Bartel DP: MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004, 116 (2): 281-297.
Article
CAS
PubMed
Google Scholar
Filipowicz W, Bhattacharyya SN, Sonenberg N: Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?. Nat Rev Genet. 2008, 9 (2): 102-114.
Article
CAS
PubMed
Google Scholar
Du T, Zamore PD: microPrimer: the biogenesis and function of microRNA. Development. 2005, 132 (21): 4645-4652.
Article
CAS
PubMed
Google Scholar
Tay YM, Tam WL, Ang YS, Gaughwin PM, Yang H, Wang W, Liu R, George J, Ng HH, Perera RJ, et al: MicroRNA-134 modulates the differentiation of mouse embryonic stem cells, where it causes post-transcriptional attenuation of Nanog and LRH1. Stem Cells. 2008, 26 (1): 17-29.
Article
CAS
PubMed
Google Scholar
Tili E, Michaille JJ, Cimino A, Costinean S, Dumitru CD, Adair B, Fabbri M, Alder H, Liu CG, Calin GA, et al: Modulation of miR-155 and miR-125b levels following lipopolysaccharide/TNF-alpha stimulation and their possible roles in regulating the response to endotoxin shock. J Immunol. 2007, 179 (8): 5082-5089.
Article
CAS
PubMed
Google Scholar
Huang Q, Gumireddy K, Schrier M, le Sage C, Nagel R, Nair S, Egan DA, Li A, Huang G, Klein-Szanto AJ, et al: The microRNAs miR-373 and miR-520c promote tumour invasion and metastasis. Nat Cell Biol. 2008, 10 (2): 202-210.
Article
CAS
PubMed
Google Scholar
Silber J, Lim DA, Petritsch C, Persson AI, Maunakea AK, Yu M, Vandenberg SR, Ginzinger DG, James CD, Costello JF, et al: miR-124 and miR-137 inhibit proliferation of glioblastoma multiforme cells and induce differentiation of brain tumor stem cells. BMC Med. 2008, 6: 14-
Article
PubMed Central
PubMed
Google Scholar
Boehm M, Slack F: A developmental timing microRNA and its target regulate life span in C. elegans. Science. 2005, 310 (5756): 1954-1957.
Article
CAS
PubMed
Google Scholar
Griffiths-Jones S, Saini HK, van Dongen S, Enright AJ: miRBase: tools for microRNA genomics. Nucleic Acids Res. 2008, 36 (Database issue): D154-D158.
PubMed Central
CAS
PubMed
Google Scholar
Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ: miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 2006, 34 (Database issue): D140-D144.
Article
PubMed Central
CAS
PubMed
Google Scholar
Griffiths-Jones S: The microRNA Registry. Nucleic Acids Res. 2004, 32 (Database issue): D109-D111.
Article
PubMed Central
CAS
PubMed
Google Scholar
Creighton CJ, Reid JG, Gunaratne PH: Expression profiling of microRNAs by deep sequencing. Brief Bioinform. 2009, 10 (5): 490-497.
Article
PubMed Central
CAS
PubMed
Google Scholar
Morin RD, O'Connor MD, Griffith M, Kuchenbauer F, Delaney A, Prabhu AL, Zhao Y, McDonald H, Zeng T, Hirst M, et al: Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res. 2008, 18 (4): 610-621.
Article
PubMed Central
CAS
PubMed
Google Scholar
Bar M, Wyman SK, Fritz BR, Qi J, Garg KS, Parkin RK, Kroh EM, Bendoraite A, Mitchell PS, Nelson AM, et al: MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries. Stem Cells. 2008, 26 (10): 2496-2505.
Article
PubMed Central
CAS
PubMed
Google Scholar
Cheung VG, Spielman RS: Genetics of human gene expression: mapping DNA variants that influence gene expression. Nat Rev Genet. 2009, 10 (9): 595-604.
Article
PubMed Central
CAS
PubMed
Google Scholar
Suh Y, Atzmon G, Cho MO, Hwang D, Liu B, Leahy DJ, Barzilai N, Cohen P: Functionally significant insulin-like growth factor I receptor mutations in centenarians. Proc Natl Acad Sci U S A. 2008, 105 (9): 3438-3442.
Article
PubMed Central
CAS
PubMed
Google Scholar
Tazearslan C, Huang J, Barzilai N, Suh Y: Impaired IGF1R signaling in cells expressing longevity-associated human IGF1R alleles. Aging Cell. 2011, 10 (3): 551-554.
