-
1
-
-
80054741160
-
RNAi: A potential new class of therapeutic for human genetic disease
-
Seyhan AA. RNAi: a potential new class of therapeutic for human genetic disease. Hum Genet 2011;130:583-605.
-
(2011)
Hum Genet
, vol.130
, pp. 583-605
-
-
Seyhan, A.A.1
-
3
-
-
80051913931
-
When cellular networks run out of control: Global dysregulation of the RNAi machinery in human pathology and therapy
-
Mockenhaupt S, Schurmann N, Grimm D. When cellular networks run out of control: global dysregulation of the RNAi machinery in human pathology and therapy. Prog Mol Biol Transl Sci 2011;102:165-242.
-
(2011)
Prog Mol Biol Transl Sci
, vol.102
, pp. 165-242
-
-
Mockenhaupt, S.1
Schurmann, N.2
Grimm, D.3
-
4
-
-
84871609151
-
MicroRNAs and neurodegeneration: Role and impact
-
Abe M, Bonini NM. MicroRNAs and neurodegeneration: role and impact. Trends Cell Biol 2013;23:30-6.
-
(2013)
Trends Cell Biol
, vol.23
, pp. 30-36
-
-
Abe, M.1
Bonini, N.M.2
-
5
-
-
85027933914
-
RNAi-based therapeutic strategies for metabolic disease
-
Czech MP, Aouadi M, Tesz GJ. RNAi-based therapeutic strategies for metabolic disease. Nat Rev Endocrinol 2011;7:473-84.
-
(2011)
Nat Rev Endocrinol
, vol.7
, pp. 473-484
-
-
Czech, M.P.1
Aouadi, M.2
Tesz, G.J.3
-
6
-
-
83555173596
-
RNA interference and cancer therapy
-
Wang Z, Rao DD, Senzer N, et al. RNA interference and cancer therapy. Pharm Res 2011;28:2983-95.
-
(2011)
Pharm Res
, vol.28
, pp. 2983-2995
-
-
Wang, Z.1
Rao, D.D.2
Senzer, N.3
-
7
-
-
84887499256
-
Analysis of microRNA-target interactions across diverse cancer types
-
Jacobsen A, Silber J, Harinath G, et al. Analysis of microRNA-target interactions across diverse cancer types. Nat Struct Mol Biol 2013;20:1325-32.
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 1325-1332
-
-
Jacobsen, A.1
Silber, J.2
Harinath, G.3
-
8
-
-
78649645700
-
Update on the development of microRNA and siRNA molecules as regulators of cell physiology
-
Laitala-Leinonen T. Update on the development of microRNA and siRNA molecules as regulators of cell physiology. Recent Pat DNA Gene Seq 2010;4:113-21.
-
(2010)
Recent Pat DNA Gene Seq
, vol.4
, pp. 113-121
-
-
Laitala-leinonen, T.1
-
11
-
-
84880742480
-
The role of microRNA in the pathogenesis of malignant lymphoma
-
Tagawa H, Ikeda S, Sawada K. The role of microRNA in the pathogenesis of malignant lymphoma. Cancer Sci 2013;104: 801-9.
-
(2013)
Cancer Sci
, vol.104
, pp. 801-809
-
-
Tagawa, H.1
Ikeda, S.2
Sawada, K.3
-
12
-
-
84877259958
-
MicroRNA and cancer chemoprevention
-
Yi B, Piazza GA, Su X, et al. MicroRNA and cancer chemoprevention. Cancer Prev Res 2013;6:401-9.
-
(2013)
Cancer Prev Res
, vol.6
, pp. 401-409
-
-
Yi, B.1
Piazza, G.A.2
Su, X.3
-
13
-
-
60149095444
-
Most mammalian mRNAs are conserved targets of microRNAs
-
Friedman RC, Farh KK, Burge CB, et al. Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 2008;19:92-105.
-
(2008)
Genome Res
, vol.19
, pp. 92-105
-
-
Friedman, R.C.1
Farh, K.K.2
Burge, C.B.3
-
15
-
-
33748587841
-
A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes
-
Miranda KC, Huynh T, Tay Y, et al. A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes. Cell 2006;126:1203-17.
