Agell N, Bachs O, Rocamora N, Villalonga P (2002) Modulation of the Ras/Raf/MEK/ERK pathway by Ca(2+), and calmodulin. Cell Signal 14(8):649–654
Article
CAS
PubMed
Google Scholar
Ager RR, Davis JL, Agazaryan A, Benavente F, Poon WW, LaFerla FM, Blurton-Jones M (2015) Human neural stem cells improve cognition and promote synaptic growth in two complementary transgenic models of Alzheimer’s disease and neuronal loss. Hippocampus 25(7):813–826
Article
CAS
PubMed
PubMed Central
Google Scholar
Albert R (2007) Network inference, analysis, and modeling in systems biology. Plant Cell 19(11):3327–3338
Article
CAS
PubMed
PubMed Central
Google Scholar
Amor S, Woodroofe MN (2014) Innate and adaptive immune responses in neurodegeneration and repair. Immunology 141(3):287–291
Article
CAS
PubMed
PubMed Central
Google Scholar
Balderas I, Rodriguez-Ortiz CJ, Salgado-Tonda P, Chavez-Hurtado J, McGaugh JL, Bermudez-Rattoni F (2008) The consolidation of object and context recognition memory involve different regions of the temporal lobe. Learn Mem 15(9):618–624
Article
PubMed
PubMed Central
Google Scholar
Barker GR, Bird F, Alexander V, Warburton EC (2007) Recognition memory for objects, place, and temporal order: a disconnection analysis of the role of the medial prefrontal cortex and perirhinal cortex. J Neurosci 27(11):2948–2957
Article
CAS
PubMed
Google Scholar
Baruch K, Rosenzweig N, Kertser A, Deczkowska A, Sharif AM, Spinrad A, Tsitsou-Kampeli A, Sarel A, Cahalon L, Schwartz M (2015) Breaking immune tolerance by targeting Foxp3(+) regulatory T cells mitigates Alzheimer’s disease pathology. Nat Commun 6:7967
Article
CAS
PubMed
PubMed Central
Google Scholar
Bastian M, Heymann S, J M (2009) Gephi: an open source software for exploring and manipulating networks. AAAI Publications.
Batiz LF, Castro MA, Burgos PV, Velasquez ZD, Munoz RI, Lafourcade CA, Troncoso-Escudero P, Wyneken U (2015) Exosomes as novel regulators of adult neurogenic niches. Front Cell Neurosci 9:501
PubMed
Google Scholar
Baydyuk M, Xu B (2014) BDNF signaling and survival of striatal neurons. Front Cell Neurosci 8:254
Article
PubMed
PubMed Central
CAS
Google Scholar
Bermudez-Rattoni F, Okuda S, Roozendaal B, McGaugh JL (2005) Insular cortex is involved in consolidation of object recognition memory. Learn Mem 12(5):447–449
Article
PubMed
Google Scholar
Berridge MJ (1993) Inositol trisphosphate and calcium signalling. Nature 361(6410):315–325
Article
CAS
PubMed
Google Scholar
Beyer K, Domingo-Sabat M, Ariza A (2009) Molecular pathology of Lewy body diseases. Int J Mol Sci 10(3):724–745
Article
CAS
PubMed
PubMed Central
Google Scholar
Bindea G, Mlecnik B, Hackl H, Charoentong P, Tosolini M, Kirilovsky A, Fridman WH, Pages F, Trajanoski Z, Galon J (2009) ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. Bioinformatics 25(8):1091–1093
Article
CAS
PubMed
PubMed Central
Google Scholar
Blurton-Jones M, Kitazawa M, Martinez-Coria H, Castello NA, Muller FJ, Loring JF, Yamasaki TR, Poon WW, Green KN, LaFerla FM (2009) Neural stem cells improve cognition via BDNF in a transgenic model of Alzheimer disease. Proc Natl Acad Sci U S A 106(32):13594–13599
