A Systematic Bioinformatics Workflow With Meta-Analytics Identified Potential Pathogenic Factors of Alzheimer’s Disease
Potential pathogenic factors, other than well-known , , and , can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer's disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by comb...
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| Veröffentlicht in: | Frontiers in neuroscience Jg. 14; S. 209 |
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13.03.2020
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| Abstract | Potential pathogenic factors, other than well-known
,
, and
, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer's disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein-protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (>95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn, and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling. |
|---|---|
| AbstractList | Potential pathogenic factors, other than well-known
,
, and
, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer's disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein-protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (>95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn, and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling. Potential pathogenic factors, other than well-known APP, APOE4, and PSEN, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer’s disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein–protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (>95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn, and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling. Potential pathogenic factors, other than well-known APP, APOE4, and PSEN, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer's disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein-protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (>95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn, and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling.Potential pathogenic factors, other than well-known APP, APOE4, and PSEN, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer's disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein-protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (>95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn, and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling. Abstract Potential pathogenic factors, other than well-known APP, APOE4 and PSEN, can be further identified from transcriptomics studies of differentially expressed genes (DEGs) that are specific for Alzheimer’s disease (AD), but findings are often inconsistent or even contradictory. Evidence corroboration by combining meta-analysis and bioinformatics methods may help to resolve existing inconsistencies and contradictions. This study aimed to demonstrate a systematic workflow for evidence synthesis of transcriptomic studies using both meta-analysis and bioinformatics methods to identify potential pathogenic factors. Transcriptomic data were assessed from GEO and ArrayExpress after systematic searches. The DEGs and their dysregulation states from both DNA microarray and RNA sequencing datasets were analyzed and corroborated by meta-analysis. Statistically significant DEGs were used for enrichment analysis based on KEGG and protein–protein interaction network (PPIN) analysis based on STRING. AD-specific modules were further determined by the DIAMOnD algorithm, which identifies significant connectivity patterns between specific disease-associated proteins and non-specific proteins. Within AD-specific modules, the nodes of highest degrees (> 95th percentile) were considered as potential pathogenic factors. After systematic searches of 225 datasets, extensive meta-analyses among 25 datasets (21 DNA microarray datasets and 4 RNA sequencing datasets) identified 9,298 DEGs. The dysregulated genes and pathways in AD were associated with impaired amyloid-β (Aβ) clearance. From the AD-specific module, Fyn and EGFR were the most statistically significant and biologically relevant. This meta-analytical study suggested that the reduced Aβ clearance in AD pathogenesis was associated with the genes encoding Fyn and EGFR, which were key receptors in Aβ downstream signaling. |
| Author | Leung, Siu-wai Zhu, Hongmei Yuen, Sze Chung |
| AuthorAffiliation | 2 School of Informatics, College of Science and Engineering, University of Edinburgh , Edinburgh , United Kingdom 1 State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau , Macao , China |
| AuthorAffiliation_xml | – name: 1 State Key Laboratory of Quality Research in Chinese Medicine, Institute of Chinese Medical Sciences, University of Macau , Macao , China – name: 2 School of Informatics, College of Science and Engineering, University of Edinburgh , Edinburgh , United Kingdom |
| Author_xml | – sequence: 1 givenname: Sze Chung surname: Yuen fullname: Yuen, Sze Chung – sequence: 2 givenname: Hongmei surname: Zhu fullname: Zhu, Hongmei – sequence: 3 givenname: Siu-wai surname: Leung fullname: Leung, Siu-wai |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/32231518$$D View this record in MEDLINE/PubMed |
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| CitedBy_id | crossref_primary_10_3389_fnagi_2021_716383 crossref_primary_10_3390_ijms26010338 crossref_primary_10_1007_s12031_023_02152_9 crossref_primary_10_1371_journal_pone_0291995 crossref_primary_10_1371_journal_pone_0313733 crossref_primary_10_1007_s12031_021_01809_7 crossref_primary_10_1016_j_arr_2024_102476 crossref_primary_10_4103_1673_5374_332132 crossref_primary_10_1038_s41598_022_22179_z crossref_primary_10_1186_s13195_021_00862_z crossref_primary_10_1002_ajmg_b_33019 |
| Cites_doi | 10.1152/physiolgenomics.00208.2006 10.1111/j.1582-4934.2012.01604.x 10.1073/pnas.0230450100 10.1093/cercor/bht101 10.1089/omi.2011.0118 10.1038/nature07761 10.1523/JNEUROSCI.3131-15.2016 10.7554/eLife.23473 10.1155/2017/9084507 10.1186/alzrt36 10.1186/s12987-018-0102-9 10.1038/nature04724 10.1007/s10048-006-0032-6 10.3390/medsci4030014 10.1038/nrm3982 10.1056/NEJMoa1812840 10.7554/eLife.10421 10.1186/s13195-015-0119-0 10.1038/nn.3178 10.1371/journal.pone.0004936 10.1038/ncomms3734 10.1016/j.dadm.2017.01.005 10.1093/nar/gkq973 10.1016/j.neurobiolaging.2012.12.026 10.1016/j.brainres.2011.09.003 10.1186/s41065-019-0101-0 10.1093/bioinformatics/btn647 10.1038/s41598-018-35789-3 10.1016/j.exger.2016.07.014 10.1073/pnas.0703903104 10.1038/s41593-018-0124-2 10.1074/jbc.M608485200 10.1101/gr.1239303 10.1007/s00401-012-1003-7 10.1056/NEJMoa1705971 10.1016/j.jalz.2009.03.001 10.1016/j.neuron.2013.06.046 10.1186/s12920-018-0431-1 10.1038/s41598-019-38676-7 10.1186/gm452 10.1093/nar/gku1057 10.3233/JAD-150733 10.1523/JNEUROSCI.1698-16.2016 10.1186/alzrt269 10.1093/brain/awt110 10.3390/ph11010011 10.1016/j.ebiom.2016.03.035 10.1038/ng1718 10.1016/j.neurobiolaging.2017.03.021 