-
(2006)
Cell
, vol.126
, pp. 1203-1217
-
-
Miranda, K.C.1
Huynh, T.2
Tay, Y.3
-
16
-
-
84891818318
-
miRBase: Annotating high confidence microRNAs using deep sequencing data
-
Kozomara A, Griffiths-Jones S. miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res 2014;42:D68-73.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D68-D73
-
-
Kozomara, A.1
Griffiths-jones, S.2
-
17
-
-
61849143920
-
MicroRNA target prediction by expression analysis of host genes
-
Gennarino VA, Sardiello M, Avellino R, et al. MicroRNA target prediction by expression analysis of host genes. Genome Res 2009;19:481-90.
-
(2009)
Genome Res
, vol.19
, pp. 481-490
-
-
Gennarino, V.A.1
Sardiello, M.2
Avellino, R.3
-
18
-
-
74249112787
-
Therapeutic silencing of MicroRNA-122 in primates with chronic hepatitis C virus infection
-
Lanford RE, Hildebrandt-Eriksen ES, Petri A, et al. Therapeutic silencing of MicroRNA-122 in primates with chronic hepatitis C virus infection. Science 2010;327:198-201.
-
(2010)
Science
, vol.327
, pp. 198-201
-
-
Lanford, R.E.1
Hildebrandt-eriksen, E.S.2
Petri, A.3
-
19
-
-
77953780835
-
MicroRNA-33 and the SREBP host genes cooperate to control cholesterol homeostasis
-
Najafi-Shoushtari SH, Kristo F, Li Y, et al. MicroRNA-33 and the SREBP host genes cooperate to control cholesterol homeostasis. Science 2010;328:1566-9.
-
(2010)
Science
, vol.328
, pp. 1566-1569
-
-
Najafi-shoushtari, S.H.1
Kristo, F.2
Li, Y.3
-
20
-
-
4243170045
-
Identification of drosophila MicroRNA targets
-
Stark A, Brennecke J, Russell RB, et al. Identification of drosophila MicroRNA targets. PLoS Biol 2003;1:E60.
-
(2003)
PLoS Biol
, vol.1
, pp. E60
-
-
Stark, A.1
Brennecke, J.2
Russell, R.B.3
-
21
-
-
84928649426
-
Integrating microRNA target predictions for the discovery of gene regulatory networks: A semi-supervised ensemble learning approach
-
Pio G, Malerba D, D'Elia D, et al. Integrating microRNA target predictions for the discovery of gene regulatory networks: a semi-supervised ensemble learning approach. BMC Bioinformatics 2014;15:S4.
-
(2014)
BMC Bioinformatics
, vol.15
, pp. S4
-
-
Pio, G.1
Malerba, D.2
D'Elia, D.3
-
22
-
-
82455172056
-
myMIR: A genome-wide microRNA targets identification and annotation tool
-
Corrada D, Viti F, Merelli I, et al. myMIR: a genome-wide microRNA targets identification and annotation tool. Brief Bioinform 2011;12:588-600.
-
(2011)
Brief Bioinform
, vol.12
, pp. 588-600
-
-
Corrada, D.1
Viti, F.2
Merelli, I.3
-
23
-
-
1542297345
-
Computational identification of microRNA targets
-
Rajewsky N, Socci ND. Computational identification of microRNA targets. Dev Biol 2004;267:529-35.
-
(2004)
Dev Biol
, vol.267
, pp. 529-535
-
-
Rajewsky, N.1
Socci, N.D.2
-
24
-
-
33750318273
-
A guide through present computational approaches for the identification of mammalian microRNA targets
-
Sethupathy P, Megraw M, Hatzigeorgiou AG. A guide through present computational approaches for the identification of mammalian microRNA targets. Nat Methods 2006;3: 881-6.