Article
CAS
PubMed
PubMed Central
Google Scholar
Bockaert J, Marin P (2015) mTOR in brain physiology and pathologies. Physiol Rev 95(4):1157–1187
Article
CAS
PubMed
Google Scholar
Bourdenx M, Bezard E, Dehay B (2014) Lysosomes and alpha-synuclein form a dangerous duet leading to neuronal cell death. Front Neuroanat 8:83
Article
PubMed
PubMed Central
CAS
Google Scholar
Breuer K, Foroushani AK, Laird MR, Chen C, Sribnaia A, Lo R, Winsor GL, Hancock RE, Brinkman FS, Lynn DJ (2013) InnateDB: systems biology of innate immunity and beyond--recent updates and continuing curation. Nucleic Acids Res 41(Database issue):D1228–D1233
Article
CAS
PubMed
Google Scholar
Bronicki LM, Jasmin BJ (2013) Emerging complexity of the HuD/ELAVl4 gene; implications for neuronal development, function, and dysfunction. RNA 19(8):1019–1037
Article
CAS
PubMed
PubMed Central
Google Scholar
Burre J (2015) The synaptic function of alpha-synuclein. J Parkinsons Dis 5(4):699–713
Article
CAS
PubMed
PubMed Central
Google Scholar
Burre J, Sharma M, Tsetsenis T, Buchman V, Etherton MR, Sudhof TC (2010) Alpha-synuclein promotes SNARE-complex assembly in vivo and in vitro. Science 329(5999):1663–1667
Article
CAS
PubMed
PubMed Central
Google Scholar
Castro MA, Wang X, Fletcher MN, Meyer KB, Markowetz F (2012) RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations. Genome Biol 13(4):R29
Article
CAS
PubMed
PubMed Central
Google Scholar
Chen L, Coleman R, Leang R, Tran H, Kopf A, Walsh CM, Sears-Kraxberger I, Steward O, Macklin WB, Loring JF, Lane TE (2014) Human neural precursor cells promote neurologic recovery in a viral model of multiple sclerosis. Stem Cell Reports 2(6):825–837
Article
CAS
PubMed
PubMed Central
Google Scholar
Chen LW, Kuang F, Wei LC, Ding YX, Yung KK, Chan YS (2011) Potential application of induced pluripotent stem cells in cell replacement therapy for Parkinson’s disease. CNS Neurol Disord Drug Targets 10(4):449–458
Article
CAS
PubMed
Google Scholar
Chen EY, Tan CM, Kou Y, Duan Q, Wang Z, Meirelles GV, Clark NR, Ma’ayan A (2013) Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. BMC Bioinformatics 14:128
Article
PubMed
PubMed Central
Google Scholar
Chuderland D, Seger R (2008) Calcium regulates ERK signaling by modulating its protein-protein interactions. Commun Integr Biol 1(1):4–5
Article
CAS
PubMed
PubMed Central
Google Scholar
Cossetti C, Iraci N, Mercer TR, Leonardi T, Alpi E, Drago D, Alfaro-Cervello C, Saini HK, Davis MP, Schaeffer J, Vega B, Stefanini M, Zhao C, Muller W, Garcia-Verdugo JM, Mathivanan S, Bachi A, Enright AJ, Mattick JS, Pluchino S (2014) Extracellular vesicles from neural stem cells transfer IFN-gamma via Ifngr1 to activate Stat1 signaling in target cells. Mol Cell 56(2):193–204
Article
CAS
PubMed
PubMed Central
Google Scholar
Csárdi G, Nepusz T (2006) The igraph software package for complex network research. Inter Journal Complex Systems.
