메뉴 건너뛰기




Volumn 10, Issue , 2015, Pages 21-31

MicroRNA-seq data analysis pipeline to identify blood biomarkers for Alzheimer’s disease from public data

Author keywords

Alzheimer s disease; Biomarkers; Data analysis pipeline; DIANA miRPath; MicroRNA; OmiRas; Small RNA Seq

Indexed keywords

BIOLOGICAL MARKER; MICRORNA; MICRORNA 103A 3P; MICRORNA 1294; MICRORNA 144 5P; MICRORNA 1468; MICRORNA 148A 3P; MICRORNA 148B 5P; MICRORNA 151A 3P; MICRORNA 15A 5P; MICRORNA 17 3P; MICRORNA 186 5P; MICRORNA 26A 5P; MICRORNA 26B 3P; MICRORNA 28 3P; MICRORNA 29B 3P; MICRORNA 30C 5P; MICRORNA 30D 5P; MICRORNA 3200 3P; MICRORNA 425 5P; MICRORNA 4781 3P; MICRORNA 5001 3P; MICRORNA 5010 3P; MICRORNA 502 3P; MICRORNA 532 5P; MICRORNA 550A 5P; MICRORNA 6513 3P; MICRORNA 660 5P; MICRORNA 98 5P; UNCLASSIFIED DRUG; UNINDEXED DRUG;

EID: 84930661401     PISSN: None     EISSN: 11772719     Source Type: Journal    
DOI: 10.4137/BMIMI.S25132     Document Type: Article
Times cited : (138)