Article
PubMed Central
CAS
PubMed
Google Scholar
Cookson W, Liang L, Abecasis G, Moffatt M, Lathrop M: Mapping complex disease traits with global gene expression. Nat Rev Genet. 2009, 10 (3): 184-194.
Article
PubMed Central
CAS
PubMed
Google Scholar
Montgomery SB, Dermitzakis ET: From expression QTLs to personalized transcriptomics. Nat Rev Genet. 2011, 12 (4): 277-282.
Article
CAS
PubMed
Google Scholar
Greenawalt DM, Dobrin R, Chudin E, Hatoum IJ, Suver C, Beaulaurier J, Zhang B, Castro V, Zhu J, Sieberts SK, et al: A survey of the genetics of stomach, liver, and adipose gene expression from a morbidly obese cohort. Genome Res. 2011, 21 (7): 1008-1016.
Article
PubMed Central
CAS
PubMed
Google Scholar
Mitchell GF, Verwoert GC, Tarasov KV, Isaacs A, Smith AV, Yasmin , Rietzschel ER, Tanaka T, Liu Y, Parsa A: Common Genetic Variation in the 3-BCL11B Gene Desert Is Associated with Carotid-Femoral Pulse Wave Velocity and Excess Cardiovascular Disease Risk: The AortaGen Consortium. Circ Cardiovasc Genet. 2011, 5 (1):
Bullaughey K, Chavarria CI, Coop G, Gilad Y: Expression quantitative trait loci detected in cell lines are often present in primary tissues. Hum Mol Genet. 2009, 18 (22): 4296-4303.
Article
PubMed Central
CAS
PubMed
Google Scholar
Hovatta I, Zapala MA, Broide RS, Schadt EE, Libiger O, Schork NJ, Lockhart DJ, Barlow C: DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: implications for eQTL mapping studies. Genome Biol. 2007, 8 (2): R25-
Article
PubMed Central
PubMed
Google Scholar
Lalonde E, Ha KC, Wang Z, Bemmo A, Kleinman CL, Kwan T, Pastinen T, Majewski J: RNA sequencing reveals the role of splicing polymorphisms in regulating human gene expression. Genome Res. 2011, 21 (4): 545-554.
Article
PubMed Central
CAS
PubMed
Google Scholar
Smirnov DA, Brady L, Halasa K, Morley M, Solomon S, Cheung VG: Genetic variation in radiation-induced cell death. Genome Res. 2012, 22 (2): 332-339.
Article
PubMed Central
CAS
PubMed
Google Scholar
Toung JM, Morley M, Li MY, Cheung VG: RNA-sequence analysis of human B-cells. Genome Res. 2011, 21 (6): 991-998.
Article
PubMed Central
CAS
PubMed
Google Scholar
Kuchenbauer F, Morin RD, Argiropoulos B, Petriv OI, Griffith M, Heuser M, Yung E, Piper J, Delaney A, Prabhu AL, et al: In-depth characterization of the microRNA transcriptome in a leukemia progression model. Genome Res. 2008, 18 (11): 1787-1797.
Article
PubMed Central
CAS
PubMed
Google Scholar
Friedlander MR, Chen W, Adamidi C, Maaskola J, Einspanier R, Knespel S, Rajewsky N: Discovering microRNAs from deep sequencing data using miRDeep. Nat Biotechnol. 2008, 26 (4): 407-415.
Article
PubMed
Google Scholar
Ambros V, Bartel B, Bartel DP, Burge CB, Carrington JC, Chen X, Dreyfuss G, Eddy SR, Griffiths-Jones S, Marshall M, et al: A uniform system for microRNA annotation. RNA. 2003, 9 (3): 277-279.
Article
PubMed Central
CAS
PubMed
Google Scholar
Zuker M: Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 2003, 31 (13): 3406-3415.
Article
PubMed Central
CAS
PubMed
Google Scholar
Fernandez-Valverde SL, Taft RJ, Mattick JS: Dynamic isomiR regulation in Drosophila development. RNA. 2010, 16 (10): 1881-1888.
Article
PubMed Central
CAS
PubMed
Google Scholar
Davis BN, Hata A: Regulation of MicroRNA Biogenesis: A miRiad of mechanisms. Cell Commun Signal. 2009, 7: 18-
Article
PubMed Central
PubMed
Google Scholar
Fehniger TA, Wylie T, Germino E, Leong JW, Magrini VJ, Koul S, Keppel CR, Schneider SE, Koboldt DC, Sullivan RP, et al: Next-generation sequencing identifies the natural killer cell microRNA transcriptome. Genome Res. 2010, 20 (11): 1590-1604.