Danik JS, Pare G, Chasman DI, Zee RY, Kwiatkowski DJ, Parker A, Miletich JP, Ridker PM (2009) Novel loci, including those related to Crohn disease, psoriasis, and inflammation, identified in a genome-wide association study of fibrinogen in 17 686 women: the Women’s Genome Health Study. Circ Cardiovasc Genet 2(2):134–141
Article
CAS
PubMed
PubMed Central
Google Scholar
De Strooper B (2014) Lessons from a failed gamma-secretase Alzheimer trial. Cell 159(4):721–726
Article
PubMed
CAS
Google Scholar
De Toro J, Herschlik L, Waldner C, Mongini C (2015) Emerging roles of exosomes in normal and pathological conditions: new insights for diagnosis and therapeutic applications. Front Immunol 6:203
Article
PubMed
PubMed Central
CAS
Google Scholar
Deas E, Wood NW, Plun-Favreau H (2011) Mitophagy and Parkinson’s disease: the PINK1-parkin link. Biochim Biophys Acta 1813(4):623–633
Article
CAS
PubMed
PubMed Central
Google Scholar
Decimo I, Bifari F, Krampera M, Fumagalli G (2012) Neural stem cell niches in health and diseases. Curr Pharm Des 18(13):1755–1783
Article
CAS
PubMed
PubMed Central
Google Scholar
Dehay B, Martinez-Vicente M, Caldwell GA, Caldwell KA, Yue Z, Cookson MR, Klein C, Vila M, Bezard E (2013) Lysosomal impairment in Parkinson’s disease. Mov Disord 28(6):725–732
Article
CAS
PubMed
PubMed Central
Google Scholar
DeStefano AL, Latourelle J, Lew MF, Suchowersky O, Klein C, Golbe LI, Mark MH, Growdon JH, Wooten GF, Watts R, Guttman M, Racette BA, Perlmutter JS, Marlor L, Shill HA, Singer C, Goldwurm S, Pezzoli G, Saint-Hilaire MH, Hendricks AE, Gower A, Williamson S, Nagle MW, Wilk JB, Massood T, Huskey KW, Baker KB, Itin I, Litvan I, Nicholson G, Corbett A, Nance M, Drasby E, Isaacson S, Burn DJ, Chinnery PF, Pramstaller PP, Al-Hinti J, Moller AT, Ostergaard K, Sherman SJ, Roxburgh R, Snow B, Slevin JT, Cambi F, Gusella JF, Myers RH (2008) Replication of association between ELAVL4 and Parkinson disease: the GenePD study. Hum Genet 124(1):95–99
Article
CAS
PubMed
PubMed Central
Google Scholar
Devi L, Raghavendran V, Prabhu BM, Avadhani NG, Anandatheerthavarada HK (2008) Mitochondrial import and accumulation of alpha-synuclein impair complex I in human dopaminergic neuronal cultures and Parkinson disease brain. J Biol Chem 283(14):9089–9100
Article
CAS
PubMed
PubMed Central
Google Scholar
Garcia-Reitbock P, Anichtchik O, Bellucci A, Iovino M, Ballini C, Fineberg E, Ghetti B, Della Corte L, Spano P, Tofaris GK, Goedert M, Spillantini MG (2010) SNARE protein redistribution and synaptic failure in a transgenic mouse model of Parkinson’s disease. Brain 133(Pt 7):2032–2044
Article
PubMed
PubMed Central
Google Scholar
Gilks WP, Abou-Sleiman PM, Gandhi S, Jain S, Singleton A, Lees AJ, Shaw K, Bhatia KP, Bonifati V, Quinn NP, Lynch J, Healy DG, Holton JL, Revesz T, Wood NW (2005) A common LRRK2 mutation in idiopathic Parkinson’s disease. Lancet 365(9457):415–416
CAS
PubMed
Google Scholar
Giusto E, Donega M, Cossetti C, Pluchino S (2014) Neuro-immune interactions of neural stem cell transplants: from animal disease models to human trials. Exp Neurol 260:19–32
Article
CAS
PubMed
Google Scholar
Goldberg NRS, Blurton-Jones M (2015) Can stem cells be used to enhance cognition? In: Knafo S, Venero C (Eds.), Cognitive Enhancement: Pharmacologic, Environmental and Genetic Factors, pp 167-192