References (34)
  • 2
    • 32244435907 scopus 로고    scopus 로고
    • Role of genes and environments for explaining Alzheimer disease
    • Gatz M, Reynolds CA, Fratiglioni L, et al. Role of genes and environments for explaining Alzheimer disease. Arch Gen Psychiatry. 2006;63(2):168–74.
    • (2006) Arch Gen Psychiatry , vol.63 , Issue.2 , pp. 168-174
    • Gatz, M.1    Reynolds, C.A.2    Fratiglioni, L.3
  • 3
    • 79959370222 scopus 로고    scopus 로고
    • Disease-modifying treatments for Alzheimer’s dis­ease
    • Galimberti D, Scarpini E. Disease-modifying treatments for Alzheimer’s dis­ease. Ther Adv Neurol Disord. 2011;4(4):203–16.
    • (2011) Ther Adv Neurol Disord , vol.4 , Issue.4 , pp. 203-216
    • Galimberti, D.1    Scarpini, E.2
  • 4
    • 0030944675 scopus 로고    scopus 로고
    • Differential diagnosis of Alzheimer’s dis­ease
    • Geldmacher DS, Whitehouse PJ Jr. Differential diagnosis of Alzheimer’s dis­ease. Neurology. 1997;48(5 suppl 6):S2–9.
    • (1997) Neurology , vol.48 , Issue.5 , pp. S2-S9
    • Geldmacher, D.S.1    Whitehouse, P.J.2
  • 5
    • 79956142378 scopus 로고    scopus 로고
    • The diagnosis of dementia due to Alzheimer’s disease: Recommendations from the National Institute on Aging-Alzheimer’s Association workgroups on diagnostic guidelines for Alzheimer’s disease
    • McKhann GM, Knopman DS, Chertkow H, et al. The diagnosis of dementia due to Alzheimer’s disease: recommendations from the National Institute on Aging-Alzheimer’s Association workgroups on diagnostic guidelines for Alzheimer’s disease. Alzheimers Dement. 2011;7(3):263–9.
    • (2011) Alzheimers Dement , vol.7 , Issue.3 , pp. 263-269
    • McKhann, G.M.1    Knopman, D.S.2    Chertkow, H.3
  • 6
    • 84875437012 scopus 로고    scopus 로고
    • The PredictAD project: Development of novel biomarkers and analysis software for early diagnosis of the Alzheimer’s disease
    • Antila K, Lötjönen J, Thurfjell L, et al. The PredictAD project: development of novel biomarkers and analysis software for early diagnosis of the Alzheimer’s disease. Interface Focus. 2013;3(2):20120072.
    • (2013) Interface Focus , vol.3 , Issue.2
    • Antila, K.1    Lötjönen, J.2    Thurfjell, L.3
  • 7
    • 77955644289 scopus 로고    scopus 로고
    • Mammalian microRNAs predom­inantly act to decrease target mRNA levels
    • Guo H, Ingolia NT, Weissman JS, Bartel DP. Mammalian microRNAs predom­inantly act to decrease target mRNA levels. Nature. 2010;466(7308):835–40.
    • (2010) Nature , vol.466 , Issue.7308 , pp. 835-840
    • Guo, H.1    Ingolia, N.T.2    Weissman, J.S.3    Bartel, D.P.4
  • 9
    • 60149095444 scopus 로고    scopus 로고
    • Most mammalian mRNAs are conserved targets of microRNAs
    • Friedman RC, Farh KK, Burge CB, Bartel DP. Most mammalian mRNAs are conserved targets of microRNAs. Genome Res. 2009;19(1):92–105.
    • (2009) Genome Res , vol.19 , Issue.1 , pp. 92-105
    • Friedman, R.C.1    Farh, K.K.2    Burge, C.B.3    Bartel, D.P.4
  • 10
    • 80053367552 scopus 로고    scopus 로고
    • Toward the blood-borne miRNome of human diseases
    • Keller A, Leidinger P, Bauer A, et al. Toward the blood-borne miRNome of human diseases. Nat Methods. 2011;8(10):841–3.
    • (2011) Nat Methods , vol.8 , Issue.10 , pp. 841-843
    • Keller, A.1    Leidinger, P.2    Bauer, A.3
  • 11
    • 84866879941 scopus 로고    scopus 로고
    • Molecular network analysis of human microRNA targetome: From can­cers to Alzheimer’s disease
    • Satoh J. Molecular network analysis of human microRNA targetome: from can­cers to Alzheimer’s disease. BioData Min. 2012;5(1):17.
    • (2012) Biodata Min , vol.5 , Issue.1 , pp. 17
    • Satoh, J.1
  • 12
    • 84905122848 scopus 로고    scopus 로고
    • MicroRNAs in cancer: Biomarkers, functions and therapy
    • Hayes J, Peruzzi PP, Lawler S. MicroRNAs in cancer: biomarkers, functions and therapy. Trends Mol Med. 2014;20(8):460–9.
    • (2014) Trends Mol Med , vol.20 , Issue.8 , pp. 460-469
    • Hayes, J.1    Peruzzi, P.P.2    Lawler, S.3
  • 13
    • 84858269210 scopus 로고    scopus 로고
    • Molecular network of microRNA targets in Alzheimer’s disease brains
    • Satoh J. Molecular network of microRNA targets in Alzheimer’s disease brains. Exp Neurol. 2012;235(2):436–46.
    • (2012) Exp Neurol , vol.235 , Issue.2 , pp. 436-446
    • Satoh, J.1
  • 14
    • 84883492783 scopus 로고    scopus 로고
