Lee RC, Feinbaum RL, Ambros V: The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell. 1993, 75 (5): 843-854. 10.1016/0092-8674(93)90529-Y.
Article
CAS
PubMed
Google Scholar
He L, Hannon GJ: MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet. 2004, 5 (7): 522-531. 10.1038/nrg1379.
Article
CAS
PubMed
Google Scholar
Lee Y, Ahn C, Han J, Choi H, Kim J, Yim J, Lee J, Provost P, Rådmark O, Kim S, Kim VN: The nuclear RNase III Drosha initiates microRNA processing. Nature. 2003, 425 (6956): 415-419. 10.1038/nature01957.
Article
CAS
PubMed
Google Scholar
Alexiou P, Maragkakis M, Papadopoulos GL, Reczko M, Hatzigeorgiou AG: Lost in translation: an assessment and perspective for computational microRNA target identification. Bioinform. 2009, 25 (23): 3049-3055. 10.1093/bioinformatics/btp565.
Article
CAS
Google Scholar
Bohnsack MT, Czaplinski K, Gorlich D: Exportin 5 is a RanGTP-dependent dsRNA-binding protein that mediates nuclear export of pre-miRNAs. RNA. 2004, 10 (2): 185-191. 10.1261/rna.5167604.
Article
CAS
PubMed Central
PubMed
Google Scholar
Bernstein E, Caudy AA, Hammond SM, Hannon GJ: Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature. 2001, 409 (6818): 363-366. 10.1038/35053110.
Article
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
CAS
PubMed Central
PubMed
Google Scholar
Chuang JC, Jones PA: Epigenetics and microRNAs. Pediatr Res. 2007, 61 (5 Pt 2): 24R-29R.
Article
CAS
PubMed
Google Scholar
Pennisi E: Genomics. ENCODE project writes eulogy for junk DNA. Science. 2012, 337 (6099): 1159-1161. 10.1126/science.337.6099.1159.
Article
CAS
PubMed
Google Scholar
Ruvkun G: Molecular biology. Glimpses of a tiny RNA world. Science. 2001, 294 (5543): 797-799. 10.1126/science.1066315.
Article
CAS
PubMed
Google Scholar
Lee R, Feinbaum R, Ambros V: A short history of a short RN. Cell. 2004, 116 (2 Suppl): S89-S92. 81 p following S96
Article
CAS
PubMed
Google Scholar
Esteller M: Non-coding RNAs in human disease. Nat Rev Genet. 2011, 12 (12): 861-874. 10.1038/nrg3074.
Article
CAS
PubMed
Google Scholar
Croce CM, Calin GA: miRNAs, cancer, and stem cell division. Cell. 2005, 122 (1): 6-7. 10.1016/j.cell.2005.06.036.
Article
CAS
PubMed
Google Scholar
Small EM, Olson EN: Pervasive roles of microRNAs in cardiovascular biology. Nature. 2011, 469 (7330): 336-342. 10.1038/nature09783.
Article
CAS
PubMed Central
PubMed
Google Scholar
Kulkarni S, Savan R, Qi Y, Gao X, Yuki Y, Bass SE, Martin MP, Hunt P, Deeks SG, Telenti A, Pereyra F, Goldstein D, Wolinsky S, Walker B, Young HA, Carrington M: Differential microRNA regulation of HLA-C expression and its association with HIV control. Nature. 2011, 472 (7344): 495-498. 10.1038/nature09914.
Article
CAS
PubMed Central
PubMed
Google Scholar
Niederberger E, Kynast K, Lötsch J, Geisslinger G: MicroRNAs as new players in the pain game. Pain. 2011, 152 (7): 1455-1458. 10.1016/j.pain.2011.01.042.
Article
PubMed
Google Scholar
Dong H, Lei J, Ding L, Wen Y, Ju H, Zhang X: MicroRNA: function, detection, and bioanalysis. Chem Rev. 2013, 113 (8): 6207-6233. 10.1021/cr300362f.
Article
CAS
PubMed
Google Scholar
Hsu SD, Tseng YT, Shrestha S, Lin YL, Khaleel A, Chou CH, Chu CF, Huang HY, Lin CM, Ho SY, Jian TY, Lin FM, Chang TH, Weng SL, Liao KW, Liao IE, Liu CC, Huang HD: miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. Nucleic Acids Res. 2014, 42 (Database issue): D78-D85.