-
(2006)
Nat Methods
, vol.3
, pp. 881-886
-
-
Sethupathy, P.1
Megraw, M.2
Hatzigeorgiou, A.G.3
-
25
-
-
74049088856
-
Lost in translation: An assessment and perspective for computational microRNA target identification
-
Alexiou P, Maragkakis M, Papadopoulos GL, et al. Lost in translation: an assessment and perspective for computational microRNA target identification. Bioinformatics 2009;25: 3049-55.
-
(2009)
Bioinformatics
, vol.25
, pp. 3049-3055
-
-
Alexiou, P.1
Maragkakis, M.2
Papadopoulos, G.L.3
-
26
-
-
0037162702
-
Prediction of Plant MicroRNA Targets
-
Rhoades MW, Reinhart BJ, Lim LP, et al. Prediction of Plant MicroRNA Targets. Cell 2002;110:513-20.
-
(2002)
Cell
, vol.110
, pp. 513-520
-
-
Rhoades, M.W.1
Reinhart, B.J.2
Lim, L.P.3
-
27
-
-
84900846639
-
A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction
-
Srivastava P, Moturu T, Pandey P, et al. A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction. BMC Genomics 2014;15:348.
-
(2014)
BMC Genomics
, vol.15
, pp. 348
-
-
Srivastava, P.1
Moturu, T.2
Pandey, P.3
-
28
-
-
84891796290
-
miRTarBase update 2014: An information resource for experimentally validated miRNA-target interactions
-
Hsu S, Tseng Y, Shrestha S, et al. miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions. Nucleic Acids Res 2014;42:D78-85.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D78-D85
-
-
Hsu, S.1
Tseng, Y.2
Shrestha, S.3
-
29
-
-
84862176128
-
TarBase 6.0: Capturing the exponential growth of miRNA targets with experimental support
-
Vergoulis T, Vlachos IS, Alexiou P, et al. TarBase 6.0: capturing the exponential growth of miRNA targets with experimental support. Nucleic Acids Res 2011;40: 222-9.
-
(2011)
Nucleic Acids Res
, vol.40
, pp. 222-229
-
-
Vergoulis, T.1
Vlachos, I.S.2
Alexiou, P.3
-
30
-
-
58149186499
-
miRecords: An integrated resource for microRNA-target interactions
-
Xiao F, Zuo Z, Cai G, et al. miRecords: an integrated resource for microRNA-target interactions. Nucleic Acids Res 2009;37:D105-10.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D105-D110
-
-
Xiao, F.1
Zuo, Z.2
Cai, G.3
-
31
-
-
58149179989
-
miR2Disease: A manually curated database for microRNA deregulation in human disease
-
Jiang Q, Wang Y, Hao Y, et al. miR2Disease: a manually curated database for microRNA deregulation in human disease. Nucleic Acids Res 2009;37:D98-104.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D98-104
-
-
Jiang, Q.1
Wang, Y.2
Hao, Y.3
-
32
-
-
84874726726
-
miRCancer: A microRNA-cancer association database constructed by text mining on literature
-
Xie B, Ding Q, Han H, et al. miRCancer: a microRNA-cancer association database constructed by text mining on literature. Bioinformatics 2013;29:638-44.
-
(2013)
Bioinformatics
, vol.29
, pp. 638-644
-
-
Xie, B.1
Ding, Q.2
Han, H.3
-
33
-
-
84874271270
-
NCBI GEO: Archive for functional genomics data sets-update
-
Barrett T, Wilhite SE, Ledoux P, et al. NCBI GEO: archive for functional genomics data sets-update. Nucleic Acids Res 2013;41:D991-5.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D991-D995
-
-
Barrett, T.1
Wilhite, S.E.2
Ledoux, P.3
-
34
-
-
59449085150
-
Global analysis of cellular protein translation by pulsed SILAC
-
Schwanhausser B, Gossen M, Dittmar G, et al. Global analysis of cellular protein translation by pulsed SILAC. Proteomics 2009;9:205-9.
