Microarray analysis of transcriptome of medulla identifies potential biomarkers for parkinson's disease

International Journal of Genomics

Volumn 2013, Issue , 2013, Pages

  Liao, Xiao Yang ^a   Wang, Wei Wen ^b   Yang, Zheng Hui ^b   Wang, Jun ^b   Lin, Hang ^b   Wang, Qing Song ^b   Wu, Yu Xian ^b   Liu, Yu ^b  

^a SICHUAN UNIVERSITY   (China)

^b Chengdu Military General Hospital   (China)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MARKER; MICRORNA; TRANSCRIPTOME;

APOPTOSIS; ARTICLE; BIOINFORMATICS; CELL PROLIFERATION; CONTROLLED STUDY; GENE EXPRESSION; GENE REGULATORY NETWORK; GENETIC SCREENING; HUMAN; HUMAN TISSUE; INFERIOR OLIVE; MACROMOLECULE; MICROARRAY ANALYSIS; MOTONEURON NUCLEUS; NUCLEOTIDE SEQUENCE; PARKINSON DISEASE; PRIORITY JOURNAL; REGULATORY MECHANISM; VAGUS NERVE;

EID: 84890037828     PISSN: 2314436X     EISSN: 23144378     Source Type: Journal    
DOI: 10.1155/2013/606919     Document Type: Article

References (45)