Goldberg NR, Caesar J, Park A, Sedgh S, Finogenov G, Masliah E, Davis J, Blurton-Jones M (2015) Neural stem cells rescue cognitive and motor dysfunction in a transgenic model of dementia with lewy bodies through a BDNF-dependent mechanism. Stem Cell Reports 5(5):791–804
Gupta S, Ellis SE, Ashar FN, Moes A, Bader JS, Zhan J, West AB, Arking DE (2014) Transcriptome analysis reveals dysregulation of innate immune response genes and neuronal activity-dependent genes in autism. Nat Commun 5:5748
Article
CAS
PubMed
PubMed Central
Google Scholar
Halbleib JM, Nelson WJ (2006) Cadherins in development: cell adhesion, sorting, and tissue morphogenesis. Genes Dev 20(23):3199–3214
Article
CAS
PubMed
Google Scholar
Helms C, Cao L, Krueger JG, Wijsman EM, Chamian F, Gordon D, Heffernan M, Daw JA, Robarge J, Ott J, Kwok PY, Menter A, Bowcock AM (2003) A putative RUNX1 binding site variant between SLC9A3R1 and NAT9 is associated with susceptibility to psoriasis. Nat Genet 35(4):349–356
Article
CAS
PubMed
Google Scholar
Holtman IR, Raj DD, Miller JA, Schaafsma W, Yin Z, Brouwer N, Wes PD, Moller T, Orre M, Kamphuis W, Hol EM, Boddeke EW, Eggen BJ (2015) Induction of a common microglia gene expression signature by aging and neurodegenerative conditions: a co-expression meta-analysis. Acta Neuropathol Commun 3:31
Article
PubMed
PubMed Central
CAS
Google Scholar
Hu Z, Chang YC, Wang Y, Huang CL, Liu Y, Tian F, Granger B, Delisi C (2013) VisANT 4.0: integrative network platform to connect genes, drugs, diseases and therapies. Nucleic Acids Res 41(Web Server issue):W225–W231
Article
PubMed
PubMed Central
Google Scholar
Huang L, Chardon JW, Carter MT, Friend KL, Dudding TE, Schwartzentruber J, Zou R, Schofield PW, Douglas S, Bulman DE, Boycott KM (2012) Missense mutations in ITPR1 cause autosomal dominant congenital nonprogressive spinocerebellar ataxia. Orphanet J Rare Dis 7:67
Article
PubMed
PubMed Central
Google Scholar
Hulpiau P, van Roy F (2009) Molecular evolution of the cadherin superfamily. Int J Biochem Cell Biol 41(2):349–369
Article
CAS
PubMed
Google Scholar
Ito K, Murphy D (2013) Application of ggplot2 to pharmacometric graphics. CPT Pharmacometrics Syst Pharmacol 2:e79
Article
CAS
PubMed
PubMed Central
Google Scholar
John Peter AT, Lachmann J, Rana M, Bunge M, Cabrera M, Ungermann C (2013) The BLOC-1 complex promotes endosomal maturation by recruiting the Rab5 GTPase-activating protein Msb3. J Cell Biol 201(1):97–111
Article
PubMed
PubMed Central
CAS
Google Scholar
Josefowicz SZ, Lu LF, Rudensky AY (2012) Regulatory T cells: mechanisms of differentiation and function. Annu Rev Immunol 30:531–564
Article
CAS
PubMed
Google Scholar
Kalra H, Simpson RJ, Ji H, Aikawa E, Altevogt P, Askenase P, Bond VC, Borras FE, Breakefield X, Budnik V, Buzas E, Camussi G, Clayton A, Cocucci E, Falcon-Perez JM, Gabrielsson S, Gho YS, Gupta D, Harsha HC, Hendrix A, Hill AF, Inal JM, Jenster G, Kramer-Albers EM, Lim SK, Llorente A, Lotvall J, Marcilla A, Mincheva-Nilsson L, Nazarenko I, Nieuwland R, Nolte-’t Hoen EN, Pandey A, Patel T, Piper MG, Pluchino S, Prasad TS, Rajendran L, Raposo G, Record M, Reid GE, Sanchez-Madrid F, Schiffelers RM, Siljander P, Stensballe A, Stoorvogel W, Taylor D, Thery C, Valadi H, van Balkom BW, Vazquez J, Vidal M, Wauben MH, Yanez-Mo M, Zoeller M, Mathivanan S (2012) Vesiclepedia: a compendium for extracellular vesicles with continuous community annotation. PLoS Biol 10(12):e1001450
Article
CAS
PubMed
PubMed Central
Google Scholar
Klein C, Westenberger A (2012) Genetics of Parkinson’s disease. Cold Spring Harb Perspect Med 2(1):a008888