-
(2009)
Proteomics
, vol.9
, pp. 205-209
-
-
Schwanhausser, B.1
Gossen, M.2
Dittmar, G.3
-
35
-
-
77953126039
-
Small noncoding RNAs: Biogenesis, function, and emerging significance in toxicology
-
Choudhuri S. Small noncoding RNAs: biogenesis, function, and emerging significance in toxicology. J Biochem Mol Toxicol 2010;24:195-216.
-
(2010)
J Biochem Mol Toxicol
, vol.24
, pp. 195-216
-
-
Choudhuri, S.1
-
36
-
-
53349143150
-
Small RNAs in development and disease
-
Sun BK, Tsao H. Small RNAs in development and disease. J Am Acad Dermatol 2008;59:738-40.
-
(2008)
J Am Acad Dermatol
, vol.59
, pp. 738-740
-
-
Sun, B.K.1
Tsao, H.2
-
37
-
-
33947224690
-
Transcripts targeted by the microRNA-16 family cooperatively regulate cell cycle progression
-
Linsley PS, Schelter J, Burchard J, et al. Transcripts targeted by the microRNA-16 family cooperatively regulate cell cycle progression. Mol Cell Biol 2007;27:2240-52.
-
(2007)
Mol Cell Biol
, vol.27
, pp. 2240-2252
-
-
Linsley, P.S.1
Schelter, J.2
Burchard, J.3
-
38
-
-
34250851115
-
A microRNA component of the p53 tumour suppressor network
-
He L, He X, Lim LP, et al. A microRNA component of the p53 tumour suppressor network. Nature 2007;447:1130-4.
-
(2007)
Nature
, vol.447
, pp. 1130-1134
-
-
He, L.1
He, X.2
Lim, L.P.3
-
39
-
-
34250805982
-
MicroRNA targeting specificity in mammals: Determinants beyond seed pairing
-
Grimson A, Farh KK, Johnston WK, et al. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell 2007;27:91-105.
-
(2007)
Mol Cell
, vol.27
, pp. 91-105
-
-
Grimson, A.1
Farh, K.K.2
Johnston, W.K.3
-
40
-
-
77955963884
-
Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites
-
Betel D, Koppal A, Agius P, et al. Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites. Genome Biol 2010;11:R90.
-
(2010)
Genome Biol
, vol.11
, pp. R90
-
-
Betel, D.1
Koppal, A.2
Agius, P.3
-
41
-
-
84871214022
-
miRmap: Comprehensive prediction of microRNA target repression strength
-
Vejnar CE, Zdobnov EM. miRmap: comprehensive prediction of microRNA target repression strength. Nucleic Acids Res 2012;40:11673-83.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 11673-11683
-
-
Vejnar, C.E.1
Zdobnov, E.M.2
-
42
-
-
49949117302
-
Widespread changes in protein synthesis induced by microRNAs
-
Selbach M, Schwanhausser B, Thierfelder N, et al. Widespread changes in protein synthesis induced by microRNAs. Nature 2008;455:58-63.
-
(2008)
Nature
, vol.455
, pp. 58-63
-
-
Selbach, M.1
Schwanhausser, B.2
Thierfelder, N.3
-
43
-
-
38849145861
-
Prediction of both conserved and nonconserved microRNA targets in animals
-
Wang X, El Naqa IM. Prediction of both conserved and nonconserved microRNA targets in animals. Bioinformatics 2008;24:325-32.
-
(2008)
Bioinformatics
, vol.24
, pp. 325-332
-
-
Wang, X.1
El Naqa, I.M.2
-
44
-
-
0346094457
-
Prediction of mammalian MicroRNA targets
-
Lewis BP, Shih I, Jones-Rhoades M, et al. Prediction of mammalian MicroRNA targets. Cell 2003;115:787-98.
-
(2003)
Cell
, vol.115
, pp. 787-798
-
-
Lewis, B.P.1
Shih, I.2
Jones-rhoades, M.3
-
45
-
-
2442672918
-
A combined computational-experimental approach predicts human microRNA targets
-
Kiriakidou M, Nelson PT, Kouranov A, et al. A combined computational-experimental approach predicts human microRNA targets. Genes Dev 2004;18:1165-78.
