Literature DB >> 31932096

Omics in Neurodegenerative Disease: Hope or Hype?

Maria E Diaz-Ortiz1, Alice S Chen-Plotkin2.   

Abstract

The past 15 years have seen a boom in the use and integration of 'omic' approaches (limited here to genomic, transcriptomic, and epigenomic techniques) to study neurodegenerative disease in an unprecedented way. We first highlight advances in and the limitations of using such approaches in the neurodegenerative disease literature, with a focus on Alzheimer's disease (AD), Parkinson's disease (PD), frontotemporal lobar degeneration (FTLD), and amyotrophic lateral sclerosis (ALS). We next discuss how these studies can advance human health in the form of generating leads for downstream mechanistic investigation or yielding polygenic risk scores (PRSs) for prognostication. However, we argue that these approaches constitute a new form of molecular description, analogous to clinical or pathological description, that alone does not hold the key to solving these complex diseases.
Copyright © 2019 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  epigenomic; genomic; neurodegeneration; transcriptomic

Mesh:

Year:  2020        PMID: 31932096      PMCID: PMC7065657          DOI: 10.1016/j.tig.2019.12.002

Source DB:  PubMed          Journal:  Trends Genet        ISSN: 0168-9525            Impact factor:   11.639


  58 in total

1.  TMEM106B Effect on cognition in Parkinson disease and frontotemporal dementia.

Authors:  Thomas F Tropea; Jordan Mak; Michael H Guo; Sharon X Xie; Eunran Suh; Jacqueline Rick; Andrew Siderowf; Daniel Weintraub; Murray Grossman; David Irwin; David A Wolk; John Q Trojanowski; Vivianna Van Deerlin; Alice S Chen-Plotkin
Journal:  Ann Neurol       Date:  2019-06       Impact factor: 10.422

2.  Mutation in the alpha-synuclein gene identified in families with Parkinson's disease.

Authors:  M H Polymeropoulos; C Lavedan; E Leroy; S E Ide; A Dehejia; A Dutra; B Pike; H Root; J Rubenstein; R Boyer; E S Stenroos; S Chandrasekharappa; A Athanassiadou; T Papapetropoulos; W G Johnson; A M Lazzarini; R C Duvoisin; G Di Iorio; L I Golbe; R L Nussbaum
Journal:  Science       Date:  1997-06-27       Impact factor: 47.728

Review 3.  The Post-GWAS Era: From Association to Function.

Authors:  Michael D Gallagher; Alice S Chen-Plotkin
Journal:  Am J Hum Genet       Date:  2018-05-03       Impact factor: 11.025

4.  Risk genotypes at TMEM106B are associated with cognitive impairment in amyotrophic lateral sclerosis.

Authors:  Ryan Vass; Emily Ashbridge; Felix Geser; William T Hu; Murray Grossman; Dana Clay-Falcone; Lauren Elman; Leo McCluskey; Virginia M Y Lee; Vivianna M Van Deerlin; John Q Trojanowski; Alice S Chen-Plotkin
Journal:  Acta Neuropathol       Date:  2010-11-23       Impact factor: 17.088

5.  Loss of TMEM106B Ameliorates Lysosomal and Frontotemporal Dementia-Related Phenotypes in Progranulin-Deficient Mice.

Authors:  Zoe A Klein; Hideyuki Takahashi; Mengxiao Ma; Massimiliano Stagi; Melissa Zhou; TuKiet T Lam; Stephen M Strittmatter
Journal:  Neuron       Date:  2017-07-19       Impact factor: 17.173