Article
PubMed
PubMed Central
Google Scholar
Kokaia Z, Martino G, Schwartz M, Lindvall O (2012) Cross-talk between neural stem cells and immune cells: the key to better brain repair? Nat Neurosci 15(8):1078–1087
Article
CAS
PubMed
Google Scholar
Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA (2009) Circos: an information aesthetic for comparative genomics. Genome Res 19(9):1639–1645
Article
CAS
PubMed
PubMed Central
Google Scholar
Kuleshov MV, Jones MR, Rouillard AD, Fernandez NF, Duan Q, Wang Z, Koplev S, Jenkins SL, Jagodnik KM, Lachmann A, McDermott MG, Monteiro CD, Gundersen GW, Ma’ayan A (2016) Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res 44(W1):W90–W97
Article
PubMed
PubMed Central
Google Scholar
Lane EL, Handley OJ, Rosser AE, Dunnett SB (2008) Potential cellular and regenerative approaches for the treatment of Parkinson’s disease. Neuropsychiatr Dis Treat 4(5):835–845
Article
PubMed
PubMed Central
Google Scholar
Langfelder P, Horvath S (2008) WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 9:559
Article
PubMed
PubMed Central
CAS
Google Scholar
Langfelder P, Mischel PS, Horvath S (2013) When is hub gene selection better than standard meta-analysis? PLoS One 8(4):e61505
Article
CAS
PubMed
PubMed Central
Google Scholar
Lazarou M, Sliter DA, Kane LA, Sarraf SA, Wang C, Burman JL, Sideris DP, Fogel AI, Youle RJ (2015) The ubiquitin kinase PINK1 recruits autophagy receptors to induce mitophagy. Nature 524(7565):309–314
Article
CAS
PubMed
PubMed Central
Google Scholar
Le Blon D, Guglielmetti C, Hoornaert C, Quarta A, Daans J, Dooley D, Lemmens E, Praet J, De Vocht N, Reekmans K, Santermans E, Hens N, Goossens H, Verhoye M, Van der Linden A, Berneman Z, Hendrix S, Ponsaerts P (2016) Intracerebral transplantation of interleukin 13-producing mesenchymal stem cells limits microgliosis, oligodendrocyte loss and demyelination in the cuprizone mouse model. J Neuroinflammation 13(1):288
Article
PubMed
PubMed Central
Google Scholar
Lee SY, Min HK, Lee SH, Shin HJ, Lee WY, Cho YG, Kwok SK, Ju JH, Cho ML, Park SH (2016) IL-1 receptor antagonist (IL-1Ra)-Fc ameliorate autoimmune arthritis by regulation of the Th17 cells/Treg balance and arthrogenic cytokine activation. Immunol Lett 172:56–66
Article
CAS
PubMed
Google Scholar
Levy M, Boulis N, Rao M, Svendsen CN (2016) Regenerative cellular therapies for neurologic diseases. Brain Res 1638(Pt A):88–96
Article
CAS
PubMed
Google Scholar
Li J, Li S, Zhang L, Ouyang L, Liu B (2015) Deconvoluting the complexity of autophagy and Parkinson’s disease for potential therapeutic purpose. Oncotarget 6(38):40480–40495
PubMed
PubMed Central
Google Scholar
Li H, Xuan J, Wang Y, Zhan M (2008) Inferring regulatory networks. Front Biosci 13:263–275
Article
CAS
PubMed
Google Scholar
Lindvall O, Barker RA, Brustle O, Isacson O, Svendsen CN (2012) Clinical translation of stem cells in neurodegenerative disorders. Cell Stem Cell 10(2):151–155
Article
CAS
PubMed
PubMed Central
Google Scholar
Marsh SE, Abud EM, Lakatos A, Karimzadeh A, Yeung ST, Davtyan H, Fote GM, Lau L, Weinger JG, Lane TE, Inlay MA, Poon WW, Blurton-Jones M (2016) The adaptive immune system restrains Alzheimer’s disease pathogenesis by modulating microglial function. Proc Natl Acad Sci U S A 113(9):E1316–E1325
Article
CAS
PubMed
PubMed Central
Google Scholar
Martin LJ, Pan Y, Price AC, Sterling W, Copeland NG, Jenkins NA, Price DL, Lee MK (2006) Parkinson’s disease alpha-synuclein transgenic mice develop neuronal mitochondrial degeneration and cell death. J Neurosci 26(1):41–50