1. Phani S., Loike J. D., Przedborski S., Neurodegeneration and inflammation in Parkinson's disease. Parkinsonism and Related Disorders 2012 18 supplement 1 S207 S209 2-s2.0-84858650685
2. Hubble J. P., Cao T., Hassanein R. E. S., Neuberger J. S., Koller W. C., Risk factors for Parkinson's disease. Neurology 1993 43 9 1693 1697 2-s2.0-0027500761 (Pubitemid 23307937)
3. Ascherio A., Chen H., Weisskopf M. G., O'Reilly E., McCullough M. L., Calle E. E., Schwarzschild M. A., Thun M. J., Pesticide exposure and risk for Parkinson's disease. Annals of Neurology 2006 60 2 197 203 2-s2.0-33746803713 10.1002/ana.20904 (Pubitemid 44182394)
4. Gorell J. M., Johnson C. C., Rybicki B. A., Peterson E. L., Richardson R. J., The risk of Parkinson's disease with exposure to pesticides, farming, well water, and rural living. Neurology 1998 50 5 1346 1350 2-s2.0-0031843721 (Pubitemid 28240350)
5. Camargos S. T., Dornas L. O., Momeni P., Lees A., Hardy J., Singleton A., Cardoso F., Familial Parkinsonism and early onset Parkinson's disease in a Brazilian movement disorders clinic: phenotypic characterization and frequency of SNCA, PRKN, PINK1, and LRRK2 mutations. Movement Disorders 2009 24 5 662 666 2-s2.0-67651151297 10.1002/mds.22365
6. Chen C. Y.-C., Mechanism of BAG1 repair on Parkinson's disease-linked DJ1 mutation. Journal of Biomolecular Structure and Dynamics 2012 30 1 1 12
7. Junn E., Lee K.-W., Byeong S. J., Chan T. W., Im J.-Y., Mouradian M. M., Repression of α -synuclein expression and toxicity by microRNA-7. Proceedings of the National Academy of Sciences of the United States of America 2009 106 31 13052 13057 2-s2.0-69149102628 10.1073/pnas.0906277106
8. Doxakis E., Post-transcriptional regulation of α -synuclein expression by mir-7 and mir-153. Journal of Biological Chemistry 2010 285 17 12726 12734 2-s2.0-77951249562 10.1074/jbc.M109.086827
9. Filatova E., MicroRNAs: possible role in pathogenesis of Parkinson's disease. Biochemistry 2012 77 8 813 819
10. Braak H., Del Tredici K., Rüb U., de Vos R. A. I., Jansen Steur E. N. H., Braak E., Staging of brain pathology related to sporadic Parkinson's disease. Neurobiology of Aging 2003 24 2 197 211 2-s2.0-0037333666 10.1016/S0197-4580(02)00065-9 (Pubitemid 36007810)
11. Jubault T., Brambati S. M., Degroot C., Kullmann B., Strafella A. P., Lafontaine A.-L., Chouinard S., Monchi O., Regional brain stem atrophy in idiopathic Parkinson's disease detected by anatomical MRI. PloS one 2009 4 12 e8247 2-s2.0-77949503657
12. Korbel G. A., Lalic G., Shair M. D., Reaction microarrays: a method for rapidly determining the enantiomeric excess of thousands of samples [16]. Journal of the American Chemical Society 2001 123 2 361 362 2-s2.0-0035900973 10.1021/ja0034747 (Pubitemid 32062187)
13. Mandel S., Grünblatt E., Maor G., Youdim M. B. H., Early and late gene changes in MPTP mice model of Parkinson's disease employing cDNA microarray. Neurochemical Research 2002 27 10 1231 1243 2-s2.0-0036808013 10.1023/A:1020989812576 (Pubitemid 35316119)
14. Simunovic F., Yi M., Wang Y., Macey L., Brown L. T., Krichevsky A. M., Andersen S. L., Stephens R. M., Benes F. M., Sonntag K. C., Gene expression profiling of substantia nigra dopamine neurons: further insights into Parkinson's disease pathology. Brain 2009 132 7 1795 1809 2-s2.0-67650070391 10.1093/brain/awn323
15. Lewandowski N. M., Ju S., Verbitsky M., Ross B., Geddie M. L., Rockenstein E., Adame A., Muhammad A., Vonsattel J. P., Ringe D., Cote L., Lindquist S., Masliah E., Petsko G. A., Marder K., Clark L. N., Small S. A., Polyamine pathway contributes to the pathogenesis of Parkinson disease. Proceedings of the National Academy of Sciences of the United States of America 2010 107 39 16970 16975 2-s2.0-78049272757 10.1073/pnas.1011751107
16. Edgar R., Domrachev M., Lash A. E., Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Research 2002 30 1 207 210 2-s2.0-0036081355 (Pubitemid 34679544)
17. Troyanskaya O., Cantor M., Sherlock G., Brown P., Hastie T., Tibshirani R., Botstein D., Altman R. B., Missing value estimation methods for DNA microarrays. Bioinformatics 2001 17 6 520 525 2-s2.0-0034960264 (Pubitemid 32600498)
18. Fujita A., Sato J. R., de Oliveira Rodrigues L., Ferreira C. E., Sogayar M. C., Evaluating different methods of microarray data normalization. BMC Bioinformatics 2006 7 1 469 2-s2.0-33751161871 10.1186/1471-2105-7-469 (Pubitemid 44773838)
19. Smyth G. K., Limma: Linear Models For Microarray Data, in BioinFormatics and Computational Biology Solutions Using R and Bioconductor 2005 Springer
20. Huang D. W., Sherman B. T., Lempicki R. A., Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nature Protocols 2009 4 1 44 57 2-s2.0-61449172037 10.1038/nprot.2008.211
21. Zhang B., Kirov S., Snoddy J., WebGestalt: an integrated system for exploring gene sets in various biological contexts. Nucleic Acids Research 2005 33 supplement 2 W741 W748 2-s2.0-23144464901 10.1093/nar/gki475 (Pubitemid 44530021)
22. Duncan D., Prodduturi N., Zhang B., WebGestalt2: an updated and expanded version of the web-based gene set analysis toolkit. BMC Bioinformatics 2010 11 supplement 4 10