Article
CAS
PubMed Central
PubMed
Google Scholar
Papadopoulos GL, Reczko M, Simossis VA, Sethupathy P, Hatzigeorgiou AG: The database of experimentally supported targets: a functional update of TarBase. Nucleic Acids Res. 2009, 37 (Database issue): D155-D158.
Article
CAS
PubMed Central
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. 10.1016/j.cell.2004.12.035.
Article
CAS
PubMed
Google Scholar
Hu P, Bader G, Wigle DA, Emili A: Computational prediction of cancer-gene function. Nat Rev Cancer. 2007, 7 (1): 23-34. 10.1038/nrc2036.
Article
CAS
PubMed
Google Scholar
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G: Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet. 2000, 25 (1): 25-29. 10.1038/75556.
Article
CAS
PubMed Central
PubMed
Google Scholar
Carbon S, Ireland A, Mungall CJ, Shu S, Marshall B, Lewis S, Ami GOH, Web Presence Working G: AmiGO: online access to ontology and annotation data. Bioinformatics. 2009, 25 (2): 288-289. 10.1093/bioinformatics/btn615.
Article
CAS
PubMed Central
PubMed
Google Scholar
Keller A, Backes C, Al-Awadhi M, Gerasch A, Kuntzer J, Kohlbacher O, Kaufmann M, Lenhof HP: GeneTrailExpress: a web-based pipeline for the statistical evaluation of microarray experiments. BMC Bioinform. 2008, 9: 552-10.1186/1471-2105-9-552.
Article
Google Scholar
Seal RL, Gordon SM, Lush MJ, Wright MW, Bruford EA: genenames.org: the HGNC resources in 2011. Nucleic Acids Res. 2011, 39 (Database issue): D514-D519.
Article
CAS
PubMed Central
PubMed
Google Scholar
Venn J: On the diagrammatic and mechanical representation of propositions and reasonings. Dublin Philos Mag J Sci. 1880, 9: 1-18. 10.1080/14786448008626791.
Article
Google Scholar
Zheng H, Fu R, Wang J-T, Liu Q, Chen H, Jiang S-W: Advances in the Techniques for the Prediction of microRNA Targets. Int J Mol Sci. 2013, 14 (4): 8179-8187. 10.3390/ijms14048179.
Article
PubMed Central
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. 10.1016/j.molcel.2007.06.017.
Article
CAS
PubMed Central
PubMed
Google Scholar
Garcia DM, Baek D, Shin C, Bell GW, Grimson A, Bartel DP: Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs. Nat Struct Mol Biol. 2011, 18 (10): 1139-1146. 10.1038/nsmb.2115.
Article
CAS
PubMed Central
PubMed
Google Scholar
Camon E, Magrane M, Barrell D, Lee V, Dimmer E, Maslen J, Binns D, Harte N, Lopez R, Apweiler R: The Gene Ontology Annotation (GOA) Database: sharing knowledge in uniprot with gene ontology. Nucleic Acids Res. 2004, 32 (Database issue): D262-D266.
Article
CAS
PubMed Central
PubMed
Google Scholar
Camon E, Magrane M, Barrell D, Binns D, Fleischmann W, Kersey P, Mulder N, Oinn T, Maslen J, Cox A, Apweiler R: The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro. Genome Res. 2003, 13 (4): 662-672. 10.1101/gr.461403.
Article
CAS
PubMed Central
PubMed
Google Scholar
Thulasiraman K, Swamy MNS: Graphs: Theory and Algorithms. 1992, New York; NY: Wiley, [u.a.]
Book
Google Scholar
Backes C, Keller A, Kuentzer J, Kneissl B, Comtesse N, Elnakady YA, Muller R, Meese E, Lenhof HP: GeneTrail--advanced gene set enrichment analysis. Nucleic Acids Res. 2007, 35 (Web Server issue): W186-W192.
Article
PubMed Central
PubMed
Google Scholar
Hochberg Y: A Sharper bonferroni procedure for multiple tests of significance. Biometrika. 1988, 75 (4): 800-802. 10.1093/biomet/75.4.800.
