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Chris Gaiteri

TitleAssistant Professor
InstitutionRush University, Rush Medical College
DepartmentNeurological Sciences
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    Collapse Biography 
    Collapse awards and honors
    2008 - 2010Clinical and Translational Neuroscience Pre-doc Fellowship , Graduate
    2007Scholarship to Woods Hole Computational Neuroscience course, Graduate
    2001 - 2005William C. Dyer Scholar, Undergraduate
    2001 - 2005George Washington Honor Scholar (full scholarship), Undergraduate
    2002Elected to University Scholars (honors program), Undergraduate
    2001AP Scholar with Honor, High school
    2000National Merit Scholar, High school

    Collapse Overview 
    Collapse overview
    How do interaction networks at the levels of genes, proteins and cells support healthy cognitive function? How do semi-independent regulatory systems such as epigenetics, chromosome configuration, miRNA and transcription factors combine to support homeostasis? How do biological networks that operate on vastly different spatial and temporal scales, mesh together seamlessly? Are there collective network “signatures” of disease? How does the connectivity of a network condition its dynamics? How can we use network insights to identify key mediators of pathology?

    Chris Gaiteri, PhD, is interested in answering these questions, and in the context of Alzheimer’s disease uses several types of omics data to identify networks of molecules that are closely related to brain pathology. He has also used related approaches to study major depression and schizophrenia. Living in between computation and biology is a tricky place, so he’s always on the lookout for collaborators. Feel free to email and stop by and discuss how a network approach may benefit your research.

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Sasse A, Ng B, Spiro AE, Tasaki S, Bennett DA, Gaiteri C, De Jager PL, Chikina M, Mostafavi S. Benchmarking of deep neural networks for predicting personal gene expression from DNA sequence highlights shortcomings. Nat Genet. 2023 Dec; 55(12):2060-2064. PMID: 38036778.
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    2. Seidlitz J, Mallard TT, Vogel JW, Lee YH, Warrier V, Ball G, Hansson O, Hernandez LM, Mandal AS, Wagstyl K, Lombardo MV, Courchesne E, Glessner JT, Satterthwaite TD, Bethlehem RAI, Bernstock JD, Tasaki S, Ng B, Gaiteri C, Smoller JW, Ge T, Gur RE, Gandal MJ, Alexander-Bloch AF. The molecular genetic landscape of human brain size variation. Cell Rep. 2023 Nov 28; 42(11):113439. PMID: 37963017.
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    3. Kearns NA, Iatrou A, Flood DJ, De Tissera S, Mullaney ZM, Xu J, Gaiteri C, Bennett DA, Wang Y. Dissecting the human leptomeninges at single-cell resolution. Nat Commun. 2023 11 03; 14(1):7036. PMID: 37923721.
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    4. Gaiteri C, Connell DR, Sultan FA, Iatrou A, Ng B, Szymanski BK, Zhang A, Tasaki S. Robust, scalable, and informative clustering for diverse biological networks. Genome Biol. 2023 10 12; 24(1):228. PMID: 37828545.
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    5. Sasse A, Ng B, Spiro AE, Tasaki S, Bennett DA, Gaiteri C, De Jager PL, Chikina M, Mostafavi S. Benchmarking of deep neural networks for predicting personal gene expression from DNA sequence highlights shortcomings. bioRxiv. 2023 Sep 28. PMID: 36993652.
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    6. Mandviwalla A, Elsisy A, Atique MS, Kuzmin K, Gaiteri C, Szymanski BK. Network Analytics Enabled by Generating a Pool of Network Variants from Noisy Data. Entropy (Basel). 2023 Jul 26; 25(8). PMID: 37628148.
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    7. Ng B, Tasaki S, Greathouse KM, Walker CK, Zhang A, Covitz S, Cieslak M, Adamson AB, Andrade JP, Poovey EH, Curtis KA, Muhammad HM, Seidlitz J, Satterthwaite T, Bennett DA, Seyfried NT, Vogel J, Gaiteri C, Herskowitz JH. A Molecular Basis of Human Brain Connectivity. bioRxiv. 2023 Jul 24. PMID: 37546752.
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    8. Thrush KL, Bennett DA, Gaiteri C, Horvath S, Dyck CHV, Higgins-Chen AT, Levine ME. Aging the brain: multi-region methylation principal component based clock in the context of Alzheimer's disease. Aging (Albany NY). 2022 07 30; 14(14):5641-5668. PMID: 35907208.