10.1007/s12017-009-8104-z 10.1042/BSR20140141 10.1371/journal.pone.0152342 10.1002/ana.23748 10.1371/journal.pone.0150624 10.1186/2051-5960-1-31 10.1111/j.1742-4658.2011.08391.x 10.1126/science.1566067 10.1126/science.1197623 10.1126/scitranslmed.aad9704 10.1111/j.1471-4159.2011.07505.x 10.2174/187152411794961040 10.1016/j.neuron.2016.05.003 10.1038/cddis.2011.50 10.3233/JAD-161032 10.1371/journal.pcbi.1004120 10.1016/j.jchemneu.2011.06.007 10.1038/srep07298 10.1093/bioinformatics/btg405 10.1371/journal.pone.0008898 10.1074/jbc.M110.100420 10.1523/JNEUROSCI.2980-05.2005 10.1038/nrm3810 10.1196/annals.1427.007 10.1007/s00401-019-01976-3 10.1093/brain/awx057 10.1098/rsob.180024 10.1371/journal.pone.0169760 10.2174/156720511796391917 10.1016/j.jalz.2017.08.012 10.1097/NEN.0b013e31825018f7 10.1001/archneurol.2010.258 10.3390/ijms19030833 10.3233/JAD-170011 10.1523/JNEUROSCI.0277-04.2004 10.1074/jbc.M305838200 10.1111/j.1365-2990.2011.01236.x 10.1016/j.celrep.2017.12.066 10.1016/B978-0-12-397863-9.00004-3 10.1371/journal.pone.0006007 10.1100/tsw.2009.57 10.1371/journal.pone.0006826 10.1073/pnas.222681699 10.1042/BJ20110750 10.1523/JNEUROSCI.4162-03.2004 10.1093/bioinformatics/btp616 10.1126/science.1141736 10.1103/PhysRevB.91.121108 10.1371/journal.pmed.1000097 10.1179/1743132813Y.0000000288 10.1016/j.cell.2013.03.030 10.1186/s40035-018-0139-3 10.1038/ncomms5998 10.1093/nar/gkr988 10.1111/nyas.12417 10.1186/s13195-018-0394-7 10.1212/01.wnl.0000244749.20056.d4 10.1016/j.bbabio.2012.02.033 10.1001/jamaneurol.2019.2050 10.5005/jp/books/10519 10.1242/jcs.078220 10.1021/pr4005103 10.3233/JAD-2010-101020 10.1093/bioinformatics/btq431 10.1073/pnas.1208011109 10.1007/s00018-014-1627-y 10.1016/j.compbiolchem.2018.12.011 10.1371/journal.pone.0144052 10.1038/aps.2017.28 10.1007/s00401-015-1462-8 10.1016/j.neurobiolaging.2007.04.014 10.1093/nar/gkt1229 10.1007/s00401-012-1027-z 10.1016/j.ceca.2016.04.010 10.1084/jem.20160493 10.1083/jcb.200809125 10.1002/jnr.22290 10.1016/j.bbadis.2009.10.006 10.1038/s41598-018-20959-0 10.1093/nar/gkq1019 10.1371/journal.pone.0127702 10.1101/cshperspect.a011353 10.1073/pnas.0806883105 10.1096/fj.05-3735fje 10.1038/ncomms5389 10.3233/JAD-130383 10.1016/j.celrep.2015.02.009 10.3233/JAD-2011-110104 10.1186/1471-2164-16-S9-S2 10.1093/bioinformatics/btu638 10.1093/nar/gks1193 10.18632/oncotarget.18193 10.1038/nrneurol.2017.111 10.1523/JNEUROSCI.2218-08.2008 10.3233/JAD-150398 10.1016/j.celrep.2013.08.042 10.1038/ncomms14727 10.1016/j.febslet.2008.10.026 10.1038/emm.2013.76 10.1038/nrn.2015.1 10.1002/cne.10727 10.1186/s13073-016-0355-3 10.1002/ana.24394 10.1016/j.cell.2010.06.036 10.1073/pnas.0308512100 10.3233/JAD-2007-12208 10.1111/bcpt.12000 10.1186/s12974-014-0139-x 10.1111/j.1471-4159.2010.07157.x 10.1186/gb-2013-14-4-r36 10.1126/scitranslmed.3005615 10.1074/jbc.M112.366195 10.3233/JAD-142094 10.1371/journal.pone.0076162 10.1093/nar/gkv007 10.1093/bioinformatics/btp352 10.1111/j.1365-2990.2010.01067.x 10.3389/fnmol.2016.00004 10.1074/jbc.M112.422964 10.1111/jnc.14098 10.15252/emmm.201303671 10.1186/alzrt135 10.1212/WNL.0b013e3181b6bb95 10.1371/journal.pone.0083345 10.1186/s13195-017-0320-4 10.15252/msb.20145304 |
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| Copyright | Copyright © 2020 Yuen, Zhu and Leung. 2020. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. Copyright © 2020 Yuen, Zhu and Leung. 2020 Yuen, Zhu and Leung |
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| Keywords | meta-analysis microarray analysis Alzheimer’s disease RNA sequence analysis bioinformatics |
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| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23 Edited by: Woon-Man Kung, Chinese Culture University, Taiwan This article was submitted to Neurodegeneration, a section of the journal Frontiers in Neuroscience Reviewed by: Chung-Feng Kao, National Chung Hsing University, Taiwan; Judith Potashkin, Rosalind Franklin University of Medicine and Science, United States |
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| References | Yan (B166) 2019; 156 Laurén (B79) 2009; 457 Holmes (B58) 2009; 73 Mawuenyega (B93) 2010; 330 Friedman (B45) 2018; 22 Nilsson (B106) 2013; 5 Parihar (B118) 2010; 22 Browne (B20) 2015 Garwood (B47) 2011; 2 Shannon (B136) 2003; 13 St George-Hyslop (B139) 2012; 120 Durrenberger (B37) 2012; 124 Honig (B60) 2018; 378 Stanley (B140) 2016 Potter (B120) 2013; 5 Chen (B30) 2019; 9 Ritchie (B124) 2015; 43 Yang (B167) 2017; 37 Kolesnikov (B77) 2015; 43 Wang (B155) 2016; 8 Annunziata (B4) 2013; 4 Pang (B116) 2017; 2017 Andrews (B3) 2010 Shimura (B137) 2004; 279 Narendra (B102) 2008; 183 Meng (B94) 2016; 11 Zou (B177) 2018; 19 Knowles (B76) 2014; 15 Nativio (B103) 2018; 21 Ittner (B63) 2010; 142 Kennedy (B72) 2016; 8 Miller (B95) 2013; 5 Wruck (B162) 2016; 50 Leinonen (B81) 2011; 39 Yin (B169) 2011; 25 Ma (B87) 2010; 36 Egan (B39) 2019; 380 Lachen-Montes (B78) 2017; 8 Wu (B163) 2017; 6 Brito-Moreira (B17) 2011; 8 Hardy (B53) 1992; 256 VanDyck (B151) 2019; 76 Narayanan (B101) 2014; 10 Nunez-Iglesias (B110) 2010; 5 Yin (B170) 2017; 55 Folch (B43) 2018; 11 Lee (B80) 2004; 24 Chin (B32) 2004; 24 Harris (B54) 2016; 36 Ghiassian (B49) 2015; 11 Kanehisa (B67) 2012; 40 Anders (B2) 2015; 31 Kline (B75) 2012; 4 Xiang (B164) 2018; 11 Chadwick (B25) 2012; 38 Edison (B38) 2007; 68 Janssen (B65) 2013; 8 Wang (B156) 2017; 56 Jaeger (B64) 2010; 67 Saidi (B130) 2015; 44 Stutzbach (B142) 2013; 1 Chen (B29) 2012; 16 Gautier (B48) 2004; 20 Ashabi (B6) 2013; 112 Sengupta (B135) 2016; 6 Uchida (B149) 2014; 5 Robinson (B127) 2009; 26 Szklarczyk (B145) 2011; 39 Scheper (B133) 2015; 130 Fu (B46) 2003; 462 Moradifard (B97) 2018; 8 Zhang (B173) 2013; 153 Mosconi (B100) 2008; 1147 Palmer (B115) 2013; 36 Li (B82) 2009; 25 Ntsapi (B109) 2016; 83 Blalock (B13) 2011; 42 Caspersen (B24) 2005; 19 Cacace (B21) 2019; 137 Hernández (B56) 2008; 582 Bedford (B11) 2008; 28 Irmler (B62) 2012; 124 Carvalho (B23) 2010; 26 Chen (B28) 2007; 12 William (B160) 2011; 439 Roberson (B125) 2007; 316 Magistri (B88) 2015; 48 Broersen (B18) 2010; 2 Sudhof (B143) 2012; 4 Li (B84) 2018; 8 Mattoo (B92) 2014; 71 Puthiyedth (B122) 2016; 11 Nomura (B108) 2016; 4 Chen (B27) 2017; 38 Scheckel (B132) 2016; 5 Blalock (B14) 2004; 101 Polito (B119) 2014; 6 Moreira (B99) 2010; 1802 Barrett (B8) 2012; 41 Marquez (B91) 2012; 2 Fischer (B42) 2013; 136 François (B44) 2014; 11 Slipczuk (B138) 2009; 4 Braun (B15) 2015; 10 Yasuda (B168) 2012; 11 (B7) 2009; 5 Antonell (B5) 2013; 34 Bronner (B19) 2009; 4 Chow (B33) 2010; 12 Liang (B85) 2007; 28 Zhang (B174) 2015; 4 Lucin (B86) 2013; 79 Kawalia (B71) 2017; 59 Kim (B74) 2013; 14 Cummings (B36) 2014; 6 Haidich (B51) 2010; 14 Caccamo (B22) 2010; 285 Welter (B158) 2014; 42 Zhou (B176) 2015; 35 Williams (B161) 2009; 4 Moher (B96) 2009; 6 Scott (B134) 2014; 1313 Tan (B146) 2010; 88 Kikuchi (B73) 2013; 8 Nelson (B104) 2012; 71 Chin (B31) 2005; 25 Farris (B41) 2003; 100 Chung (B34) 2015; 91 