Article
PubMed Central
CAS
PubMed
Google Scholar
Cummins JM, He YP, Leary RJ, Pagliarini R, Diaz LA, Sjoblom T, Barad O, Bentwich Z, Szafranska AE, Labourier E, et al: The colorectal microRNAome. Proc Natl Acad Sci U S A. 2006, 103 (10): 3687-3692.
Article
PubMed Central
CAS
PubMed
Google Scholar
Romualdi C, Bortoluzzi S, D'Alessi F, Danieli GA: IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments. Physiol Genomics. 2003, 12 (2): 159-162.
Article
CAS
PubMed
Google Scholar
Bail S, Swerdel M, Liu HD, Jiao XF, Goff LA, Hart RP, Kiledjian M: Differential regulation of microRNA stability. RNA. 2010, 16 (5): 1032-1039.
Article
PubMed Central
CAS
PubMed
Google Scholar
Braconi C, Huang N, Patel T: MicroRNA-dependent regulation of DNA methyltransferase-1 and tumor suppressor gene expression by interleukin-6 in human malignant cholangiocytes. Hepatology. 2010, 51 (3): 881-890.
PubMed Central
CAS
PubMed
Google Scholar
Tsai WC, Hsu PW, Lai TC, Chau GY, Lin CW, Chen CM, Lin CD, Liao YL, Wang JL, Chau YP, et al: MicroRNA-122, a tumor suppressor microRNA that regulates intrahepatic metastasis of hepatocellular carcinoma. Hepatology. 2009, 49 (5): 1571-1582.
Article
CAS
PubMed
Google Scholar
Lewis BP, Burge CB, Bartel DP: Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell. 2005, 120 (1): 15-20.
Article
CAS
PubMed
Google Scholar
Grimson A, Farh KK, Johnston WK, Garrett-Engele P, Lim LP, Bartel DP: MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell. 2007, 27 (1): 91-105.
Article
PubMed Central
CAS
PubMed
Google Scholar
John B, Enright AJ, Aravin A, Tuschl T, Sander C, Marks DS: Human microRNA targets (vol 2, pg 1862, 2005). PLoS Biol. 2005, 3 (7): 1328-1328.
Article
CAS
Google Scholar
Krek A, Grun D, Poy MN, Wolf R, Rosenberg L, Epstein EJ, MacMenamin P, da Piedade I, Gunsalus KC, Stoffel M, et al: Combinatorial microRNA target predictions. Nature Genet. 2005, 37 (5): 495-500.
Article
CAS
PubMed
Google Scholar
Long D, Lee R, Williams P, Chan CY, Ambros V, Ding Y: Potent effect of target structure on microRNA function. Nat Struct Mol Biol. 2007, 14 (4): 287-294.
Article
CAS
PubMed
Google Scholar
Beissbarth T, Speed TP: GOstat: find statistically overrepresented Gene Ontologies within a group of genes. Bioinformatics. 2004, 20 (9): 1464-1465.
Article
CAS
PubMed
Google Scholar
de Magalhaes J, Costa J, Toussaint O: HAGR: the human ageing genomic resources. Nucleic Acids Res. 2005, 33: D537-D543.
Article
PubMed Central
CAS
PubMed
Google Scholar
Subramanian A, Tamayo P, Mootha V, Mukherjee S, Ebert B, Gillette M, Paulovich A, Pomeroy S, Golub T, Lander E, et al: Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005, 102 (43): 15545-15550.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ibanez-Ventoso C, Yang M, Guo S, Robins H, Padgett RW, Driscoll M: Modulated microRNA expression during adult lifespan in Caenorhabditis elegans. Aging Cell. 2006, 5 (3): 235-246.
Article
CAS
PubMed
Google Scholar
Hooten NN, Abdelmohsen K, Gorospe M, Ejiogu N, Zonderman AB, Evans MK: microRNA Expression Patterns Reveal Differential Expression of Target Genes with Age. PLoS One. 2010, 5: 5-
Google Scholar
Brosh R, Shalgi R, Liran A, Landan G, Korotayev K, Nguyen GH, Enerly E, Johnsen H, Buganim Y, Solomon H, et al: p53-Repressed miRNAs are involved with E2F in a feed-forward loop promoting proliferation. Mol Syst Biol. 2008, 4: 229-
Article
PubMed Central
PubMed
Google Scholar
Dhahbi JM, Atamna H, Boffelli D, Magis W, Spindler SR, Martin DI: Deep sequencing reveals novel microRNAs and regulation of microRNA expression during cell senescence. PLoS One. 2011, 6 (5): e20509-
Article
PubMed Central
CAS
PubMed
Google Scholar
Bhayani MK, Calin GA, Lai SY: Functional relevance of miRNA sequences in human disease. Mutat Res. 2012, 731 (1–2): 14-19.