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    9. Tasaki S, Xu J, Avey DR, Johnson L, Petyuk VA, Dawe RJ, Bennett DA, Wang Y, Gaiteri C. Inferring protein expression changes from mRNA in Alzheimer's dementia using deep neural networks. Nat Commun. 2022 02 03; 13(1):655. PMID: 35115553.
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    10. Johnson ECB, Carter EK, Dammer EB, Duong DM, Gerasimov ES, Liu Y, Liu J, Betarbet R, Ping L, Yin L, Serrano GE, Beach TG, Peng J, De Jager PL, Haroutunian V, Zhang B, Gaiteri C, Bennett DA, Gearing M, Wingo TS, Wingo AP, Lah JJ, Levey AI, Seyfried NT. Large-scale deep multi-layer analysis of Alzheimer's disease brain reveals strong proteomic disease-related changes not observed at the RNA level. Nat Neurosci. 2022 02; 25(2):213-225. PMID: 35115731.
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    11. Ng B, Casazza W, Kim NH, Wang C, Farhadi F, Tasaki S, Bennett DA, De Jager PL, Gaiteri C, Mostafavi S. Cascading epigenomic analysis for identifying disease genes from the regulatory landscape of GWAS variants. PLoS Genet. 2021 11; 17(11):e1009918. PMID: 34807913.
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    12. Lagomarsino VN, Pearse RV, Liu L, Hsieh YC, Fernandez MA, Vinton EA, Paull D, Felsky D, Tasaki S, Gaiteri C, Vardarajan B, Lee H, Muratore CR, Benoit CR, Chou V, Fancher SB, He A, Merchant JP, Duong DM, Martinez H, Zhou M, Bah F, Vicent MA, Stricker JMS, Xu J, Dammer EB, Levey AI, Chibnik LB, Menon V, Seyfried NT, De Jager PL, Noggle S, Selkoe DJ, Bennett DA, Young-Pearse TL. Stem cell-derived neurons reflect features of protein networks, neuropathology, and cognitive outcome of their aged human donors. Neuron. 2021 11 03; 109(21):3402-3420.e9. PMID: 34473944.
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    13. Buchman AS, Yu L, Oveisgharan S, Petyuk VA, Tasaki S, Gaiteri C, Wilson RS, Grodstein F, Schneider JA, Klein HU, De Jager PL, Bennett DA. Cortical proteins may provide motor resilience in older adults. Sci Rep. 2021 05 28; 11(1):11311. PMID: 34050212.
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    14. Patrick E, Olah M, Taga M, Klein HU, Xu J, White CC, Felsky D, Agrawal S, Gaiteri C, Chibnik LB, Mostafavi S, Schneider JA, Bennett DA, Bradshaw EM, De Jager PL. A cortical immune network map identifies distinct microglial transcriptional programs associated with ?-amyloid and Tau pathologies. Transl Psychiatry. 2021 01 14; 11(1):50. PMID: 33446646.
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    15. Patrick E, Taga M, Ergun A, Ng B, Casazza W, Cimpean M, Yung C, Schneider JA, Bennett DA, Gaiteri C, De Jager PL, Bradshaw EM, Mostafavi S. Deconvolving the contributions of cell-type heterogeneity on cortical gene expression. PLoS Comput Biol. 2020 08; 16(8):e1008120. PMID: 32804935.
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    16. Heuer SE, Neuner SM, Hadad N, O'Connell KMS, Williams RW, Philip VM, Gaiteri C, Kaczorowski CC. Identifying the molecular systems that influence cognitive resilience to Alzheimer's disease in genetically diverse mice. Learn Mem. 2020 09; 27(9):355-371. PMID: 32817302.
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    17. Wan YW, Al-Ouran R, Mangleburg CG, Perumal TM, Lee TV, Allison K, Swarup V, Funk CC, Gaiteri C, Allen M, Wang M, Neuner SM, Kaczorowski CC, Philip VM, Howell GR, Martini-Stoica H, Zheng H, Mei H, Zhong X, Kim JW, Dawson VL, Dawson TM, Pao PC, Tsai LH, Haure-Mirande JV, Ehrlich ME, Chakrabarty P, Levites Y, Wang X, Dammer EB, Srivastava G, Mukherjee S, Sieberts SK, Omberg L, Dang KD, Eddy JA, Snyder P, Chae Y, Amberkar S, Wei W, Hide W, Preuss C, Ergun A, Ebert PJ, Airey DC, Mostafavi S, Yu L, Klein HU, Carter GW, Collier DA, Golde TE, Levey AI, Bennett DA, Estrada K, Townsend TM, Zhang B, Schadt E, De Jager PL, Price ND, Ertekin-Taner N, Liu Z, Shulman JM, Mangravite LM, Logsdon BA. Meta-Analysis of the Alzheimer's Disease Human Brain Transcriptome and Functional Dissection in Mouse Models. Cell Rep. 2020 07 14; 32(2):107908. PMID: 32668255.