6.  Common variants at 7p21 are associated with frontotemporal lobar degeneration with TDP-43 inclusions.

Authors:  Vivianna M Van Deerlin; Patrick M A Sleiman; Maria Martinez-Lage; Alice Chen-Plotkin; Li-San Wang; Neill R Graff-Radford; Dennis W Dickson; Rosa Rademakers; Bradley F Boeve; Murray Grossman; Steven E Arnold; David M A Mann; Stuart M Pickering-Brown; Harro Seelaar; Peter Heutink; John C van Swieten; Jill R Murrell; Bernardino Ghetti; Salvatore Spina; Jordan Grafman; John Hodges; Maria Grazia Spillantini; Sid Gilman; Andrew P Lieberman; Jeffrey A Kaye; Randall L Woltjer; Eileen H Bigio; Marsel Mesulam; Safa Al-Sarraj; Claire Troakes; Roger N Rosenberg; Charles L White; Isidro Ferrer; Albert Lladó; Manuela Neumann; Hans A Kretzschmar; Christine Marie Hulette; Kathleen A Welsh-Bohmer; Bruce L Miller; Ainhoa Alzualde; Adolfo Lopez de Munain; Ann C McKee; Marla Gearing; Allan I Levey; James J Lah; John Hardy; Jonathan D Rohrer; Tammaryn Lashley; Ian R A Mackenzie; Howard H Feldman; Ronald L Hamilton; Steven T Dekosky; Julie van der Zee; Samir Kumar-Singh; Christine Van Broeckhoven; Richard Mayeux; Jean Paul G Vonsattel; Juan C Troncoso; Jillian J Kril; John B J Kwok; Glenda M Halliday; Thomas D Bird; Paul G Ince; Pamela J Shaw; Nigel J Cairns; John C Morris; Catriona Ann McLean; Charles DeCarli; William G Ellis; Stefanie H Freeman; Matthew P Frosch; John H Growdon; Daniel P Perl; Mary Sano; David A Bennett; Julie A Schneider; Thomas G Beach; Eric M Reiman; Bryan K Woodruff; Jeffrey Cummings; Harry V Vinters; Carol A Miller; Helena C Chui; Irina Alafuzoff; Päivi Hartikainen; Danielle Seilhean; Douglas Galasko; Eliezer Masliah; Carl W Cotman; M Teresa Tuñón; M Cristina Caballero Martínez; David G Munoz; Steven L Carroll; Daniel Marson; Peter F Riederer; Nenad Bogdanovic; Gerard D Schellenberg; Hakon Hakonarson; John Q Trojanowski; Virginia M-Y Lee
Journal:  Nat Genet       Date:  2010-02-14       Impact factor: 38.330

7.  Common variants at MS4A4/MS4A6E, CD2AP, CD33 and EPHA1 are associated with late-onset Alzheimer's disease.

Authors:  Adam C Naj; Gyungah Jun; Gary W Beecham; Li-San Wang; Badri Narayan Vardarajan; Jacqueline Buros; Paul J Gallins; Joseph D Buxbaum; Gail P Jarvik; Paul K Crane; Eric B Larson; Thomas D Bird; Bradley F Boeve; Neill R Graff-Radford; Philip L De Jager; Denis Evans; Julie A Schneider; Minerva M Carrasquillo; Nilufer Ertekin-Taner; Steven G Younkin; Carlos Cruchaga; John S K Kauwe; Petra Nowotny; Patricia Kramer; John Hardy; Matthew J Huentelman; Amanda J Myers; Michael M Barmada; F Yesim Demirci; Clinton T Baldwin; Robert C Green; Ekaterina Rogaeva; Peter St George-Hyslop; Steven E Arnold; Robert Barber; Thomas Beach; Eileen H Bigio; James D Bowen; Adam Boxer; James R Burke; Nigel J Cairns; Chris S Carlson; Regina M Carney; Steven L Carroll; Helena C Chui; David G Clark; Jason Corneveaux; Carl W Cotman; Jeffrey L Cummings; Charles DeCarli; Steven T DeKosky; Ramon Diaz-Arrastia; Malcolm Dick; Dennis W Dickson; William G Ellis; Kelley M Faber; Kenneth B Fallon; Martin R Farlow; Steven Ferris; Matthew P Frosch; Douglas R Galasko; Mary Ganguli; Marla Gearing; Daniel H Geschwind; Bernardino Ghetti; John R Gilbert; Sid Gilman; Bruno Giordani; Jonathan D Glass; John H Growdon; Ronald L Hamilton; Lindy E Harrell; Elizabeth Head; Lawrence S Honig; Christine M Hulette; Bradley T Hyman; Gregory A Jicha; Lee-Way Jin; Nancy Johnson; Jason Karlawish; Anna Karydas; Jeffrey A Kaye; Ronald Kim; Edward H Koo; Neil W Kowall; James J Lah; Allan I Levey; Andrew P Lieberman; Oscar L Lopez; Wendy J Mack; Daniel C Marson; Frank Martiniuk; Deborah C Mash; Eliezer Masliah; Wayne C McCormick; Susan M McCurry; Andrew N McDavid; Ann C McKee; Marsel Mesulam; Bruce L Miller; Carol A Miller; Joshua W Miller; Joseph E Parisi; Daniel P Perl; Elaine Peskind; Ronald C Petersen; Wayne W Poon; Joseph F Quinn; Ruchita A Rajbhandary; Murray Raskind; Barry Reisberg; John M Ringman; Erik D Roberson; Roger N Rosenberg; Mary Sano; Lon S Schneider; William Seeley; Michael L Shelanski; Michael A Slifer; Charles D Smith; Joshua A Sonnen; Salvatore Spina; Robert A Stern; Rudolph E Tanzi; John Q Trojanowski; Juan C Troncoso; Vivianna M Van Deerlin; Harry V Vinters; Jean Paul Vonsattel; Sandra Weintraub; Kathleen A Welsh-Bohmer; Jennifer Williamson; Randall L Woltjer; Laura B Cantwell; Beth A Dombroski; Duane Beekly; Kathryn L Lunetta; Eden R Martin; M Ilyas Kamboh; Andrew J Saykin; Eric M Reiman; David A Bennett; John C Morris; Thomas J Montine; Alison M Goate; Deborah Blacker; Debby W Tsuang; Hakon Hakonarson; Walter A Kukull; Tatiana M Foroud; Jonathan L Haines; Richard Mayeux; Margaret A Pericak-Vance; Lindsay A Farrer; Gerard D Schellenberg
Journal:  Nat Genet       Date:  2011-04-03       Impact factor: 38.330