-
(2004)
Genes Dev
, vol.18
, pp. 1165-1178
-
-
Kiriakidou, M.1
Nelson, P.T.2
Kouranov, A.3
-
46
-
-
27344456287
-
microRNA target predictions across seven drosophila species and comparison to mammalian targets
-
e13
-
Grun D, Wang Y, Langenberger D, et al. microRNA target predictions across seven drosophila species and comparison to mammalian targets. PLoS Comput Biol 2005;1:e13.
-
(2005)
PLoS Comput Biol
, vol.1
-
-
Grun, D.1
Wang, Y.2
Langenberger, D.3
-
47
-
-
4644237189
-
Fast and effective prediction of microRNA/target duplexes
-
Rehmsmeier M, Steffen P, Hochsmann M, et al. Fast and effective prediction of microRNA/target duplexes. RNA 2004;10:1507-17.
-
(2004)
RNA
, vol.10
, pp. 1507-1517
-
-
Rehmsmeier, M.1
Steffen, P.2
Hochsmann, M.3
-
48
-
-
60649111889
-
HuMiTar: A sequence-based method for prediction of human microRNA targets
-
Ruan J, Chen H, Kurgan L, et al. HuMiTar: a sequence-based method for prediction of human microRNA targets. Algorithms Mol Biol 2008;3:16.
-
(2008)
Algorithms Mol Biol
, vol.3
, pp. 16
-
-
Ruan, J.1
Chen, H.2
Kurgan, L.3
-
49
-
-
70350000602
-
TargetMiner: MicroRNA target prediction with systematic identification of tissue-specific negative examples
-
Bandyopadhyay S, Mitra R. TargetMiner: MicroRNA target prediction with systematic identification of tissue-specific negative examples. Bioinformatics 2009;25:2625-31.
-
(2009)
Bioinformatics
, vol.25
, pp. 2625-2631
-
-
Bandyopadhyay, S.1
Mitra, R.2
-
50
-
-
77956846500
-
Improving performance of mammalian microRNA target prediction
-
Liu H, Yue D, Chen Y, et al. Improving performance of mammalian microRNA target prediction. BMC Bioinformatics 2010;11:476.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 476
-
-
Liu, H.1
Yue, D.2
Chen, Y.3
-
51
-
-
78651329275
-
Efficient use of accessibility in microRNA target prediction
-
Marín RM, Vaníček J. Efficient use of accessibility in microRNA target prediction. Nucleic Acids Res 2011;39:19-29.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 19-29
-
-
Marín, R.M.1
Vaníček, J.2
-
52
-
-
77952671774
-
TargetSpy: A supervised machine learning approach for microRNA target prediction
-
Sturm M, Hackenberg M, Langenberger D, et al. TargetSpy: a supervised machine learning approach for microRNA target prediction. BMC Bioinformatics 2010;11:292.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 292
-
-
Sturm, M.1
Hackenberg, M.2
Langenberger, D.3
-
53
-
-
75149129669
-
MTar: A computational microRNA target prediction architecture for human transcriptome
-
Chandra V, Girijadevi R, Nair A, et al. MTar: a computational microRNA target prediction architecture for human transcriptome. BMC Bioinformatics 2010;11:S2.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. S2
-
-
Chandra, V.1
Girijadevi, R.2
Nair, A.3
-
54
-
-
67650747402
-
DIANA-microT web server: Elucidating microRNA functions through target prediction
-
Maragkakis M, Reczko M, Simossis VA, et al. DIANA-microT web server: elucidating microRNA functions through target prediction. Nucleic Acids Res 2009;37:W273-6.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. W273-W276
-
-
Maragkakis, M.1
Reczko, M.2
Simossis, V.A.3
-
56
-
-
11844278458
-
conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are MicroRNA targets
-
Lewis BP, Burge CB, Bartel DP. conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are MicroRNA targets. Cell 2005;120:15-20.