Puthiyedth (B121) 2015; 10 Rovelet-Lecrux (B129) 2006; 38 Manavalan (B89) 2013 Vargas (B152) 2018; 10 Chandrasekaran (B26) 2016; 11 Brazma (B16) 2009; 9 Newington (B105) 2012; 287 Ciechanover (B35) 2015; 16 Pacheco-Quinto (B114) 2013; 288 Santos (B131) 2017; 7 Nygaard (B111) 2015; 7 Oyagi (B113) 2011; 1419 Wang (B154) 2012; 109 Um (B150) 2012; 15 Esparza (B40) 2013; 73 Wang (B157) 2016; 17 Gong (B50) 2016; 9 Hara (B52) 2006; 441 Xu (B165) 2018; 14 Hoos (B61) 2013; 12 Nobili (B107) 2017; 8 Papa (B117) 2011 Tseng (B148) 2008; 29 Kauffmann (B69) 2009; 25 Westermann (B159) 2012; 1817 Sutherland (B144) 2011; 116 Basavarajappa (B10) 2017; 142 Hashimoto (B55) 2018; 8 Kästle (B68) 2012; 109 Trepanier (B147) 2012; 279 Moreau (B98) 2014; 5 Marina (B90) 2003; 100 Zhang (B175) 2007; 104 Aguilar (B1) 2017; 9 Li (B83) 2018; 7 Oddo (B112) 2006; 281 Berchtold (B12) 2008; 105 Joshi (B66) 2016; 60 Hong (B59) 2014; 36 Rahman (B123) 2019; 78 Roth (B128) 2006; 7 Yu (B171) 2012; 16 Wang (B153) 2017; 13 Hokama (B57) 2014; 24 Roberts (B126) 2017; 140 Bartkowska (B9) 2017; 12 Kaufman (B70) 2015; 77 Yuan (B172) 2016; 90 Stopa (B141) 2018; 15 |
| References_xml | – volume: 28 start-page: 311 year: 2007 ident: B85 article-title: Gene expression profiles in anatomically and functionally distinct regions of the normal aged human brain. publication-title: Physiol. Genomics doi: 10.1152/physiolgenomics.00208.2006 – volume: 16 start-page: 2583 year: 2012 ident: B29 article-title: Neddylation dysfunction in Alzheimer’s disease. publication-title: J. Cell. Mol. Med. doi: 10.1111/j.1582-4934.2012.01604.x – volume: 100 start-page: 4162 year: 2003 ident: B41 article-title: Insulin-degrading enzyme regulates the levels of insulin, amyloid -protein, and the -amyloid precursor protein intracellular domain in vivo. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.0230450100 – volume: 24 start-page: 2476 year: 2014 ident: B57 article-title: Altered expression of diabetes-related genes in Alzheimer’s disease brains: the hisayama study. publication-title: Cereb. Cortex doi: 10.1093/cercor/bht101 – volume: 16 start-page: 284 year: 2012 ident: B171 article-title: clusterProfiler: an R package for comparing biological themes among gene clusters. publication-title: OMICS doi: 10.1089/omi.2011.0118 – volume: 457 start-page: 1128 year: 2009 ident: B79 article-title: Cellular prion protein mediates impairment of synaptic plasticity by amyloid-β oligomers. publication-title: Nature doi: 10.1038/nature07761 – volume: 36 start-page: 1871 year: 2016 ident: B54 article-title: Aerobic glycolysis in the frontal cortex correlates with memory performance in wild-type mice but not the APP/PS1 mouse model of cerebral amyloidosis. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.3131-15.2016 – volume: 6 year: 2017 ident: B163 article-title: The N-terminus of the prion protein is a toxic effector regulated by the C-terminus. publication-title: elife doi: 10.7554/eLife.23473 – volume: 2017 year: 2017 ident: B116 article-title: The Bioinformatic analysis of the dysregulated genes and MicroRNAs in entorhinal cortex, hippocampus, and blood for Alzheimer’s disease. publication-title: Biomed Res. Int. doi: 10.1155/2017/9084507 – volume: 2 year: 2010 ident: B18 article-title: The culprit behind amyloid beta peptide related neurotoxicity in Alzheimer’s disease: oligomer size or conformation? publication-title: Alzheimers. Res. Ther. doi: 10.1186/alzrt36 – volume: 15 year: 2018 ident: B141 article-title: Comparative transcriptomics of choroid plexus in Alzheimer’s disease, frontotemporal dementia and Huntington’s disease: implications for CSF homeostasis. publication-title: Fluids Barriers CNS doi: 10.1186/s12987-018-0102-9 – volume: 441 start-page: 885 year: 2006 ident: B52 article-title: Suppression of basal autophagy in neural cells causes neurodegenerative disease in mice. publication-title: Nature doi: 10.1038/nature04724 – volume: 7 start-page: 67 year: 2006 ident: B128 article-title: Gene expression analyses reveal molecular relationships among 20 regions of the human CNS. publication-title: Neurogenetics doi: 10.1007/s10048-006-0032-6 – volume: 4 year: 2016 ident: B108 article-title: Neuroprotection by endoplasmic reticulum stress-induced HRD1 and chaperones: possible therapeutic targets for Alzheimer’s and Parkinson’s disease. publication-title: Med. Sci doi: 10.3390/medsci4030014 – volume: 16 start-page: 322 year: 2015 ident: B35 article-title: The unravelling of the ubiquitin system. publication-title: Nat. Rev. Mol. Cell Biol. doi: 10.1038/nrm3982 – volume: 380 start-page: 1408 year: 2019 ident: B39 article-title: Randomized trial of verubecestat for prodromal Alzheimer’s disease. publication-title: N. Engl. J. Med. doi: 10.1056/NEJMoa1812840 – volume: 5 year: 2016 ident: B132 article-title: Regulatory consequences of neuronal ELAV-like protein binding to coding and non-coding RNAs in human brain. publication-title: elife doi: 10.7554/eLife.10421 – volume: 7 year: 2015 ident: B111 article-title: A phase Ib multiple ascending dose study of the safety, tolerability, and central nervous system availability of AZD0530 (saracatinib) in Alzheimer’s disease. publication-title: Alzheimers. Res. Ther. doi: 10.1186/s13195-015-0119-0 – volume: 15 start-page: 1227 year: 2012 ident: B150 article-title: Alzheimer amyloid-β oligomer bound to postsynaptic prion protein activates Fyn to impair neurons. publication-title: Nat. Neurosci. doi: 10.1038/nn.3178 – volume: 4 year: 2009 ident: B161 article-title: Transcriptome analysis of synaptoneurosomes identifies neuroplasticity genes overexpressed in incipient Alzheimer’s disease. publication-title: PLoS One doi: 10.1371/journal.pone.0004936 – volume: 4 year: 2013 ident: B4 article-title: Lysosomal NEU1 deficiency affects amyloid precursor protein levels and amyloid-β secretion via deregulated lysosomal exocytosis. publication-title: Nat. Commun. doi: 10.1038/ncomms3734 – volume: 7 start-page: 69 year: 2017 ident: B131 article-title: Pathophysiologic relationship between Alzheimer’s disease, cerebrovascular disease, and cardiovascular risk: a review and synthesis. publication-title: Alzheimers Dement. (Amst) doi: 10.1016/j.dadm.2017.01.005 – volume: 39 start-page: D561 year: 2011 ident: B145 article-title: The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gkq973 – volume: 34 start-page: 1772 year: 2013 ident: B5 article-title: A preliminary study of the whole-genome expression profile of sporadic and monogenic early-onset Alzheimer’s disease. publication-title: Neurobiol. Aging doi: 10.1016/j.neurobiolaging.2012.12.026 – volume: 1419 start-page: 97 year: 2011 ident: B113 article-title: Heparin-binding EGF-like growth factor is required for synaptic plasticity and memory formation. publication-title: Brain Res. doi: 10.1016/j.brainres.2011.09.003 – volume: 156 year: 2019 ident: B166 article-title: Integrated identification of key genes and pathways in Alzheimer’s disease via comprehensive bioinformatical analyses. publication-title: Hereditas doi: 10.1186/s41065-019-0101-0 – volume: 25 start-page: 415 year: 2009 ident: B69 article-title: arrayQualityMetrics—a bioconductor package for quality assessment of microarray data. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btn647 – volume: 8 year: 2018 ident: B84 article-title: Systematic Analysis and Biomarker Study for Alzheimer’s Disease. publication-title: Sci. Rep. doi: 10.1038/s41598-018-35789-3 – volume: 83 start-page: 97 year: 2016 ident: B109 article-title: Caloric restriction and the precision-control of autophagy: a strategy for delaying neurodegenerative disease progression. publication-title: Exp. Gerontol. doi: 10.1016/j.exger.2016.07.014 – volume: 104 start-page: 10613 year: 2007 ident: B175 article-title: Presenilin/γ-secretase-dependent processing of β-amyloid precursor protein regulates EGF receptor expression. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.0703903104 – volume: 21 start-page: 1018 year: 2018 ident: B103 article-title: Publisher correction: dysregulation of the epigenetic landscape of normal aging in Alzheimer’s disease. publication-title: Nat. Neurosci. doi: 10.1038/s41593-018-0124-2 – volume: 281 start-page: 39413 year: 2006 ident: B112 article-title: Reduction of soluble Aβ and Tau, but not soluble Aβ Alone, ameliorates cognitive decline in transgenic mice with plaques and tangles. publication-title: J. Biol. Chem. doi: 10.1074/jbc.M608485200 – volume: 13 start-page: 2498 year: 2003 ident: B136 article-title: Cytoscape: a software environment for integrated models of biomolecular interaction networks. publication-title: Genome Res. doi: 10.1101/gr.1239303 – volume: 124 start-page: 187 year: 2012 ident: B62 article-title: Long-term proteasomal inhibition in transgenic mice by UBB+1 expression results in dysfunction of central respiration control reminiscent of brainstem neuropathology in Alzheimer patients. publication-title: Acta Neuropathol. doi: 10.1007/s00401-012-1003-7 – volume: 378 start-page: 321 year: 2018 ident: B60 article-title: Trial of solanezumab for mild dementia due to Alzheimer’s disease. publication-title: N. Engl. J. Med. doi: 10.1056/NEJMoa1705971 – volume: 5 start-page: 234 year: 2009 ident: B7 article-title: 2009 Alzheimer’s disease facts and figures. publication-title: Alzheimers Dement. doi: 10.1016/j.jalz.2009.03.001 – volume: 79 start-page: 873 year: 2013 ident: B86 article-title: Microglial beclin 1 regulates retromer trafficking and phagocytosis and is impaired in Alzheimer’s disease. publication-title: Neuron doi: 10.1016/j.neuron.2013.06.046 – volume: 11 year: 2018 ident: B164 article-title: Condition-specific gene co-expression network mining identifies key pathways and regulators in the brain tissue of Alzheimer’s disease patients. publication-title: BMC Med. Genomics doi: 10.1186/s12920-018-0431-1 – volume: 9 year: 2019 ident: B30 article-title: Anti-inflammatory effect of afatinib (an EGFR-TKI) on OGD-induced neuroinflammation. publication-title: Sci. Rep. doi: 10.1038/s41598-019-38676-7 – volume: 5 year: 2013 ident: B95 article-title: Genes and pathways underlying regional and cell type changes in Alzheimer’s disease. publication-title: Genome Med. doi: 10.1186/gm452 – volume: 43 start-page: D1113 year: 2015 ident: B77 article-title: ArrayExpress update–simplifying data submissions. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gku1057 – volume: 50 start-page: 1065 year: 2016 ident: B162 article-title: Meta-analysis of transcriptome data related to hippocampus biopsies and iPSC-derived neuronal cells from Alzheimer’s disease patients reveals an association with FOXA1 and FOXA2 gene regulatory networks. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-150733 – volume: 37 start-page: 152 year: 2017 ident: B167 article-title: Large soluble oligomers of amyloid β-protein from alzheimer brain are far less neuroactive than the smaller oligomers to which they dissociate. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.1698-16.2016 – volume: 6 year: 2014 ident: B36 article-title: Alzheimer’s disease drug-development pipeline: few candidates, frequent failures. publication-title: Alzheimers. Res. Ther. doi: 10.1186/alzrt269 – volume: 136 start-page: 1799 year: 2013 ident: B42 article-title: Disease-specific molecular events in cortical multiple sclerosis lesions. publication-title: Brain doi: 10.1093/brain/awt110 – volume: 11 year: 2018 ident: B43 article-title: The implication of the brain insulin receptor in late onset Alzheimer’s disease dementia. publication-title: Pharmaceuticals doi: 10.3390/ph11010011 – volume: 6 start-page: 42 year: 2016 ident: B135 article-title: The role of amyloid-β oligomers in toxicity, propagation, and immunotherapy. publication-title: EBioMedicine doi: 10.1016/j.ebiom.2016.03.035 – volume: 38 start-page: 24 year: 2006 ident: B129 article-title: APP locus duplication causes autosomal dominant early-onset Alzheimer disease with cerebral amyloid angiopathy. publication-title: Nat. Genet. doi: 10.1038/ng1718 – volume: 55 start-page: 115 year: 2017 ident: B170 article-title: Immune hyperreactivity of Aβ plaque-associated microglia in Alzheimer’s disease. publication-title: Neurobiol. Aging doi: 10.1016/j.neurobiolaging.2017.03.021 – volume: 12 start-page: 1 year: 2010 ident: B33 article-title: An overview of APP processing enzymes and products. publication-title: Neuromolecular Med. doi: 10.1007/s12017-009-8104-z – volume: 35 year: 2015 ident: B176 article-title: MAPK/JNK signalling: a potential autophagy regulation pathway. publication-title: Biosci. Rep. doi: 10.1042/BSR20140141 – volume: 11 year: 2016 ident: B122 article-title: Identification of differentially expressed genes through integrated study of Alzheimer’s disease affected brain regions. publication-title: PLoS One doi: 10.1371/journal.pone.0152342 – volume: 73 start-page: 104 year: 2013 ident: B40 article-title: Amyloid-beta oligomerization in Alzheimer dementia versus high-pathology controls. publication-title: Ann. Neurol. doi: 10.1002/ana.23748 – volume: 11 year: 2016 ident: B94 article-title: A systematic investigation into Aging related genes in brain and their relationship with Alzheimer’s disease. publication-title: PLoS One doi: 10.1371/journal.pone.0150624 – volume: 1 year: 2013 ident: B142 article-title: The unfolded protein response is activated in disease-affected brain regions in progressive supranuclear palsy and Alzheimer’s disease. publication-title: Acta Neuropathol. Commun. doi: 10.1186/2051-5960-1-31 – volume: 279 start-page: 12 year: 2012 ident: B147 article-title: Regulation of NMDA receptors by the tyrosine kinase Fyn. publication-title: FEBS J. doi: 10.1111/j.1742-4658.2011.08391.x – volume: 256 start-page: 184 year: 1992 ident: B53 article-title: Alzheimer’s disease: the amyloid cascade hypothesis. publication-title: Science doi: 