume":"75","author":"A Heicklen-Klein","year":"2000","unstructured":"Heicklen-Klein A, Ginzburg I . Tau promoter confers neuronal specificity and binds Sp1 and AP-2. J Neurochem 2000; 75: 1408\u20131418.","journal-title":"J Neurochem"},{"key":"BFmp2015167_CR82","doi-asserted-by":"publisher","first-page":"2421","DOI":"10.1016\/j.neurobiolaging.2013.04.002","volume":"34","author":"GM Subaiea","year":"2013","unstructured":"Subaiea GM, Adwan LI, Ahmed AH, Stevens KE, Zawia NH . Short-term treatment with tolfenamic acid improves cognitive functions in Alzheimer's disease mice. Neurobiol Aging 2013; 34: 2421\u20132430.","journal-title":"Neurobiol Aging"},{"key":"BFmp2015167_CR83","doi-asserted-by":"publisher","first-page":"633","DOI":"10.1016\/j.celrep.2014.12.041","volume":"10","author":"M Matarin","year":"2015","unstructured":"Matarin M, Salih DA, Yasvoina M, Cummings DM, Guelfi S, Liu W et al. A genome-wide gene-expression analysis and database in transgenic mice during development of amyloid or tau pathology. Cell Rep 2015; 10: 633\u2013644.","journal-title":"Cell Rep"},{"key":"BFmp2015167_CR84","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1016\/j.ejphar.2015.03.021","volume":"759","author":"TC Burns","year":"2015","unstructured":"Burns TC, Li MD, Mehta S, Awad AJ, Morgan AA . Mouse models rarely mimic the transcriptome of human neurodegenerative diseases: A systematic bioinformatics-based critique of preclinical models. Eur J Pharmacol 2015; 759: 101\u2013117.","journal-title":"Eur J Pharmacol"},{"key":"BFmp2015167_CR85","doi-asserted-by":"publisher","first-page":"1924","DOI":"10.1001\/jama.2015.4668","volume":"313","author":"WJ Jansen","year":"2015","unstructured":"Jansen WJ, Ossenkoppele R, Knol DL, Tijms BM, Scheltens P, Verhey FR et al. Prevalence of cerebral amyloid pathology in persons without dementia: a meta-analysis. JAMA 2015; 313: 1924\u20131938.","journal-title":"JAMA"},{"key":"BFmp2015167_CR86","volume-title":"67th Annual Meeting of the American Academy of Neurology","author":"J Sevigny","year":"2015","unstructured":"Sevigny J, Chiao P, Williams L, Chen T, Ling Y, O\u2019Gorman J et al. Randomized, Double-blind, Placebo-controlled, Phase 1b Study of Aducanumab (BIIB037), an Anti-A\u03b2 Monoclonal Antibody, in Patients With Prodromal or Mild Alzheimer\u2019s Disease: Interim Results by Disease Stage and ApoE \u025b4 Status. 67th Annual Meeting of the American Academy of Neurology 18-25 April 2015 Washington DC."},{"key":"BFmp2015167_CR87","doi-asserted-by":"publisher","first-page":"864","DOI":"10.1056\/NEJMe1207995","volume":"367","author":"S Gandy","year":"2012","unstructured":"Gandy S . Lifelong management of amyloid-beta metabolism to prevent Alzheimer's disease. N Engl J Med 2012; 367: 864\u2013866.","journal-title":"N Engl J Med"},{"key":"BFmp2015167_CR88","doi-asserted-by":"publisher","first-page":"S15","DOI":"10.1038\/475S15a","volume":"475","author":"S Gandy","year":"2011","unstructured":"Gandy S . Perspective: prevention is better than cure. Nature 2011; 475: S15.","journal-title":"Nature"},{"key":"BFmp2015167_CR89","doi-asserted-by":"publisher","first-page":"367","DOI":"10.1146\/annurev-med-092611-084441","volume":"64","author":"S Gandy","year":"2013","unstructured":"Gandy S, DeKosky ST . Toward the treatment and prevention of Alzheimer's disease: rational strategies and recent progress. Annu Rev Med 2013; 64: 367\u2013383.","journal-title":"Annu Rev Med"}],"updated-by":[{"DOI":"10.1038\/mp.2015.215","type":"erratum","label":"Erratum","source":"publisher","updated":{"date-parts":[[2016,1,19]],"date-time":"2016-01-19T00:00:00Z","timestamp":1453161600000}}],"container-title":["Molecular Psychiatry"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/www.nature.com\/articles\/mp2015167.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/mp2015167","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/mp2015167.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,6,12]],"date-time":"2024-06-12T06:15:43Z","timestamp":1718172943000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/mp2015167"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,11,10]]},"references-count":89,"journal-issue":{"issue":"8","published-print":{"date-parts":[[2016,8]]}},"alternative-id":["BFmp2015167"],"URL":"https:\/\/doi.org\/10.1038\/mp.2015.167","relation":{},"ISSN":["1359-4184","1476-5578"],"issn-type":[{"value":"1359-4184","type":"print"},{"value":"1476-5578","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,11,10]]},"assertion":[{"value":"17 June 2015","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 August 2015","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"17 September 2015","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"10 November 2015","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no conflict of interest.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}]}}