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    18. Tasaki S, Gaiteri C, Mostafavi S, Wang Y. Deep learning decodes the principles of differential gene expression. Nat Mach Intell. 2020 Jul; 2(7):376-386. PMID: 32671330.
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    19. Yang HS, White CC, Klein HU, Yu L, Gaiteri C, Ma Y, Felsky D, Mostafavi S, Petyuk VA, Sperling RA, Ertekin-Taner N, Schneider JA, Bennett DA, De Jager PL. Genetics of Gene Expression in the Aging Human Brain Reveal TDP-43 Proteinopathy Pathophysiology. Neuron. 2020 08 05; 107(3):496-508.e6. PMID: 32526197.
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    20. Geerts H, Wikswo J, van der Graaf PH, Bai JPF, Gaiteri C, Bennett D, Swalley SE, Schuck E, Kaddurah-Daouk R, Tsaioun K, Pelleymounter M. Quantitative Systems Pharmacology for Neuroscience Drug Discovery and Development: Current Status, Opportunities, and Challenges. CPT Pharmacometrics Syst Pharmacol. 2020 01; 9(1):5-20. PMID: 31674729.
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    21. Tasaki S, Gaiteri C, Petyuk VA, Blizinsky KD, De Jager PL, Buchman AS, Bennett DA. Genetic risk for Alzheimer's dementia predicts motor deficits through multi-omic systems in older adults. Transl Psychiatry. 2019 10 03; 9(1):241. PMID: 31582723.
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    22. Ng B, Casazza W, Patrick E, Tasaki S, Novakovsky G, Felsky D, Ma Y, Bennett DA, Gaiteri C, De Jager PL, Mostafavi S. Using Transcriptomic Hidden Variables to Infer Context-Specific Genotype Effects in the Brain. Am J Hum Genet. 2019 09 05; 105(3):562-572. PMID: 31447098.
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    23. Buchman AS, Yu L, Petyuk VA, Gaiteri C, Tasaki S, Blizinsky KD, Schneider JA, De Jager PL, Bennett DA. Cognition may link cortical IGFBP5 levels with motor function in older adults. PLoS One. 2019; 14(8):e0220968. PMID: 31404102.
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    24. Gaiteri C, Dawe R, Mostafavi S, Blizinsky KD, Tasaki S, Komashko V, Yu L, Wang Y, Schneider JA, Arfanakis K, De Jager PL, Bennett DA. Gene expression and DNA methylation are extensively coordinated with MRI-based brain microstructural characteristics. Brain Imaging Behav. 2019 Aug; 13(4):963-972. PMID: 29934819.
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    25. Kim N, Yu L, Dawe R, Petyuk VA, Gaiteri C, De Jager PL, Schneider JA, Arfanakis K, Bennett DA. Microstructural changes in the brain mediate the association of AK4, IGFBP5, HSPB2, and ITPK1 with cognitive decline. Neurobiol Aging. 2019 12; 84:17-25. PMID: 31479860.
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    26. Yu L, Petyuk VA, Tasaki S, Boyle PA, Gaiteri C, Schneider JA, De Jager PL, Bennett DA. Association of Cortical ?-Amyloid Protein in the Absence of Insoluble Deposits With Alzheimer Disease. JAMA Neurol. 2019 07 01; 76(7):818-826. PMID: 31009033.
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    27. Buchman AS, Yu L, Wilson RS, Lim A, Dawe RJ, Gaiteri C, Leurgans SE, Schneider JA, Bennett DA. Physical activity, common brain pathologies, and cognition in community-dwelling older adults. Neurology. 2019 02 19; 92(8):e811-e822. PMID: 30651386.
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    28. Lamar M, Yu L, Rubin LH, James BD, Barnes LL, Farfel JM, Gaiteri C, Buchman AS, Bennett DA, Schneider JA. APOE genotypes as a risk factor for age-dependent accumulation of cerebrovascular disease in older adults. Alzheimers Dement. 2019 02; 15(2):258-266. PMID: 30321502.