8.  RNAseq Analyses Identify Tumor Necrosis Factor-Mediated Inflammation as a Major Abnormality in ALS Spinal Cord.

Authors:  David G Brohawn; Laura C O'Brien; James P Bennett
Journal:  PLoS One       Date:  2016-08-03       Impact factor: 3.240

9.  A meta-analysis of genome-wide association studies identifies 17 new Parkinson's disease risk loci.

Authors:  Diana Chang; Mike A Nalls; Ingileif B Hallgrímsdóttir; Julie Hunkapiller; Marcel van der Brug; Fang Cai; Geoffrey A Kerchner; Gai Ayalon; Baris Bingol; Morgan Sheng; David Hinds; Timothy W Behrens; Andrew B Singleton; Tushar R Bhangale; Robert R Graham
Journal:  Nat Genet       Date:  2017-09-11       Impact factor: 38.330

10.  Meta-analysis of 74,046 individuals identifies 11 new susceptibility loci for Alzheimer's disease.

Authors:  J C Lambert; C A Ibrahim-Verbaas; D Harold; A C Naj; R Sims; C Bellenguez; A L DeStafano; J C Bis; G W Beecham; B Grenier-Boley; G Russo; T A Thorton-Wells; N Jones; A V Smith; V Chouraki; C Thomas; M A Ikram; D Zelenika; B N Vardarajan; Y Kamatani; C F Lin; A Gerrish; H Schmidt; B Kunkle; M L Dunstan; A Ruiz; M T Bihoreau; S H Choi; C Reitz; F Pasquier; C Cruchaga; D Craig; N Amin; C Berr; O L Lopez; P L De Jager; V Deramecourt; J A Johnston; D Evans; S Lovestone; L Letenneur; F J Morón; D C Rubinsztein; G Eiriksdottir; K Sleegers; A M Goate; N Fiévet; M W Huentelman; M Gill; K Brown; M I Kamboh; L Keller; P Barberger-Gateau; B McGuiness; E B Larson; R Green; A J Myers; C Dufouil; S Todd; D Wallon; S Love; E Rogaeva; J Gallacher; P St George-Hyslop; J Clarimon; A Lleo; A Bayer; D W Tsuang; L Yu; M Tsolaki; P Bossù; G Spalletta; P Proitsi; J Collinge; S Sorbi; F Sanchez-Garcia; N C Fox; J Hardy; M C Deniz Naranjo; P Bosco; R Clarke; C Brayne; D Galimberti; M Mancuso; F Matthews; S Moebus; P Mecocci; M Del Zompo; W Maier; H Hampel; A Pilotto; M Bullido; F Panza; P Caffarra; B Nacmias; J R Gilbert; M Mayhaus; L Lannefelt; H Hakonarson; S Pichler; M M Carrasquillo; M Ingelsson; D Beekly; V Alvarez; F Zou; O Valladares; S G Younkin; E Coto; K L Hamilton-Nelson; W Gu; C Razquin; P Pastor; I Mateo; M J Owen; K M Faber; P V Jonsson; O Combarros; M C O'Donovan; L B Cantwell; H Soininen; D Blacker; S Mead; T H Mosley; D A Bennett; T B Harris; L Fratiglioni; C Holmes; R F de Bruijn; P Passmore; T J Montine; K Bettens; J I Rotter; A Brice; K Morgan; T M Foroud; W A Kukull; D Hannequin; J F Powell; M A Nalls; K Ritchie; K L Lunetta; J S Kauwe; E Boerwinkle; M Riemenschneider; M Boada; M Hiltuenen; E R Martin; R Schmidt; D Rujescu; L S Wang; J F Dartigues; R Mayeux; C Tzourio; A Hofman; M M Nöthen; C Graff; B M Psaty; L Jones; J L Haines; P A Holmans; M Lathrop; M A Pericak-Vance; L J Launer; L A Farrer; C M van Duijn; C Van Broeckhoven; V Moskvina; S Seshadri; J Williams; G D Schellenberg; P Amouyel
Journal:  Nat Genet       Date:  2013-10-27       Impact factor: 38.330