Article
CAS
PubMed
Google Scholar
Martino G, Pluchino S (2006) The therapeutic potential of neural stem cells. Nat Rev Neurosci 7(5):395–406
Article
CAS
PubMed
Google Scholar
Mason MJ, Fan G, Plath K, Zhou Q, Horvath S (2009) Signed weighted gene co-expression network analysis of transcriptional regulation in murine embryonic stem cells. BMC Genomics 10:327
Article
PubMed
PubMed Central
CAS
Google Scholar
McNulty SE, Barrett RM, Vogel-Ciernia A, Malvaez M, Hernandez N, Davatolhagh MF, Matheos DP, Schiffman A, Wood MA (2012) Differential roles for Nr4a1 and Nr4a2 in object location vs. object recognition long-term memory. Learn Mem 19(12):588–592
Article
CAS
PubMed
PubMed Central
Google Scholar
Merla G, Ucla C, Guipponi M, Reymond A (2002) Identification of additional transcripts in the Williams-Beuren syndrome critical region. Hum Genet 110(5):429–438
Article
CAS
PubMed
Google Scholar
Miller JA, Oldham MC, Geschwind DH (2008) A systems level analysis of transcriptional changes in Alzheimer’s disease and normal aging. J Neurosci 28(6):1410–1420
Article
CAS
PubMed
PubMed Central
Google Scholar
Miller JA, Woltjer RL, Goodenbour JM, Horvath S, Geschwind DH (2013) Genes and pathways underlying regional and cell type changes in Alzheimer’s disease. Genome Med 5(5):48
Article
CAS
PubMed
PubMed Central
Google Scholar
Mizumoto H, Mizumoto K, Shatos MA, Klassen H, Young MJ (2003) Retinal transplantation of neural progenitor cells derived from the brain of GFP transgenic mice. Vision Res 43(16):1699–1708
Article
PubMed
Google Scholar
Network and Pathway Analysis Subgroup of Psychiatric Genomics Consortium (2015) Psychiatric genome-wide association study analyses implicate neuronal, immune and histone pathways. Nat Neurosci 18(2):199–209
Article
CAS
Google Scholar
Oldham MC, Langfelder P, Horvath S (2012) Network methods for describing sample relationships in genomic datasets: application to Huntington’s disease. BMC Syst Biol 6:63
Article
PubMed
PubMed Central
Google Scholar
Ouyang W, Beckett O, Ma Q, Paik JH, DePinho RA, Li MO (2010) Foxo proteins cooperatively control the differentiation of Foxp3+ regulatory T cells. Nat Immunol 11(7):618–627
Article
CAS
PubMed
Google Scholar
Palma JA, Kaufmann H (2014) Autonomic disorders predicting Parkinson’s disease. Parkinsonism Relat Disord 20(Suppl 1):S94–S98
Article
PubMed
PubMed Central
Google Scholar
Parikshak NN, Gandal MJ, Geschwind DH (2015) Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders. Nat Rev Genet 16(8):441–458
Article
CAS
PubMed
PubMed Central
Google Scholar
Pathan M, Keerthikumar S, Ang CS, Gangoda L, Quek CY, Williamson NA, Mouradov D, Sieber OM, Simpson RJ, Salim A, Bacic A, Hill AF, Stroud DA, Ryan MT, Agbinya JI, Mariadason JM, Burgess AW, Mathivanan S (2015) FunRich: an open access standalone functional enrichment and interaction network analysis tool. Proteomics 15(15):2597–2601
Article
CAS
PubMed
Google Scholar
Pluchino S, Cossetti C (2013) How stem cells speak with host immune cells in inflammatory brain diseases. Glia 61(9):1379–1401
Article
PubMed
PubMed Central
Google Scholar
Potkin SG, Turner JA, Guffanti G, Lakatos A, Torri F, Keator DB, Macciardi F (2009) Genome-wide strategies for discovering genetic influences on cognition and cognitive disorders: methodological considerations. Cogn Neuropsychiatry 14(4-5):391–418
Article
PubMed
PubMed Central