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    29. Tasaki S, Gaiteri C, Mostafavi S, De Jager PL, Bennett DA. The Molecular and Neuropathological Consequences of Genetic Risk for Alzheimer's Dementia. Front Neurosci. 2018; 12:699. PMID: 30349450.
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    30. Lim ASP, Gaiteri C, Yu L, Sohail S, Swardfager W, Tasaki S, Schneider JA, Paquet C, Stuss DT, Masellis M, Black SE, Hugon J, Buchman AS, Barnes LL, Bennett DA, De Jager PL. Seasonal plasticity of cognition and related biological measures in adults with and without Alzheimer disease: Analysis of multiple cohorts. PLoS Med. 2018 09; 15(9):e1002647. PMID: 30180184.
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    31. Tasaki S, Gaiteri C, Mostafavi S, Yu L, Wang Y, De Jager PL, Bennett DA. Multi-omic Directed Networks Describe Features of Gene Regulation in Aged Brains and Expand the Set of Genes Driving Cognitive Decline. Front Genet. 2018; 9:294. PMID: 30140277.
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    32. De Jager PL, Ma Y, McCabe C, Xu J, Vardarajan BN, Felsky D, Klein HU, White CC, Peters MA, Lodgson B, Nejad P, Tang A, Mangravite LM, Yu L, Gaiteri C, Mostafavi S, Schneider JA, Bennett DA. A multi-omic atlas of the human frontal cortex for aging and Alzheimer's disease research. Sci Data. 2018 08 07; 5:180142. PMID: 30084846.
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    33. Felsky D, Patrick E, Schneider JA, Mostafavi S, Gaiteri C, Patsopoulos N, Bennett DA, De Jager PL. Polygenic analysis of inflammatory disease variants and effects on microglia in the aging brain. Mol Neurodegener. 2018 07 24; 13(1):38. PMID: 30041668.
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    34. Yu L, Petyuk VA, Gaiteri C, Mostafavi S, Young-Pearse T, Shah RC, Buchman AS, Schneider JA, Piehowski PD, Sontag RL, Fillmore TL, Shi T, Smith RD, De Jager PL, Bennett DA. Targeted brain proteomics uncover multiple pathways to Alzheimer's dementia. Ann Neurol. 2018 07; 84(1):78-88. PMID: 29908079.
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    35. Mostafavi S, Gaiteri C, Sullivan SE, White CC, Tasaki S, Xu J, Taga M, Klein HU, Patrick E, Komashko V, McCabe C, Smith R, Bradshaw EM, Root DE, Regev A, Yu L, Chibnik LB, Schneider JA, Young-Pearse TL, Bennett DA, De Jager PL. A molecular network of the aging human brain provides insights into the pathology and cognitive decline of Alzheimer's disease. Nat Neurosci. 2018 06; 21(6):811-819. PMID: 29802388.
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    36. Oveisgharan S, Buchman AS, Yu L, Farfel J, Hachinski V, Gaiteri C, De Jager PL, Schneider JA, Bennett DA. APOE e2e4 genotype, incident AD and MCI, cognitive decline, and AD pathology in older adults. Neurology. 2018 06 12; 90(24):e2127-e2134. PMID: 29752306.
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    37. Dawe RJ, Leurgans SE, Yang J, Bennett JM, Hausdorff JM, Lim AS, Gaiteri C, Bennett DA, Buchman AS. Association Between Quantitative Gait and Balance Measures and Total Daily Physical Activity in Community-Dwelling Older Adults. J Gerontol A Biol Sci Med Sci. 2018 04 17; 73(5):636-642. PMID: 28957994.
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    38. Yu L, Dawe RJ, Boyle PA, Gaiteri C, Yang J, Buchman AS, Schneider JA, Arfanakis K, De Jager PL, Bennett DA. Association Between Brain Gene Expression, DNA Methylation, and Alteration of Ex Vivo Magnetic Resonance Imaging Transverse Relaxation in Late-Life Cognitive Decline. JAMA Neurol. 2017 12 01; 74(12):1473-1480. PMID: 29084334.
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    39. Ng B, White CC, Klein HU, Sieberts SK, McCabe C, Patrick E, Xu J, Yu L, Gaiteri C, Bennett DA, Mostafavi S, De Jager PL. An xQTL map integrates the genetic architecture of the human brain's transcriptome and epigenome. Nat Neurosci. 2017 Oct; 20(10):1418-1426. PMID: 28869584.