Article
Google Scholar
Ultsch A, Lötsch J: Functional abstraction as a method to discover knowledge in gene ontologies. PLoS One. 2014, 9 (2): e90191-10.1371/journal.pone.0090191.
Article
PubMed Central
PubMed
Google Scholar
Morozova N, Zinovyev A, Nonne N, Pritchard LL, Gorban AN, Harel-Bellan A: Kinetic signatures of microRNA modes of action. RNA. 2012, 18 (9): 1635-1655. 10.1261/rna.032284.112.
Article
CAS
PubMed Central
PubMed
Google Scholar
Krek A, Grün D, Poy MN, Wolf R, Rosenberg L, Epstein EJ, MacMenamin P, da Piedade I, Gunsalus KC, Stoffel M, Rajewsky N: Combinatorial microRNA target predictions. Nat Genet. 2005, 37 (5): 495-500. 10.1038/ng1536.
Article
CAS
PubMed
Google Scholar
Friedman RC, Farh KK, Burge CB, Bartel DP: Most mammalian mRNAs are conserved targets of microRNAs. Genome Res. 2009, 19 (1): 92-105.
Article
CAS
PubMed Central
PubMed
Google Scholar
Bartel DP: MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004, 116 (2): 281-297. 10.1016/S0092-8674(04)00045-5.
Article
CAS
PubMed
Google Scholar
Ullah S, John P, Bhatti A: MicroRNAs with a role in gene regulation and in human diseases. Mol Biol Rep. 2013
Google Scholar
Pauley KM, Cha S, Chan EK: MicroRNA in autoimmunity and autoimmune diseases. J Autoimmun. 2009, 32 (3–4): 189-194.
Article
CAS
PubMed Central
PubMed
Google Scholar
Ambros V: The functions of animal microRNAs. Nature. 2004, 431 (7006): 350-355. 10.1038/nature02871.
Article
CAS
PubMed
Google Scholar
Alvarez-Garcia I, Miska EA: MicroRNA functions in animal development and human disease. Development. 2005, 132 (21): 4653-4662. 10.1242/dev.02073.
Article
CAS
PubMed
Google Scholar
Pufall MA, Lee GM, Nelson ML, Kang H-S, Velyvis A, Kay LE, McIntosh LP, Graves BJ: Variable control of Ets-1 DNA binding by multiple phosphates in an unstructured region. Science. 2005, 309 (5731): 142-145. 10.1126/science.1111915.
Article
CAS
PubMed
Google Scholar
Amaral PP, Dinger ME, Mercer TR, Mattick JS: The eukaryotic genome as an RNA machine. Science. 2008, 319 (5871): 1787-1789. 10.1126/science.1155472.
Article
CAS
PubMed
Google Scholar
He L, He X, Lim LP, de Stanchina E, Xuan Z, Liang Y, Xue W, Zender L, Magnus J, Ridzon D, Jackson AL, Linsley PS, Chen C, Lowe SW, Cleary MA, Hannon GJ: A microRNA component of the p53 tumour suppressor network. Nature. 2007, 447 (7148): 1130-1134. 10.1038/nature05939.
Article
CAS
PubMed Central
PubMed
Google Scholar
Zhao J, Lee MC, Momin A, Cendan CM, Shepherd ST, Baker MD, Asante C, Bee L, Bethry A, Perkins JR, Nassar MA, Abrahamsen B, Dickenson A, Cobb BS, Merkenschlager M, Wood JN: Small RNAs control sodium channel expression, nociceptor excitability, and pain thresholds. J Neurosci. 2010, 30 (32): 10860-10871. 10.1523/JNEUROSCI.1980-10.2010.
Article
CAS
PubMed
Google Scholar
Tan KS, Choi H, Jiang X, Yin L, Seet JE, Patzel V, Engelward BP, Chow VT: Micro-RNAs in regenerating lungs: an integrative systems biology analysis of murine influenza pneumonia. BMC Genomics. 2014, 15: 587-10.1186/1471-2164-15-587.
Article
PubMed Central
PubMed
Google Scholar
Kim D, Shin H, Joung JG, Lee SY, Kim JH: Intra-relation reconstruction from inter-relation: miRNA to gene expression. BMC Syst Biol. 2013, 7 (Suppl 3): S8-10.1186/1752-0509-7-S3-S8.
Article
PubMed Central
PubMed
Google Scholar