10.1126/science.1566067 – volume: 330 year: 2010 ident: B93 article-title: Decreased clearance of CNS β-amyloid in Alzheimer’s disease. publication-title: Science doi: 10.1126/science.1197623 – volume: 8 year: 2016 ident: B72 article-title: The BACE1 inhibitor verubecestat (MK-8931) reduces CNS -amyloid in animal models and in Alzheimers disease patients. publication-title: Sci. Transl. Med. doi: 10.1126/scitranslmed.aad9704 – volume: 120 start-page: 84 year: 2012 ident: B139 article-title: Assembly of the presenilin γ-/ε-secretase complex. publication-title: J. Neurochem. doi: 10.1111/j.1471-4159.2011.07505.x – volume: 11 start-page: 45 year: 2012 ident: B168 article-title: p38 MAP kinase inhibitors as potential therapeutic drugs for neural diseases. publication-title: Cent. Nerv. Syst. Agents Med. Chem. doi: 10.2174/187152411794961040 – volume: 90 start-page: 724 year: 2016 ident: B172 article-title: TREM2 haplodeficiency in mice and humans impairs the microglia barrier function leading to decreased amyloid compaction and severe axonal dystrophy. publication-title: Neuron doi: 10.1016/j.neuron.2016.05.003 – volume: 2 year: 2011 ident: B47 article-title: Astrocytes are important mediators of Aβ-induced neurotoxicity and tau phosphorylation in primary culture. publication-title: Cell Death. Dis. doi: 10.1038/cddis.2011.50 – volume: 56 start-page: 1525 year: 2017 ident: B156 article-title: Meta-analysis of Parkinson’s disease and Alzheimer’s disease revealed commonly impaired pathways and dysregulation of NRF2-dependent genes. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-161032 – volume: 11 year: 2015 ident: B49 article-title: A DIseAse MOdule detection (DIAMOnD) algorithm derived from a systematic analysis of connectivity patterns of disease proteins in the human interactome. publication-title: PLoS Comput. Biol. doi: 10.1371/journal.pcbi.1004120 – volume: 42 start-page: 118 year: 2011 ident: B13 article-title: Microarray analyses of laser-captured hippocampus reveal distinct gray and white matter signatures associated with incipient Alzheimer’s disease. publication-title: J. Chem. Neuroanat. doi: 10.1016/j.jchemneu.2011.06.007 – volume: 4 year: 2015 ident: B174 article-title: Overexpression of ubiquitin carboxyl-terminal hydrolase L1 (UCHL1) delays Alzheimer’s progression in vivo. publication-title: Sci. Rep. doi: 10.1038/srep07298 – volume: 20 start-page: 307 year: 2004 ident: B48 article-title: Affy – Analysis of affymetrix genechip data at the probe level. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btg405 – volume: 5 year: 2010 ident: B110 article-title: Joint genome-wide profiling of miRNA and mRNA expression in Alzheimer’s disease cortex reveals altered miRNA regulation. publication-title: PLoS One doi: 10.1371/journal.pone.0008898 – volume: 285 start-page: 13107 year: 2010 ident: B22 article-title: Molecular interplay between mammalian target of rapamycin (mTOR), amyloid-β, and tau. publication-title: J. Biol. Chem. doi: 10.1074/jbc.M110.100420 – volume: 25 start-page: 9694 year: 2005 ident: B31 article-title: Fyn kinase induces synaptic and cognitive impairments in a transgenic mouse model of Alzheimer’s disease. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.2980-05.2005 – volume: 15 start-page: 384 year: 2014 ident: B76 article-title: The amyloid state and its association with protein misfolding diseases. publication-title: Nat. Rev. Mol. Cell Biol. doi: 10.1038/nrm3810 – volume: 1147 start-page: 180 year: 2008 ident: B100 article-title: Brain glucose hypometabolism and oxidative stress in preclinical Alzheimer’s disease. publication-title: Ann. N. Y. Acad. Sci. doi: 10.1196/annals.1427.007 – volume: 137 start-page: 901 year: 2019 ident: B21 article-title: Loss of DPP6 in neurodegenerative dementia: a genetic player in the dysfunction of neuronal excitability. publication-title: Acta Neuropathol. doi: 10.1007/s00401-019-01976-3 – volume: 140 start-page: 1486 year: 2017 ident: B126 article-title: Biochemically-defined pools of amyloid-β in sporadic Alzheimer’s disease: correlation with amyloid PET. publication-title: Brain doi: 10.1093/brain/awx057 – volume: 8 year: 2018 ident: B55 article-title: Critical review: involvement of endoplasmic reticulum stress in the aetiology of Alzheimer’s disease. publication-title: Open Biol. doi: 10.1098/rsob.180024 – volume: 12 year: 2017 ident: B9 article-title: Stress-dependent changes in the CacyBP/SIP interacting protein S100A6 in the mouse brain. publication-title: PLoS One doi: 10.1371/journal.pone.0169760 – volume: 8 start-page: 552 year: 2011 ident: B17 article-title: Aβ oligomers induce glutamate release from hippocampal neurons. publication-title: Curr. Alzheimer Res. doi: 10.2174/156720511796391917 – volume: 14 start-page: 215 year: 2018 ident: B165 article-title: A systematic integrated analysis of brain expression profiles reveals YAP1 and other prioritized hub genes as important upstream regulators in Alzheimer’s disease. publication-title: Alzheimers Dement. doi: 10.1016/j.jalz.2017.08.012 – volume: 71 start-page: 362 year: 2012 ident: B104 article-title: Correlation of Alzheimer disease neuropathologic changes with cognitive status: a review of the literature. publication-title: J. Neuropathol. Exp. Neurol. doi: 10.1097/NEN.0b013e31825018f7 – volume: 67 start-page: 1181 year: 2010 ident: B64 article-title: Beclin 1 complex in autophagy and Alzheimer disease. publication-title: Arch. Neurol. doi: 10.1001/archneurol.2010.258 – volume: 19 year: 2018 ident: B177 article-title: Cannabinoid receptors and the endocannabinoid system: signaling and function in the central nervous system. publication-title: Int. J. Mol. Sci. doi: 10.3390/ijms19030833 – volume: 59 start-page: 1237 year: 2017 ident: B71 article-title: Analytical strategy to prioritize Alzheimer’s disease candidate genes in gene regulatory networks using public expression data. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-170011 – volume: 24 start-page: 4692 year: 2004 ident: B32 article-title: Fyn kinase modulates synaptotoxicity, but not aberrant sprouting, in human amyloid precursor protein transgenic mice. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.0277-04.2004 – volume: 279 start-page: 4869 year: 2004 ident: B137 article-title: CHIP-Hsc70 complex ubiquitinates phosphorylated tau and enhances cell survival. publication-title: J. Biol. Chem. doi: 10.1074/jbc.M305838200 – volume: 38 start-page: 118 year: 2012 ident: B25 article-title: Review: Unchained maladie – a reassessment of the role of Ubb +1-capped polyubiquitin chains in Alzheimer’s disease. publication-title: Neuropathol. Appl. Neurobiol. doi: 10.1111/j.1365-2990.2011.01236.x – volume: 22 start-page: 832 year: 2018 ident: B45 article-title: Diverse brain myeloid expression profiles reveal distinct microglial activation states and aspects of Alzheimer’s disease not evident in mouse models. publication-title: Cell Rep. doi: 10.1016/j.celrep.2017.12.066 – volume: 109 start-page: 113 year: 2012 ident: B68 article-title: Interactions of the proteasomal system with chaperones: Protein triage and protein quality control. publication-title: Prog. Mol. Biol. Transl. Sci. doi: 10.1016/B978-0-12-397863-9.00004-3 – volume: 4 year: 2009 ident: B138 article-title: BDNF activates mTOR to regulate GluR1 expression required for memory formation. publication-title: PLoS One doi: 10.1371/journal.pone.0006007 – volume: 9 start-page: 420 year: 2009 ident: B16 article-title: Minimum information about a microarray experiment (MIAME)–successes, failures, challenges. publication-title: ScientificWorldJournal doi: 10.1100/tsw.2009.57 – volume: 4 year: 2009 ident: B19 article-title: Comprehensive mRNA expression profiling distinguishes tauopathies and identifies shared molecular pathways. publication-title: PLoS One doi: 10.1371/journal.pone.0006826 – volume: 100 start-page: 330 year: 2003 ident: B90 article-title: Amyloid β-protein (Aβ) assembly: Aβ40 and Aβ42 oligomerize through distinct pathways. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.222681699 – volume: 2 start-page: 214 year: 2012 ident: B91 article-title: Bcl-2:Beclin 1 complex: multiple, mechanisms regulating autophagy/apoptosis toggle switch. publication-title: Am. J. Cancer Res. – volume: 439 start-page: 67 year: 2011 ident: B160 article-title: Aβ42 oligomers, but not fibrils, simultaneously bind to and cause damage to ganglioside-containing lipid membranes. publication-title: Biochem. J. doi: 10.1042/BJ20110750 – volume: 24 start-page: 2304 year: 2004 ident: B80 article-title: Phosphorylation of Tau by Fyn: implications for Alzheimer’s Disease. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.4162-03.2004 – volume: 26 start-page: 139 year: 2009 ident: B127 article-title: edgeR: a bioconductor package for differential expression analysis of digital gene expression data. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btp616 – volume: 316 start-page: 750 year: 2007 ident: B125 article-title: Reducing endogenous tau ameliorates amyloid beta-induced deficits in an Alzheimer’s disease mouse model. publication-title: Science doi: 10.1126/science.1141736 – volume: 91 year: 2015 ident: B34 article-title: Matrix product ansatz for Fermi fields in one dimension. publication-title: Phys. Rev. B doi: 10.1103/PhysRevB.91.121108 – volume: 6 year: 2009 ident: B96 article-title: Preferred reporting items for systematic reviews and meta-analyses: the PRISMA statement. publication-title: PLoS Med. doi: 10.1371/journal.pmed.1000097 – volume: 36 start-page: 276 year: 2014 ident: B59 article-title: Relationship between amyloid-beta and the ubiquitin–proteasome system in Alzheimer’s disease. publication-title: Neurol. Res. doi: 10.1179/1743132813Y.0000000288 – volume: 153 start-page: 707 year: 2013 ident: B173 article-title: Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer’s disease. publication-title: Cell doi: 10.1016/j.cell.2013.03.030 – volume: 7 year: 2018 ident: B83 article-title: Amyloid, tau, pathogen infection and antimicrobial protection in Alzheimer’s disease -conformist, nonconformist, and realistic prospects for AD pathogenesis. publication-title: Transl. Neurodegener. doi: 10.1186/s40035-018-0139-3 – volume: 5 year: 2014 ident: B98 article-title: PICALM modulates autophagy activity and tau accumulation. publication-title: Nat. Commun. doi: 10.1038/ncomms5998 – volume: 40 start-page: D109 year: 2012 ident: B67 article-title: KEGG for integration and interpretation of large-scale molecular data sets. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gkr988 – volume: 1313 start-page: 17 year: 2014 ident: B134 article-title: Economic analysis of opportunities to accelerate Alzheimer’s disease research and development. publication-title: Ann. N. Y. Acad. Sci. doi: 10.1111/nyas.12417 – volume: 10 year: 2018 ident: B152 article-title: Alzheimer’s disease master regulators analysis: search for potential molecular targets and drug repositioning candidates. publication-title: Alzheimers. Res. Ther. doi: 10.1186/s13195-018-0394-7 – year: 2010 ident: B3 publication-title: FastQC: A Quality Control Tool for High Throughput Sequence Data. – volume: 68 start-page: 501 year: 2007 ident: B38 article-title: Amyloid, hypometabolism, and cognition in Alzheimer disease: an [11C]PIB and [18F]FDG PET study. publication-title: Neurology doi: 10.1212/01.wnl.0000244749.20056.d4 – volume: 1817 start-page: 1833 year: 2012 ident: B159 article-title: Bioenergetic role of mitochondrial fusion and fission. publication-title: Biochim. Biophys. Acta Bioenerg. doi: 10.1016/j.bbabio.2012.02.033 – volume: 76 start-page: 1219 year: 2019 ident: B151 article-title: Effect of AZD0530 on cerebral metabolic decline in alzheimer disease: a randomized clinical trial. publication-title: JAMA Neurol. doi: 10.1001/jamaneurol.2019.2050 – volume: 14 start-page: 29 year: 2010 ident: B51 article-title: Meta-analysis in medical research. publication-title: Hippokratia doi: 10.5005/jp/books/10519 – start-page: 1396 year: 2011 ident: B117 article-title: Estrogen receptor mediates a distinct mitochondrial unfolded protein response. publication-title: J. Cell Sci. doi: 10.1242/jcs.078220 – volume: 12 start-page: 4462 year: 2013 ident: B61 article-title: Longitudinal study of differential protein expression in an Alzheimer’s mouse model lacking inducible nitric oxide synthase. publication-title: J. Proteome Res. doi: 10.1021/pr4005103 – volume: 22 start-page: 741 year: 2010 ident: B118 article-title: Amyloid-β as a modulator of synaptic plasticity. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-2010-101020 – volume: 26 start-page: 2363 year: 2010 ident: B23 article-title: A framework for oligonucleotide microarray preprocessing. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btq431 – volume: 109 start-page: 16743 year: 2012 ident: B154 article-title: Epidermal growth factor receptor is a preferred target for treating Amyloid–induced memory loss. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.1208011109 – volume: 71 start-page: 3311 year: 2014 ident: B92 article-title: Molecular chaperones are nanomachines that catalytically unfold misfolded and alternatively folded proteins. publication-title: Cell. Mol. Life Sci. doi: 10.1007/s00018-014-1627-y – volume: 78 start-page: 431 year: 2019 ident: B123 article-title: Network-based approach to identify molecular signatures and therapeutic agents in Alzheimer’s disease. publication-title: Comput. Biol. Chem. doi: 10.1016/j.compbiolchem.2018.12.011 – volume: 11 year: 2016 ident: B26 article-title: Network topology analysis of post-mortem brain microarrays identifies more Alzheimer’s related genes and micrornas and points to novel routes for fighting with the disease. publication-title: PLoS One doi: 10.1371/journal.pone.0144052 – volume: 38 start-page: 1205 year: 2017 ident: B27 article-title: Amyloid beta: structure, biology and structure-based therapeutic development. publication-title: Acta Pharmacol. Sin. doi: 10.1038/aps.2017.28 – volume: 130 start-page: 315 year: 2015 ident: B133 article-title: The unfolded protein response in neurodegenerative diseases: a neuropathological perspective. publication-title: Acta Neuropathol. doi: 10.1007/s00401-015-1462-8 – volume: 29 start-page: 1607 year: 2008 ident: B148 article-title: Aβ inhibits the proteasome and enhances amyloid and tau accumulation. publication-title: Neurobiol. Aging doi: 10.1016/j.neurobiolaging.2007.04.014 – volume: 42 start-page: D1001 year: 2014 ident: B158 article-title: The NHGRI GWAS catalog, a curated resource of SNP-trait associations. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gkt1229 – volume: 124 start-page: 893 year: 2012 ident: B37 article-title: Selection of novel reference genes for use in the human central nervous system: a brainnet europe study. publication-title: Acta Neuropathol. doi: 10.1007/s00401-012-1027-z – volume: 60 start-page: 218 year: 2016 ident: B66 article-title: The entangled ER-mitochondrial axis as a potential therapeutic strategy in neurodegeneration: a tangled duo unchained. publication-title: Cell Calcium doi: 10.1016/j.ceca.2016.04.010 – year: 2016 ident: B140 article-title: Changes in insulin and insulin signaling in Alzheimer’s disease: cause or consequence? publication-title: J. Exp. Med. doi: 10.1084/jem.20160493 – volume: 183 start-page: 795 year: 2008 ident: B102 article-title: Parkin is recruited selectively to impaired mitochondria and promotes their autophagy. publication-title: J. Cell Biol. doi: 10.1083/jcb.200809125 – volume: 88 start-page: 1157 year: 2010 ident: B146 article-title: Genome wide profiling of altered gene expression in the neocortex of Alzheimer’s disease. publication-title: J. Neurosci. Res. doi: 10.1002/jnr.22290 – volume: 1802 start-page: 2 year: 2010 ident: B99 article-title: Mitochondrial dysfunction is a trigger of Alzheimer’s disease pathophysiology. publication-title: Biochim. Biophys. Acta Mol. Basis Dis. doi: 10.1016/j.bbadis.2009.10.006 – volume: 8 year: 2018 ident: B97 article-title: Analysis of microRNA and gene expression profiles in Alzheimer’s disease: a meta-analysis approach. publication-title: Sci. Rep. doi: 10.1038/s41598-018-20959-0 – volume: 39 start-page: D19 year: 2011 ident: B81 article-title: The sequence read archive. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gkq1019 – volume: 10 year: 2015 ident: B121 article-title: A new combinatorial optimization approach for integrated feature selection using different datasets: a prostate cancer transcriptomic study. publication-title: PLoS One doi: 10.1371/journal.pone.0127702 – volume: 4 year: 2012 ident: B143 article-title: Calcium control of neurotransmitter release. publication-title: Cold Spring Harb. Perspect. Biol. doi: 10.1101/cshperspect.a011353 – volume: 105 start-page: 15605 year: 2008 ident: B12 article-title: Gene expression changes in the course of normal brain aging are sexually dimorphic. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.0806883105 – volume: 19 start-page: 2040 year: 2005 ident: B24 article-title: Mitochondrial Aβ: a potential focal point for neuronal metabolic dysfunction in Alzheimer’s disease. publication-title: FASEB J. doi: 10.1096/fj.05-3735fje – volume: 5 year: 2014 ident: B149 article-title: Learning-induced and stathmin-dependent changes in microtubule stability are critical for memory and disrupted in ageing. publication-title: Nat. Commun. doi: 10.1038/ncomms5389 – volume: 36 start-page: 577 year: 2013 ident: B115 article-title: Endothelin-converting enzyme-1 activity, endothelin-1 production, and free radical-dependent vasoconstriction in Alzheimer’s disease. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-130383 – volume: 10 start-page: 1557 year: 2015 ident: B15 article-title: Accumulation of basic amino acids at mitochondria dictates the cytotoxicity of aberrant ubiquitin. publication-title: Cell Rep. doi: 10.1016/j.celrep.2015.02.009 – volume: 25 start-page: 337 year: 2011 ident: B169 article-title: Upregulation of AKT attenuates amyloid-β-induced cell apoptosis. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-2011-110104 – year: 2015 ident: B20 article-title: A computational framework for the prioritization of disease-gene candidates. publication-title: BMC Genomics doi: 10.1186/1471-2164-16-S9-S2 – volume: 31 start-page: 166 year: 2015 ident: B2 article-title: HTSeq–a Python framework to work with high-throughput sequencing data. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btu638 – volume: 41 start-page: D991 year: 2012 ident: B8 article-title: NCBI GEO: archive for functional genomics data sets—update. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gks1193 – volume: 8 start-page: 69663 year: 2017 ident: B78 article-title: Progressive modulation of the human olfactory bulb transcriptome during Alzheimer’s disease evolution: novel insights into the olfactory signaling across proteinopathies. publication-title: Oncotarget doi: 10.18632/oncotarget.18193 – volume: 13 start-page: 612 year: 2017 ident: B153 article-title: A systemic view of Alzheimer disease — insights from amyloid-β metabolism beyond the brain. publication-title: Nat. Rev. Neurol. doi: 10.1038/nrneurol.2017.111 – volume: 28 start-page: 8189 year: 2008 ident: B11 article-title: Depletion of 26S proteasomes in mouse brain neurons causes neurodegeneration and lewy-like inclusions resembling human pale bodies. publication-title: J. Neurosci. doi: 10.1523/JNEUROSCI.2218-08.2008 – volume: 48 start-page: 647 year: 2015 ident: B88 article-title: Transcriptomics profiling of Alzheimer’s disease reveal neurovascular defects, altered amyloid-β homeostasis, and deregulated expression of long noncoding RNAs. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-150398 – volume: 5 start-page: 61 year: 2013 ident: B106 article-title: Aβ secretion and plaque formation depend on autophagy. publication-title: Cell Rep. doi: 10.1016/j.celrep.2013.08.042 – volume: 8 year: 2017 ident: B107 article-title: Dopamine neuronal loss contributes to memory and reward dysfunction in a model of Alzheimer’s disease. publication-title: Nat. Commun. doi: 10.1038/ncomms14727 – volume: 582 start-page: 3848 year: 2008 ident: B56 article-title: The role of glycogen synthase kinase 3 in the early stages of Alzheimers’ disease. publication-title: FEBS Lett. doi: 10.1016/j.febslet.2008.10.026 – year: 2013 ident: B89 article-title: Brain site-specific proteome changes in aging-related dementia. doi: 10.1038/emm.2013.76 – volume: 17 start-page: 22 year: 2016 ident: B157 article-title: Tau in physiology and pathology. publication-title: Nat. Rev. Neurosci. doi: 10.1038/nrn.2015.1 – volume: 462 start-page: 265 year: 2003 ident: B46 article-title: Expression patterns of epidermal growth factor receptor and