Article
CAS
PubMed
Google Scholar
Kato M, Chen X, Inukai S, Zhao H, Slack F: Age-associated changes in expression of small, noncoding RNAs, including microRNAs, in C. elegans. RNA. 2011, 17 (10): 1804-1820.
Article
PubMed Central
CAS
PubMed
Google Scholar
Wu S, Huang S, Ding J, Zhao Y, Liang L, Liu T, Zhan R, He X: Multiple microRNAs modulate p21Cip1/Waf1 expression by directly targeting its 3 ' untranslated region. Oncogene. 2010, 29 (15): 2302-2308.
Article
CAS
PubMed
Google Scholar
Zoncu R, Efeyan A, Sabatini DM: mTOR: from growth signal integration to cancer, diabetes and ageing. Nature Rev Mol Cell Biol. 2011, 12 (1): 21-35.
Article
CAS
Google Scholar
Mcgue M, Vaupel JW, Holm N, Harvald B: Longevity Is Moderately Heritable in a Sample of Danish Twins Born 1870–1880. J Gerontol. 1993, 48 (6): B237-B244.
Article
CAS
PubMed
Google Scholar
Herskind AM, McGue M, Holm NV, Sorensen TIA, Harvald B, Vaupel JW: The heritability of human longevity: A population-based study of 2872 Danish twin pairs born 1870–1900. Human Genet. 1996, 97 (3): 319-323.
Article
CAS
Google Scholar
Perls TT, Bubrick E, Wager CG, Vijg J, Kruglyak L: Siblings of centenarians live longer. Lancet. 1998, 351 (9115): 1560-
Article
CAS
PubMed
Google Scholar
Perls TT, Wilmoth J, Levenson R, Drinkwater M, Cohen M, Bogan H, Joyce E, Brewster S, Kunkel L, Puca A: Life-long sustained mortality advantage of siblings of centenarians. Proc Natl Acad Sci U S A. 2002, 99 (12): 8442-8447.
Article
PubMed Central
CAS
PubMed
Google Scholar
Martin GM, Bergman A, Barzilai N: Genetic determinants of human health span and life span: progress and new opportunities. PLoS Genet. 2007, 3 (7): e125-
Article
PubMed Central
PubMed
Google Scholar
de Lencastre A, Pincus Z, Zhou K, Kato M, Lee SS, Slack FJ: MicroRNAs both promote and antagonize longevity in C. elegans. Curr Biol. 2010, 20 (24): 2159-2168.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ibanez-Ventoso C, Vora M, Driscoll M: Sequence Relationships among C-elegans, D-melanogaster and Human microRNAs Highlight the Extensive Conservation of microRNAs in Biology. PLoS One. 2008, 3: 7-
Article
Google Scholar
Wang E: MicroRNA Regulation and its Biological Significance in Personalized Medicine and Aging. Current Genomics. 2009, 10 (3): 143-143.
Article
PubMed Central
CAS
PubMed
Google Scholar
Monks SA, Leonardson A, Zhu H, Cundiff P, Pietrusiak P, Edwards S, Phillips JW, Sachs A, Schadt EE: Genetic inheritance of gene expression in human cell lines. Am J Hum Genet. 2004, 75 (6): 1094-1105.
Article
PubMed Central
CAS
PubMed
Google Scholar
Smirnov DA, Morley M, Shin E, Spielman RS, Cheung VG: Genetic analysis of radiation-induced changes in human gene expression. Nature. 2009, 459 (7246): 587-591.
Article
PubMed Central
CAS
PubMed
Google Scholar
Barzilai N, Atzmon G, Schechter C, Schaefer EJ, Cupples AL, Lipton R, Cheng S, Shuldiner AR: Unique lipoprotein phenotype and genotype associated with exceptional longevity. JAMA. 2003, 290 (15): 2030-2040.
Article
CAS
PubMed
Google Scholar
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM: The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Res. 2009, 38 (6): 1767-1771.
Article
PubMed Central
PubMed
Google Scholar
Blankenberg D, Von Kuster G, Coraor N, Ananda G, Lazarus R, Mangan M, Nekrutenko A, Taylor J: Galaxy: a web-based genome analysis tool for experimentalists. Curr Protoc Mol Biol. 2010, Chapter 19: 11-21. Unit 19 10
Google Scholar