    • The detection of microRNA associated with Alzheimer’s disease in biological fluids using next-generation sequencing technologies
    • Cheng L, Quek CY, Sun X, Bellingham SA, Hill AF. The detection of microRNA associated with Alzheimer’s disease in biological fluids using next-generation sequencing technologies. Front Genet. 2013;4:150.
    • (2013) Front Genet , vol.4 , pp. 150
    • Cheng, L.1    Quek, C.Y.2    Sun, X.3    Bellingham, S.A.4    Hill, A.F.5
  • 15
    • 84902309873 scopus 로고    scopus 로고
    • Identification of circulating microR­NAs for the differential diagnosis of Parkinson’s disease and multiple system atrophy
    • Vallelunga A, Ragusa M, Di Mauro S, et al. Identification of circulating microR­NAs for the differential diagnosis of Parkinson’s disease and multiple system atrophy. Front Cell Neurosci. 2014;8:156.
    • (2014) Front Cell Neurosci , vol.8 , pp. 156
    • Vallelunga, A.1    Ragusa, M.2    Di Mauro, S.3
  • 16
    • 70350772348 scopus 로고    scopus 로고
    • MicroRNAs potentiate neural develop­ment
    • Fineberg SK, Kosik KS, Davidson BL. MicroRNAs potentiate neural develop­ment. Neuron. 2009;64(3):303–9.
    • (2009) Neuron , vol.64 , Issue.3 , pp. 303-309
    • Fineberg, S.K.1    Kosik, K.S.2    Davidson, B.L.3
  • 17
    • 78751570979 scopus 로고    scopus 로고
    • RNA sequencing: Advances, challenges and opportuni­ties
    • Ozsolak F, Milos PM. RNA sequencing: advances, challenges and opportuni­ties. Nat Rev Genet. 2011;12(2):87–98.
    • (2011) Nat Rev Genet , vol.12 , Issue.2 , pp. 87-98
    • Ozsolak, F.1    Milos, P.M.2
  • 18
    • 84880956260 scopus 로고    scopus 로고
    • A blood based 12-miRNA signature of Alzheimer disease patients
    • Leidinger P, Backes C, Deutscher S, et al. A blood based 12-miRNA signature of Alzheimer disease patients. Genome Biol. 2013;14(7):R78.
    • (2013) Genome Biol , vol.14 , Issue.7 , pp. R78
    • Leidinger, P.1    Backes, C.2    Deutscher, S.3
  • 19
    • 84885649783 scopus 로고    scopus 로고
    • OmiRas: A Web server for differential expression analysis of miRNAs derived from small RNA-Seq data
    • Müller S, Rycak L, Winter P, Kahl G, Koch I, Rotter B. omiRas: a Web server for differential expression analysis of miRNAs derived from small RNA-Seq data. Bioinformatics. 2013;29(20):2651–2.
    • (2013) Bioinformatics , vol.29 , Issue.20 , pp. 2651-2652
    • Müller, S.1    Rycak, L.2    Winter, P.3    Kahl, G.4    Koch, I.5    Rotter, B.6
  • 20
    • 84864464973 scopus 로고    scopus 로고
    • DIANA miRPath v.2.0: Investi­gating the combinatorial effect of microRNAs in pathways
    • Vlachos IS, Kostoulas N, Vergoulis T, et al. DIANA miRPath v.2.0: investi­gating the combinatorial effect of microRNAs in pathways. Nucleic Acids Res. 2012;40(Web Server issue):W498–504.
    • (2012) Nucleic Acids Res , vol.40 , Issue.Web Server issue , pp. W498-W504
    • Vlachos, I.S.1    Kostoulas, N.2    Vergoulis, T.3
  • 21
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders S, Huber W. Differential expression analysis for sequence count data. Genome Biol. 2010;11(10):R106.
    • (2010) Genome Biol , vol.11 , Issue.10 , pp. R106
    • Anders, S.1    Huber, W.2
  • 22
    • 84858983547 scopus 로고    scopus 로고
    • KEGG for integra­tion and interpretation of large-scale molecular data sets
    • Kanehisa M, Goto S, Sato Y, Furumichi M, Tanabe M. KEGG for integra­tion and interpretation of large-scale molecular data sets. Nucleic Acids Res. 2012;40(Database issue):D109–14.
    • (2012) Nucleic Acids Res , vol.40 , Issue.Database issue , pp. D109-D114
    • Kanehisa, M.1    Goto, S.2    Sato, Y.3    Furumichi, M.4    Tanabe, M.5
  • 23
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analy­sis of large gene lists using DAVID bioinformatics resources
    • Huang da W, Sherman BT, Lempicki RA. Systematic and integrative analy­sis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009;4(1):44–57.
    • (2009) Nat Protoc , vol.4 , Issue.1 , pp. 44-57
    • Huang Da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 24
    • 44049108170 scopus 로고    scopus 로고
    • Loss of microRNA cluster miR-29a/b-1 in sporadic Alzheimer’s disease correlates with increased BACE1/β-secretase expression
    • Hébert SS, Horré K, Nicolaï L, et al. Loss of microRNA cluster miR-29a/b-1 in sporadic Alzheimer’s disease correlates with increased BACE1/β-secretase expression. Proc Natl Acad Sci U S A. 2008;105(17):6415–20.
    • (2008) Proc Natl Acad Sci U S A , vol.105 , Issue.17 , pp. 6415-6420