-
(2005)
Cell
, vol.120
, pp. 15-20
-
-
Lewis, B.P.1
Burge, C.B.2
Bartel, D.P.3
-
57
-
-
15244354492
-
Incorporating structure to predict microRNA targets
-
Robins H, Li Y, Padgett RW. Incorporating structure to predict microRNA targets. Proc Nat Acad Sci USA 2005;102:4006-9.
-
(2005)
Proc Nat Acad Sci USA
, vol.102
, pp. 4006-4009
-
-
Robins, H.1
Li, Y.2
Padgett, R.W.3
-
58
-
-
15244358503
-
Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals
-
Xie X, Lu J, Kulbokas EJ, et al. Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals. Nature 2005;434:338-45.
-
(2005)
Nature
, vol.434
, pp. 338-345
-
-
Xie, X.1
Lu, J.2
Kulbokas, E.J.3
-
59
-
-
25444461163
-
Prediction and verification of microRNA targets by MovingTargets, a highly adaptable prediction method
-
Burgler C, Macdonald PM. Prediction and verification of microRNA targets by MovingTargets, a highly adaptable prediction method. BMC Genomics 2005;6:88.
-
(2005)
BMC Genomics
, vol.6
, pp. 88
-
-
Burgler, C.1
Macdonald, P.M.2
-
60
-
-
23144449159
-
MicroInspector: A web tool for detection of miRNA binding sites in an RNA sequence
-
Rusinov V, Baev V, Minkov IN, et al. MicroInspector: a web tool for detection of miRNA binding sites in an RNA sequence. Nucleic Acids Res 2005;33:W696-700.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W696-W700
-
-
Rusinov, V.1
Baev, V.2
Minkov, I.N.3
-
61
-
-
22244447130
-
Weighted sequence motifs as an improved seeding step in microRNA target prediction algorithms
-
Saetrom O, Snove O, Jr, Saetrom P. Weighted sequence motifs as an improved seeding step in microRNA target prediction algorithms. RNA 2005;11:995-1003.
-
(2005)
RNA
, vol.11
, pp. 995-1003
-
-
Saetrom, O.1
Snove, O.2
Saetrom, P.3
-
62
-
-
28944439309
-
Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution
-
Stark A, Brennecke J, Bushati N, Cohen SM, et al. Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution. Cell 2005;123: 1133-46.
-
(2005)
Cell
, vol.123
, pp. 1133-1146
-
-
Stark, A.1
Brennecke, J.2
Bushati, N.3
Cohen, S.M.4
-
63
-
-
33749645474
-
miTarget: MicroRNA target gene prediction using a support vector machine
-
Kim SK, Nam JW, Rhee JK, et al. miTarget: MicroRNA target gene prediction using a support vector machine. BMC Bioinformatics 2006;7:411.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 411
-
-
Kim, S.K.1
Nam, J.W.2
Rhee, J.K.3
-
64
-
-
33947424813
-
MicroTar: Predicting microRNA targets from RNA duplexes
-
Thadani R, Tammi M. MicroTar: predicting microRNA targets from RNA duplexes. BMC Bioinformatics 2006;7:S20.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. S20
-
-
Thadani, R.1
Tammi, M.2
-
65
-
-
34347398567
-
Inference of miRNA targets using evolutionary conservation and pathway analysis
-
Gaidatzis D, van Nimwegen E, Hausser J, et al. Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics 2007;8:69.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 69
-
-
Gaidatzis, D.1
van Nimwegen, E.2
Hausser, J.3
-
66
-
-
34247258888
-
Potent effect of target structure on microRNA function
-
Long D, Lee R, Williams P, et al. Potent effect of target structure on microRNA function. Nat Struct Mol Biol 2007;14:287-94.
-
(2007)
Nat Struct Mol Biol
, vol.14
, pp. 287-294
-
-
Long, D.1
Lee, R.2
Williams, P.3
-
67
-
-
34748821761
-
The role of site accessibility in microRNA target recognition
-
Kertesz M, Iovino N, Unnerstall U, et al. The role of site accessibility in microRNA target recognition. Nat Genet 2007;39:1278-84.