Google Scholar
Routtenberg A, Cantallops I, Zaffuto S, Serrano P, Namgung U (2000) Enhanced learning after genetic overexpression of a brain growth protein. Proc Natl Acad Sci U S A 97(13):7657–7662
Article
CAS
PubMed
PubMed Central
Google Scholar
Sakaguchi S, Ono M, Setoguchi R, Yagi H, Hori S, Fehervari Z, Shimizu J, Takahashi T, Nomura T (2006) Foxp3+ CD25+ CD4+ natural regulatory T cells in dominant self-tolerance and autoimmune disease. Immunol Rev 212:8–27
Article
CAS
PubMed
Google Scholar
Salvatore MF (2014) ser31 Tyrosine hydroxylase phosphorylation parallels differences in dopamine recovery in nigrostriatal pathway following 6-OHDA lesion. J Neurochem 129(3):548–558
Article
CAS
PubMed
PubMed Central
Google Scholar
Schulz-Schaeffer WJ (2010) The synaptic pathology of alpha-synuclein aggregation in dementia with Lewy bodies, Parkinson’s disease and Parkinson’s disease dementia. Acta Neuropathol 120(2):131–143
Article
CAS
PubMed
PubMed Central
Google Scholar
Scott I, Webster BR, Li JH, Sack MN (2012) Identification of a molecular component of the mitochondrial acetyltransferase programme: a novel role for GCN5L1. Biochem J 443(3):655–661
Article
CAS
PubMed
Google Scholar
Setty SR, Tenza D, Truschel ST, Chou E, Sviderskaya EV, Theos AC, Lamoreux ML, Di Pietro SM, Starcevic M, Bennett DC, Dell’Angelica EC, Raposo G, Marks MS (2007) BLOC-1 is required for cargo-specific sorting from vacuolar early endosomes toward lysosome-related organelles. Mol Biol Cell 18(3):768–780
Article
CAS
PubMed
PubMed Central
Google Scholar
Sevigny J, Chiao P, Bussiere T, Weinreb PH, Williams L, Maier M, Dunstan R, Salloway S, Chen T, Ling Y, O’Gorman J, Qian F, Arastu M, Li M, Chollate S, Brennan MS, Quintero-Monzon O, Scannevin RH, Arnold HM, Engber T, Rhodes K, Ferrero J, Hang Y, Mikulskis A, Grimm J, Hock C, Nitsch RM, Sandrock A (2016) The antibody aducanumab reduces Abeta plaques in Alzheimer’s disease. Nature 537(7618):50–56
Article
CAS
PubMed
Google Scholar
Sherer TB, Betarbet R, Stout AK, Lund S, Baptista M, Panov AV, Cookson MR, Greenamyre JT (2002) An in vitro model of Parkinson’s disease: linking mitochondrial impairment to altered alpha-synuclein metabolism and oxidative damage. J Neurosci 22(16):7006–7015
CAS
PubMed
Google Scholar
Shoemaker LD, Kornblum HI (2016) Neural stem cells (NSCs) and proteomics. Mol Cell Proteomics 15(2):344–354
Article
CAS
PubMed
Google Scholar
Subramanian A, Kuehn H, Gould J, Tamayo P, Mesirov JP (2007) GSEA-P: a desktop application for Gene Set Enrichment Analysis. Bioinformatics 23(23):3251–3253
Article
CAS
PubMed
Google Scholar
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A 102(43):15545–15550
Article
CAS
PubMed
PubMed Central
Google Scholar
Swapna I, Bondy B, Morikawa H (2016) Differential dopamine regulation of Ca(2+) signaling and its timing dependence in the nucleus accumbens. Cell Rep 15(3):563–573
Article
CAS
PubMed
PubMed Central
Google Scholar
Thompson LH, Bjorklund A (2015) Reconstruction of brain circuitry by neural transplants generated from pluripotent stem cells. Neurobiol Dis 79:28–40
Article
CAS
PubMed
Google Scholar
Tofaris GK (2012) Lysosome-dependent pathways as a unifying theme in Parkinson’s disease. Mov Disord 27(11):1364–1369
Article
CAS
PubMed
Google Scholar
Tyc J, Klingbeil MM, Lukes J (2015) Mitochondrial heat shock protein machinery hsp70/hsp40 is indispensable for proper mitochondrial DNA maintenance and replication. mBio 6(1):e02425–14.