    • Hébert, S.S.1    Horré, K.2    Nicolaï, L.3
  • 25
    • 84860369464 scopus 로고    scopus 로고
    • Blood serum miRNA: Non-invasive biomarkers for Alzheimer’s disease
    • Geekiyanage H, Jicha GA, Nelson PT, Chan C. Blood serum miRNA: non-invasive biomarkers for Alzheimer’s disease. Exp Neurol. 2012;235(2):491–6.
    • (2012) Exp Neurol , vol.235 , Issue.2 , pp. 491-496
    • Geekiyanage, H.1    Jicha, G.A.2    Nelson, P.T.3    Chan, C.4
  • 26
    • 84883769174 scopus 로고    scopus 로고
    • Quantitative proteomics reveals diverse roles of miR-148a from gastric cancer progression to neurological development
    • Hu CW, Tseng CW, Chien CW, et al. Quantitative proteomics reveals diverse roles of miR-148a from gastric cancer progression to neurological development. J Proteome Res. 2013;12(9):3993–4004.
    • (2013) J Proteome Res , vol.12 , Issue.9 , pp. 3993-4004
    • Hu, C.W.1    Tseng, C.W.2    Chien, C.W.3
  • 27
    • 84884959481 scopus 로고    scopus 로고
    • Alteration of the microRNA network during the progression of Alzheimer’s disease
    • Lau P, Bossers K, Janky R, et al. Alteration of the microRNA network during the progression of Alzheimer’s disease. EMBO Mol Med. 2013;5(10):1613–34.
    • (2013) EMBO Mol Med , vol.5 , Issue.10 , pp. 1613-1634
    • Lau, P.1    Bossers, K.2    Janky, R.3
  • 28
    • 84910061009 scopus 로고    scopus 로고
    • In silico
    • Müller S. In silico analysis of regulatory networks underlines the role of miR-10b-5p and its target BDNF in Huntington’s disease. Transl Neurodegener. 2014;3:17.
    • (2014) Transl Neurodegener , vol.3 , pp. 17
    • Müller, S.1
  • 29
    • 84891525727 scopus 로고    scopus 로고
    • Plasma microRNA biomarkers for detection of mild cognitive impairment: Biomarker validation study
    • Sheinerman KS, Tsivinsky VG, Abdullah L, Crawford F, Umansky SR. Plasma microRNA biomarkers for detection of mild cognitive impairment: biomarker validation study. Aging (Albany NY). 2013;5(12):925–38.
    • (2013) Aging (Albany NY) , vol.5 , Issue.12 , pp. 925-938
    • Sheinerman, K.S.1    Tsivinsky, V.G.2    Abdullah, L.3    Crawford, F.4    Umansky, S.R.5
  • 30
    • 84893523143 scopus 로고    scopus 로고
    • Increased microRNA-34c abundance in Alzheimer’s disease circulating blood plasma
    • Bhatnagar S, Chertkow H, Schipper HM, et al. Increased microRNA-34c abundance in Alzheimer’s disease circulating blood plasma. Front Mol Neurosci. 2014;7:2.
    • (2014) Front Mol Neurosci , vol.7 , pp. 2
    • Bhatnagar, S.1    Chertkow, H.2    Schipper, H.M.3
  • 31
    • 84880849936 scopus 로고    scopus 로고
    • Circulating miRNA biomarkers for Alzheimer’s disease
    • Kumar P, Dezso Z, MacKenzie C, et al. Circulating miRNA biomarkers for Alzheimer’s disease. PLoS One. 2013;8(7):e69807.
    • (2013) Plos One , vol.8 , Issue.7
    • Kumar, P.1    Dezso, Z.2    Mackenzie, C.3
  • 32
    • 84942549950 scopus 로고    scopus 로고
    • Prognostic serum miRNA biomarkers associated with Alzheimer’s disease shows concordance with neuropsychological and neuroimaging assessment
    • Cheng L, Doecke JD, Sharples RA, et al. Prognostic serum miRNA biomarkers associated with Alzheimer’s disease shows concordance with neuropsychological and neuroimaging assessment. Mol Psychiatry. 2014.
    • (2014) Mol Psychiatry
    • Cheng, L.1    Doecke, J.D.2    Sharples, R.A.3
  • 33
    • 84901767463 scopus 로고    scopus 로고
    • Genome-wide serum microRNA expression pro­filing identifies serum biomarkers for Alzheimer’s disease
    • Tan L, Yu JT, Tan MS, et al. Genome-wide serum microRNA expression pro­filing identifies serum biomarkers for Alzheimer’s disease. J Alzheimers Dis. 2014;40(4):1017–27.
    • (2014) J Alzheimers Dis , vol.40 , Issue.4 , pp. 1017-1027
    • Tan, L.1    Yu, J.T.2    Tan, M.S.3
  • 34
    • 84883732254 scopus 로고    scopus 로고
    • MiR-26b, upregu­lated in Alzheimer’s disease, activates cell cycle entry, tau-phosphorylation, and apoptosis in postmitotic neurons
    • Absalon S, Kochanek DM, Raghavan V, Krichevsky AM. MiR-26b, upregu­lated in Alzheimer’s disease, activates cell cycle entry, tau-phosphorylation, and apoptosis in postmitotic neurons. J Neurosci. 2013;33(37):14645–59.
    • (2013) J Neurosci , vol.33 , Issue.37 , pp. 14645-14659
    • Absalon, S.1    Kochanek, D.M.2    Raghavan, V.3    Krichevsky, A.M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.