-
(2007)
Nat Genet
, vol.39
, pp. 1278-1284
-
-
Kertesz, M.1
Iovino, N.2
Unnerstall, U.3
-
68
-
-
35548996307
-
Determinants of targeting by endogenous and exogenous microRNAs and siRNAs
-
Nielsen C, Shomron N, Sandberg R, et al. Determinants of targeting by endogenous and exogenous microRNAs and siRNAs. RNA 2007;13:1894-910.
-
(2007)
RNA
, vol.13
, pp. 1894-1910
-
-
Nielsen, C.1
Shomron, N.2
Sandberg, R.3
-
69
-
-
78651271681
-
RepTar: A database of predicted cellular targets of host and viral miRNAs
-
Elefant N, Berger A, Shein H, et al. RepTar: a database of predicted cellular targets of host and viral miRNAs. Nucleic Acids Res 2011;39:D188-94.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D188-D194
-
-
Elefant, N.1
Berger, A.2
Shein, H.3
-
70
-
-
80052842349
-
MultiMiTar: A novel multi objective optimization based miRNA-target prediction method
-
e24583
-
Mitra R, Bandyopadhyay S. MultiMiTar: a novel multi objective optimization based miRNA-target prediction method. PLoS One 2011;6:e24583.
-
(2011)
PLoS One
, vol.6
-
-
Mitra, R.1
Bandyopadhyay, S.2
-
72
-
-
84865138690
-
miRcode: A map of putative microRNA target sites in the long non-coding transcriptome
-
Jeggari A, Marks DS, Larsson E. miRcode: a map of putative microRNA target sites in the long non-coding transcriptome. Bioinformatics 2012;28:2062-3.
-
(2012)
Bioinformatics
, vol.28
, pp. 2062-2063
-
-
Jeggari, A.1
Marks, D.S.2
Larsson, E.3
-
73
-
-
84876118031
-
HomoTarget: A new algorithm for prediction of microRNA targets in homo sapiens
-
Ahmadi H, Ahmadi A, Azimzadeh-Jamalkandi S, et al. HomoTarget: a new algorithm for prediction of microRNA targets in homo sapiens. Genomics 2013;101:94-100.
-
(2013)
Genomics
, vol.101
, pp. 94-100
-
-
Ahmadi, H.1
Ahmadi, A.2
Azimzadeh-jamalkandi, S.3
-
74
-
-
84885125371
-
Identifying mammalian MicroRNA targets based on supervised distance metric learning
-
Liu H, Zhou S, Guan J. Identifying mammalian MicroRNA targets based on supervised distance metric learning. IEEE Trans Inf Technol Biomed 2012;17:427-35.
-
(2012)
IEEE Trans Inf Technol Biomed
, vol.17
, pp. 427-435
-
-
Liu, H.1
Zhou, S.2
Guan, J.3
-
75
-
-
84877344111
-
miRNA-target prediction based on transcriptional regulation
-
Fujiwara T, Yada T. miRNA-target prediction based on transcriptional regulation. BMC Genomics 2013;14:S3.
-
(2013)
BMC Genomics
, vol.14
, pp. S3
-
-
Fujiwara, T.1
Yada, T.2
-
76
-
-
0025224223
-
Biophysical and molecular mechanisms of shaker potassium channel inactivation
-
Hoshi T, Zagotta WN, Aldrich RW. Biophysical and molecular mechanisms of shaker potassium channel inactivation. Science. 1990;250:533-8.