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    40. Yu L, Lutz MW, Wilson RS, Burns DK, Roses AD, Saunders AM, Yang J, Gaiteri C, De Jager PL, Barnes LL, Bennett DA. APOE e4-TOMM40 '523 haplotypes and the risk of Alzheimer's disease in older Caucasian and African Americans. PLoS One. 2017; 12(7):e0180356. PMID: 28672022.
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    41. Yu L, Lutz MW, Wilson RS, Burns DK, Roses AD, Saunders AM, Gaiteri C, De Jager PL, Barnes LL, Bennett DA. TOMM40'523 variant and cognitive decline in older persons with APOE e3/3 genotype. Neurology. 2017 Feb 14; 88(7):661-668. PMID: 28108637.
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    42. Kuzmin K, Lu X, Mukherjee PS, Zhuang J, Gaiteri C, Szymanski BK. Supporting novel biomedical research via multilayer collaboration networks. Appl Netw Sci. 2016; 1(1):11. PMID: 30533503.
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    43. Gaiteri C, Mostafavi S, Honey CJ, De Jager PL, Bennett DA. Genetic variants in Alzheimer disease - molecular and brain network approaches. Nat Rev Neurol. 2016 07; 12(7):413-27. PMID: 27282653.
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    44. Gaiteri C, Chen M, Szymanski B, Kuzmin K, Xie J, Lee C, Blanche T, Chaibub Neto E, Huang SC, Grabowski T, Madhyastha T, Komashko V. Identifying robust communities and multi-community nodes by combining top-down and bottom-up approaches to clustering. Sci Rep. 2015 Nov 09; 5:16361. PMID: 26549511.
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    45. Yang J, Yu L, Gaiteri C, Srivastava GP, Chibnik LB, Leurgans SE, Schneider JA, Meissner A, De Jager PL, Bennett DA. Association of DNA methylation in the brain with age in older persons is confounded by common neuropathologies. Int J Biochem Cell Biol. 2015 Oct; 67:58-64. PMID: 26003740.
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    46. Tasaki S, Sauerwine B, Hoff B, Toyoshiba H, Gaiteri C, Chaibub Neto E. Bayesian network reconstruction using systems genetics data: comparison of MCMC methods. Genetics. 2015 Apr; 199(4):973-89. PMID: 25631319.
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    47. Nichols TW, Gaiteri C. Morton's foot and pyridoxal 5'-phosphate deficiency: genetically linked traits. Med Hypotheses. 2014 Dec; 83(6):644-8. PMID: 25441836.
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    48. Gaiteri C, Ding Y, French B, Tseng GC, Sibille E. Beyond modules and hubs: the potential of gene coexpression networks for investigating molecular mechanisms of complex brain disorders. Genes Brain Behav. 2014 Jan; 13(1):13-24. PMID: 24320616.
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    49. 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. Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer's disease. Cell. 2013 Apr 25; 153(3):707-20. PMID: 23622250.
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    50. Giraldo M, Lopera F, Siniard AL, Corneveaux JJ, Schrauwen I, Carvajal J, Mu?oz C, Ramirez-Restrepo M, Gaiteri C, Myers AJ, Caselli RJ, Kosik KS, Reiman EM, Huentelman MJ. Variants in triggering receptor expressed on myeloid cells 2 are associated with both behavioral variant frontotemporal lobar degeneration and Alzheimer's disease. Neurobiol Aging. 2013 Aug; 34(8):2077.e11-8. PMID: 23582655.
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    51. Gaiteri C, Sibille E. Differentially expressed genes in major depression reside on the periphery of resilient gene coexpression networks. Front Neurosci. 2011; 5:95. PMID: 21922000.
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    52. Gaiteri C, Rubin JE. The interaction of intrinsic dynamics and network topology in determining network burst synchrony. Front Comput Neurosci. 2011; 5:10. PMID: 21373358.
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    53. Gaiteri C, Guilloux JP, Lewis DA, Sibille E. Altered gene synchrony suggests a combined hormone-mediated dysregulated state in major depression. PLoS One. 2010 Apr 01; 5(4):e9970. PMID: 20376317.
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    54. Guilloux JP, Gaiteri C, Sibille E. Network analysis of positional candidate genes of schizophrenia highlights...more than... myelin-related pathways. Mol Psychiatry. 2010 Aug; 15(8):786-8. PMID: 20351722.
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    55. Sibille E, Wang Y, Joeyen-Waldorf J, Gaiteri C, Surget A, Oh S, Belzung C, Tseng GC, Lewis DA. A molecular signature of depression in the amygdala. Am J Psychiatry. 2009 Sep; 166(9):1011-24. PMID: 19605536.
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