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  9 in total

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Authors:  Junchao Shen; Noor Amari; Rebecca Zack; R Tyler Skrinak; Travis L Unger; Marijan Posavi; Thomas F Tropea; Sharon X Xie; Vivianna M Van Deerlin; Richard B Dewey; Daniel Weintraub; John Q Trojanowski; Alice S Chen-Plotkin
Journal:  Ann Neurol       Date:  2022-06-07       Impact factor: 11.274

Review 2.  Post-GWAS knowledge gap: the how, where, and when.

Authors:  Steven E Pierce; Alix Booms; Jordan Prahl; Edwin J C van der Schans; Trevor Tyson; Gerhard A Coetzee
Journal:  NPJ Parkinsons Dis       Date:  2020-09-09

3.  A molecular view of amyotrophic lateral sclerosis through the lens of interaction network modules.

Authors:  Klaus Højgaard Jensen; Anna Katharina Stalder; Rasmus Wernersson; Tim-Christoph Roloff-Handschin; Daniel Hvidberg Hansen; Peter M A Groenen
Journal:  PLoS One       Date:  2022-05-16       Impact factor: 3.752

Review 4.  SynBio and the Boundaries between Functional and Pathogenic RepA-WH1 Bacterial Amyloids.

Authors:  Rafael Giraldo
Journal:  mSystems       Date:  2020-06-30       Impact factor: 6.496

Review 5.  Neuroinflammation in Prion Disease.

Authors:  Bei Li; Meiling Chen; Caihong Zhu
Journal:  Int J Mol Sci       Date:  2021-02-23       Impact factor: 5.923

6.  Multi-parametric characterization of drug effects on cells.

Authors:  Yael Paran; Yuvalal Liron; Sarit Batsir; Nicola Mabjeesh; Benjamin Geiger; Zvi Kam
Journal:  F1000Res       Date:  2020-10-05

Review 7.  Evaluating Infectious, Neoplastic, Immunological, and Degenerative Diseases of the Central Nervous System with Cerebrospinal Fluid-Based Next-Generation Sequencing.

Authors:  Konstantinos I Tsamis; Hercules Sakkas; Alexandros Giannakis; Han Suk Ryu; Constantina Gartzonika; Ilias P Nikas
Journal:  Mol Diagn Ther       Date:  2021-03-01       Impact factor: 4.074

8.  Neurogenetic and Neuroepigenetic Mechanisms in Cognitive Health and Disease.

Authors:  Davide Martino Coda; Johannes Gräff
Journal:  Front Mol Neurosci       Date:  2020-12-03       Impact factor: 5.639

9.  Common Factors in Neurodegeneration: A Meta-Study Revealing Shared Patterns on a Multi-Omics Scale.

Authors:  Nicolas Ruffini; Susanne Klingenberg; Susann Schweiger; Susanne Gerber
Journal:  Cells       Date:  2020-12-08       Impact factor: 6.600

  9 in total

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