23. Benjamini Y., Hochberg Y., Controlling the false discovery rate: a practical and powerful approach to multiple testing. Journal of the Royal Statistical Society B 1995 57 289 300
24. Burke R. E., Kholodilov N., Programmed cell death: does it play a role in Parkinson's disease? Annals of Neurology 1998 44 supplement 3 S126 S133 2-s2.0-0031668930 (Pubitemid 28423839)
25. Mattson M. P., Apoptosis in neurodegenerative disorders. Nature Reviews Molecular Cell Biology 2000 1 2 120 130 2-s2.0-0034329742
26. Cui X., McGrath J. J., Burne T. H. J., Mackay-Sim A., Eyles D. W., Maternal vitamin D depletion alters neurogenesis in the developing rat brain. International Journal of Developmental Neuroscience 2007 25 4 227 232 2-s2.0-34249331694 10.1016/j.ijdevneu.2007.03.006 (Pubitemid 46818858)
27. Newmark H. L., Newmark J., Vitamin D and Parkinson's disease-a hypothesis. Movement Disorders 2007 22 4 461 468 2-s2.0-34247187985 10.1002/mds.21317 (Pubitemid 46608142)
28. Kesby J. P., Cui X., Ko P., McGrath J. J., Burne T. H. J., Eyles D. W., Developmental vitamin D deficiency alters dopamine turnover in neonatal rat forebrain. Neuroscience Letters 2009 461 2 155 158 2-s2.0-67649646727 10.1016/j.neulet.2009.05.070
29. Garcion E., Wion-Barbot N., Montero-Menei C. N., Berger F., Wion D., New clues about vitamin D functions in the nervous system. Trends in Endocrinology and Metabolism 2002 13 3 100 105 2-s2.0-0036550614 10.1016/S1043-2760(01)00547-1 (Pubitemid 36733998)
30. Butler M. W., Burt A., Edwards T. L., Zuchner S., Scott W. K., Martin E. R., Vance J. M., Wang L., Vitamin D Receptor Gene as a Candidate Gene for Parkinson Disease. Annals of Human Genetics 2011 75 2 201 210 2-s2.0-79851478250 10.1111/j.1469-1809.2010.00631.x
31. Lv Z., Association study between vitamin d receptor gene polymorphisms and patients with Parkinson disease in Chinese Han population. International Journal of Neuroscience 2012 123 1 60 64
32. Kim J.-S., Kim Y.-I., Song C., Yoon I., Park J.-W., Choi Y.-B., Kim H.-T., Lee K.-S., Association of vitamin D receptor gene polymorphism and Parkinson's disease in Koreans. Journal of Korean Medical Science 2005 20 3 495 498 2-s2.0-21344465869 (Pubitemid 40905528)
33. Lim S. T., Airavaara M., Harvey B. K., Viral vectors for neurotrophic factor delivery: a gene therapy approach for neurodegenerative diseases of the CNS. Pharmacological Research 2010 61 1 14 26 2-s2.0-72749096700 10.1016/j.phrs.2009.10.002
34. Evans J. R., Barker R. A., Neurotrophic factors as a therapeutic target for Parkinson's disease. Expert Opinion on Therapeutic Targets 2008 12 4 437 447 2-s2.0-42149165684 10.1517/14728222.12.4.437 (Pubitemid 351546370)
35. Kano T., Suzuki Y., Shibuya M., Kiuchi K., Hagiwara M., Cocaine-induced CREB phosphorylation and c-Fos expression are suppressed in Parkinsonism model mice. NeuroReport 1995 6 16 2197 2200 2-s2.0-0028845093
36. Ebert A. D., Beres A. J., Barber A. E., Svendsen C. N., Human neural progenitor cells over-expressing IGF-1 protect dopamine neurons and restore function in a rat model of Parkinson's disease. Experimental Neurology 2008 209 1 213 223 2-s2.0-37549042851 10.1016/j.expneurol.2007.09.022
37. Roshan R., Ghosh T., Scaria V., Pillai B., MicroRNAs: novel therapeutic targets in neurodegenerative diseases. Drug Discovery Today 2009 14 23-24 1123 1129 2-s2.0-71749092463 10.1016/j.drudis.2009.09.009
38. Xiong J., Emerging roles of microRNA-22 in human disease and normal physiology. Current Molecular Medicine 2012 12 3 247 258 2-s2.0-84857127764 10.2174/156652412799218886
39. Margis R., Margis R., Rieder C. R., Identification of blood microRNAs associated to Parkinsonós disease. Journal of Biotechnology 2011 152 3 96 101 2-s2.0-79952898846 10.1016/j.jbiotec.2011.01.023
40. Altamura S., Muckenthaler M. U., Iron toxicity in diseases of aging: alzheimer's disease, Parkinson's disease and atherosclerosis. Journal of Alzheimer's Disease 2009 16 4 879 895 2-s2.0-67649739079 10.3233/JAD-2009-1010
41. Thomas M., Jankovic J., Neurodegenerative disease and iron storage in the brain. Current Opinion in Neurology 2004 17 4 437 442 2-s2.0-4043144143 10.1097/01.wco.0000137534.61244.d1 (Pubitemid 39071420)
42. Khanna A., Muthusamy S., Liang R., Sarojini H., Wang E., Gain of survival signaling by down-regulation of three key miRNAs in brain of calorie-restricted mice. Aging 2011 3 3 223 236 2-s2.0-80051604377
43. Timmins J. M., Ozcan L., Seimon T. A., Li G., Malagelada C., Backs J., Backs T., Bassel-Duby R., Olson E. N., Anderson M. E., Tabas I., Calcium/calmodulin-dependent protein kinase II links ER stress with Fas and mitochondrial apoptosis pathways. Journal of Clinical Investigation 2009 119 10 2925 2941 2-s2.0-70349696241 10.1172/JCI38857
44. Kalaitzakis M. E., Graeber M. B., Gentleman S. M., Pearce R. K. B., The dorsal motor nucleus of the vagus is not an obligatory trigger site of Parkinson's disease: a critical analysis of α -synuclein staging. Neuropathology and Applied Neurobiology 2008 34 3 284 295 2-s2.0-42549125030 10.1111/j.1365-2990.2007.00923.x (Pubitemid 351590870)
45. Louis, Babij R E. D., Cortés E., Vonsattel J. P., Faust P. L., The inferior olivary nucleus: a postmortem study of essential tremor cases versus controls. Movement Disorders 2013 28 6 779 786 10.1002/mds.25400