fibroblast growth factor receptor 1 mRNA in fetal human brain. publication-title: J. Comp. Neurol. doi: 10.1002/cne.10727 – volume: 8 year: 2016 ident: B155 article-title: Integrative network analysis of nineteen brain regions identifies molecular signatures and networks underlying selective regional vulnerability to Alzheimer’s disease. publication-title: Genome Med. doi: 10.1186/s13073-016-0355-3 – volume: 77 start-page: 953 year: 2015 ident: B70 article-title: Fyn inhibition rescues established memory and synapse loss in Alzheimer mice. publication-title: Ann. Neurol. doi: 10.1002/ana.24394 – volume: 142 start-page: 387 year: 2010 ident: B63 article-title: Dendritic function of tau mediates amyloid-β toxicity in alzheimer’s disease mouse models. publication-title: Cell doi: 10.1016/j.cell.2010.06.036 – volume: 101 start-page: 2173 year: 2004 ident: B14 article-title: Incipient Alzheimer’s disease: microarray correlation analyses reveal major transcriptional and tumor suppressor responses. publication-title: Proc. Natl. Acad. Sci. U.S.A. doi: 10.1073/pnas.0308512100 – volume: 12 start-page: 177 year: 2007 ident: B28 article-title: Amyloid-β-induced mitochondrial dysfunction. publication-title: J. Alzheimer’s Dis. doi: 10.3233/JAD-2007-12208 – volume: 112 start-page: 145 year: 2013 ident: B6 article-title: Reduction of hippocampal apoptosis by intracerebroventricular administration of extracellular signal-regulated protein kinase and/or p38 inhibitors in amyloid beta rat model of Alzheimer’s disease: involvement of nuclear-related factor-2 and nuclear factor-kB. publication-title: Basic Clin. Pharmacol. Toxicol. doi: 10.1111/bcpt.12000 – volume: 11 year: 2014 ident: B44 article-title: Longitudinal follow-up of autophagy and inflammation in brain of APPswePS1dE9 transgenic mice. publication-title: J. Neuroinflammation doi: 10.1186/s12974-014-0139-x – volume: 116 start-page: 937 year: 2011 ident: B144 article-title: Understanding the pathogenesis of Alzheimer’s disease: will RNA-Seq realize the promise of transcriptomics? publication-title: J. Neurochem. doi: 10.1111/j.1471-4159.2010.07157.x – volume: 14 year: 2013 ident: B74 article-title: TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. publication-title: Genome Biol. doi: 10.1186/gb-2013-14-4-r36 – volume: 5 start-page: 189ra77 year: 2013 ident: B120 article-title: Increased in vivo amyloid-b42 production, exchange, and loss in presenilin mutation carriers. publication-title: Sci. Transl. Med. doi: 10.1126/scitranslmed.3005615 – volume: 287 start-page: 37245 year: 2012 ident: B105 article-title: Overexpression of pyruvate dehydrogenase kinase 1 and lactate dehydrogenase A in nerve cells confers resistance to amyloid β and other toxins by decreasing mitochondrial respiration and reactive oxygen species production. publication-title: J. Biol. Chem. doi: 10.1074/jbc.M112.366195 – volume: 44 start-page: 937 year: 2015 ident: B130 article-title: Carboxy terminus heat shock protein 70 interacting protein reduces tau-associated degenerative changes. publication-title: J. Alzheimers Dis. doi: 10.3233/JAD-142094 – volume: 8 year: 2013 ident: B73 article-title: Identification of unstable network modules reveals disease modules associated with the progression of Alzheimer’s disease. publication-title: PLoS One doi: 10.1371/journal.pone.0076162 – volume: 43 year: 2015 ident: B124 article-title: Limma powers differential expression analyses for RNA-sequencing and microarray studies. publication-title: Nucleic Acids Res. doi: 10.1093/nar/gkv007 – volume: 25 start-page: 2078 year: 2009 ident: B82 article-title: The sequence alignment/map format and SAMtools. publication-title: Bioinformatics doi: 10.1093/bioinformatics/btp352 – volume: 36 start-page: 312 year: 2010 ident: B87 article-title: Immunohistochemical evidence for macroautophagy in neurones and endothelial cells in Alzheimer’s disease. publication-title: Neuropathol. Appl. Neurobiol. doi: 10.1111/j.1365-2990.2010.01067.x – volume: 9 year: 2016 ident: B50 article-title: The ubiquitin-proteasome system: Potential therapeutic targets for Alzheimer’s disease and spinal cord injury. publication-title: Front. Mol. Neurosci. doi: 10.3389/fnmol.2016.00004 – volume: 288 start-page: 5606 year: 2013 ident: B114 article-title: Endothelin-converting enzymes degrade intracellular β-amyloid produced within the endosomal/lysosomal pathway and autophagosomes. publication-title: J. Biol. Chem. doi: 10.1074/jbc.M112.422964 – volume: 142 start-page: 624 year: 2017 ident: B10 article-title: Endocannabinoid system in neurodegenerative disorders. publication-title: J. Neurochem. doi: 10.1111/jnc.14098 – volume: 6 start-page: 1142 year: 2014 ident: B119 article-title: Selective clearance of aberrant tau proteins and rescue of neurotoxicity by transcription factor EB. publication-title: EMBO Mol. Med. doi: 10.15252/emmm.201303671 – volume: 4 year: 2012 ident: B75 article-title: Apolipoprotein E, amyloid-ß clearance and therapeutic opportunities in Alzheimer’s disease. publication-title: Alzheimers. Res. Ther. doi: 10.1186/alzrt135 – volume: 73 start-page: 768 year: 2009 ident: B58 article-title: Systemic inflammation and disease progression in alzheimer disease. publication-title: Neurology doi: 10.1212/WNL.0b013e3181b6bb95 – volume: 8 year: 2013 ident: B65 article-title: Gene expression and functional annotation of the human and mouse choroid plexus epithelium. publication-title: PLoS One doi: 10.1371/journal.pone.0083345 – volume: 9 year: 2017 ident: B1 article-title: Rho GTPases as therapeutic targets in Alzheimer’s disease. publication-title: Alzheimers. Res. Ther. doi: 10.1186/s13195-017-0320-4 – volume: 10 year: 2014 ident: B101 article-title: Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases. publication-title: Mol. Syst. Biol. doi: 10.15252/msb.20145304 |
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| Snippet | Potential pathogenic factors, other than well-known
,
, and
, can be further identified from transcriptomics studies of differentially expressed genes (DEGs)... Abstract Potential pathogenic factors, other than well-known APP, APOE4 and PSEN, can be further identified from transcriptomics studies of differentially... Potential pathogenic factors, other than well-known APP, APOE4, and PSEN, can be further identified from transcriptomics studies of differentially expressed... |
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| SubjectTerms | Algorithms Alzheimer's disease Amyloid Bioinformatics Brain Datasets Dementia Deoxyribonucleic acid DNA DNA microarrays DNA sequencing Drugs Epidermal growth factor receptors Fyn protein Gene expression Homeostasis Hypotheses Kinases Meta-analysis microarray analysis Neurodegenerative diseases Neuroscience Neurotoxicity Phosphorylation Proteins Ribonucleic acid RNA RNA sequence analysis Statistical analysis Studies Transcriptomics |
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