Uhrigshardt H, Singh A, Kovtunovych G, Ghosh M, Rouault TA (2010) Characterization of the human HSC20, an unusual DnaJ type III protein, involved in iron-sulfur cluster biogenesis. Hum Mol Genet 19(19):3816–3834
Article
CAS
PubMed
PubMed Central
Google Scholar
Valente EM, Abou-Sleiman PM, Caputo V, Muqit MM, Harvey K, Gispert S, Ali Z, Del Turco D, Bentivoglio AR, Healy DG, Albanese A, Nussbaum R, Gonzalez-Maldonado R, Deller T, Salvi S, Cortelli P, Gilks WP, Latchman DS, Harvey RJ, Dallapiccola B, Auburger G, Wood NW (2004) Hereditary early-onset Parkinson’s disease caused by mutations in PINK1. Science 304(5674):1158–1160
Article
CAS
PubMed
Google Scholar
Vargas KJ, Makani S, Davis T, Westphal CH, Castillo PE, Chandra SS (2014) Synucleins regulate the kinetics of synaptic vesicle endocytosis. J Neurosci 34(28):9364–9376
Article
PubMed
PubMed Central
CAS
Google Scholar
Visanji N, Marras C (2015) The relevance of pre-motor symptoms in Parkinson’s disease. Expert Rev Neurother 15(10):1205–1217
Article
CAS
PubMed
Google Scholar
Wes PD, Holtman IR, Boddeke EW, Moller T, Eggen BJ (2016) Next generation transcriptomics and genomics elucidate biological complexity of microglia in health and disease. Glia 64(2):197–213
Article
PubMed
Google Scholar
Winden KD, Oldham MC, Mirnics K, Ebert PJ, Swan CH, Levitt P, Rubenstein JL, Horvath S, Geschwind DH (2009) The organization of the transcriptional network in specific neuronal classes. Mol Syst Biol 5:291
Article
PubMed
PubMed Central
CAS
Google Scholar
Wiwatwattana N, Landau CM, Cope GJ, Harp GA, Kumar A (2007) Organelle DB: an updated resource of eukaryotic protein localization and function. Nucleic Acids Res 35(Database issue):D810–D814
Article
CAS
PubMed
Google Scholar
Xilouri M, Brekk OR, Stefanis L (2016) Autophagy and alpha-synuclein: relevance to Parkinson’s disease and related synucleopathies. Mov Disord 31(2):178–192
Article
CAS
PubMed
Google Scholar
Xilouri M, Stefanis L (2011) Autophagic pathways in Parkinson disease and related disorders. Expert Rev Mol Med 13:e8
Article
PubMed
CAS
Google Scholar
Xu X, Wells AB, O’Brien DR, Nehorai A, Dougherty JD (2014) Cell type-specific expression analysis to identify putative cellular mechanisms for neurogenetic disorders. J Neurosci 34(4):1420–1431
Article
CAS
PubMed
PubMed Central
Google Scholar
Yu G, Smith DK, Zhu H, Guan Y, Lam TT (2016) ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. Methods Ecol Evol 8(1):28–36. http://dx.doi.org/10.1111/2041-210x.12628
Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O’Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T, Barres BA, Wu JQ (2014) An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. J Neurosci 34(36):11929–11947
Article
CAS
PubMed
PubMed Central
Google Scholar
Zhang H, Duan C, Yang H (2015) Defective autophagy in Parkinson’s disease: lessons from genetics. Mol Neurobiol 51(1):89–104
Article
CAS
PubMed
Google Scholar
Zhang B, Gaiteri C, Bodea LG, Wang Z, McElwee J, Podtelezhnikov AA, Zhang C, Xie T, Tran L, Dobrin R, Fluder E, Clurman B, Melquist S, Narayanan M, Suver C, Shah H, Mahajan M, Gillis T, Mysore J, MacDonald ME, Lamb JR, Bennett DA, Molony C, Stone DJ, Gudnason V, Myers AJ, Schadt EE, Neumann H, Zhu J, Emilsson V (2013) Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer’s disease. Cell 153(3):707–720
Article
CAS
PubMed
PubMed Central
Google Scholar
Zhou B, Cai Q, Xie Y, Sheng ZH (2012) Snapin recruits dynein to BDNF-TrkB signaling endosomes for retrograde axonal transport and is essential for dendrite growth of cortical neurons. Cell Rep 2(1):42–51
Article
CAS
PubMed
PubMed Central
Google Scholar
Zou X, Ci HL, Chen W, Li YP (2006) [Cloning and expression analysis of human N-acetyltransferase doman containing gene hNATL]. Fen Zi Xi Bao Sheng Wu Xue Bao 39(1):22–28
CAS
PubMed
Google Scholar