-
(1990)
Science
, vol.250
, pp. 533-538
-
-
Hoshi, T.1
Zagotta, W.N.2
Aldrich, R.W.3
-
77
-
-
70449372292
-
Accurate microRNA target prediction correlates with protein repression levels
-
Maragkakis M, Alexiou P, Papadopoulos GL, et al. Accurate microRNA target prediction correlates with protein repression levels. BMC Bioinformatics 2009;10:295.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 295
-
-
Maragkakis, M.1
Alexiou, P.2
Papadopoulos, G.L.3
-
78
-
-
79960003009
-
DIANA-microT web server upgrade supports fly and worm miRNA target prediction and bibliographic miRNA to disease association
-
Maragkakis M, Vergoulis T, Alexiou P, et al. DIANA-microT web server upgrade supports fly and worm miRNA target prediction and bibliographic miRNA to disease association. Nucleic Acids Res 2011;39:W145-8.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W145-W148
-
-
Maragkakis, M.1
Vergoulis, T.2
Alexiou, P.3
-
79
-
-
84883579190
-
DIANA-microT web server v5.0: Service integration into miRNA functional analysis workflows
-
Paraskevopoulou MD, Georgakilas G, Kostoulas N, et al. DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows. Nucleic Acids Res 2013;41:W169-73.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W169-W173
-
-
Paraskevopoulou, M.D.1
Georgakilas, G.2
Kostoulas, N.3
-
80
-
-
84861963461
-
doRiNA: A database of RNA interactions in post-transcriptional regulation
-
Anders G, Mackowiak SD, Jens M, et al. doRiNA: a database of RNA interactions in post-transcriptional regulation. Nucleic Acids Res 2012;40:D180-6.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D180-D186
-
-
Anders, G.1
Mackowiak, S.D.2
Jens, M.3
-
81
-
-
80052204561
-
Structural protein descriptors in 1-dimension and their sequence-based predictions
-
Kurgan L, Disfani FM. Structural protein descriptors in 1-dimension and their sequence-based predictions. Curr Protein Pept Sci 2011;12:470-89.
-
(2011)
Curr Protein Pept Sci
, vol.12
, pp. 470-489
-
-
Kurgan, L.1
Disfani, F.M.2
-
83
-
-
19544390155
-
Predicting and validating microRNA targets
-
Lai EC. Predicting and validating microRNA targets. Genome Biol 2004;5:115.
-
(2004)
Genome Biol
, vol.5
, pp. 115
-
-
Lai, E.C.1
-
84
-
-
84893675394
-
MicroRNA targets-how to predict?
-
Das N. MicroRNA targets-how to predict? Bioinformation 2012;8:841-5.
-
(2012)
Bioinformation
, vol.8
, pp. 841-845
-
-
Das, N.1
-
85
-
-
0043123153
-
Vienna RNA secondary structure server
-
Hofacker IL. Vienna RNA secondary structure server. Nucleic Acids Res 2003;31:3429-31.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3429-3431
-
-
Hofacker, I.L.1
-
86
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
Zuker M. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 2003;31:3406-15.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
-
87
-
-
23144440350
-
DINAMelt web server for nucleic acid melting prediction
-
Markham NR, Zuker M. DINAMelt web server for nucleic acid melting prediction. Nucleic Acids Res 2005;33:W577-81.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W577-W581
-
-
Markham, N.R.1
Zuker, M.2
-
88
-
-
3242877996
-
Sfold web server for statistical folding and rational design of nucleic acids
-
Ding Y, Chan CY, Lawrence CE. Sfold web server for statistical folding and rational design of nucleic acids. Nucleic Acids Res 2004;32:W135-41.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. W135-W141
-
-
Ding, Y.1
Chan, C.Y.2
Lawrence, C.E.3
-
89
-
-
45749154794
-
Molecular architecture of a miRNA-regulated 3' UTR
-
Didiano D, Hobert O. Molecular architecture of a miRNA-regulated 3' UTR. RNA 2008;14:1297-317.
-
(2008)
RNA
, vol.14
, pp. 1297-1317
-
-
Didiano, D.1
Hobert, O.2
-
90
-
-
84875612231
-
The majority of endogenous microRNA targets within alu elements avoid the microRNA machinery
-
Hoffman Y, Dahary D, Bublik DR, et al. The majority of endogenous microRNA targets within alu elements avoid the microRNA machinery. Bioinformatics 2013;29: 894-902.
-
(2013)
Bioinformatics
, vol.29
, pp. 894-902
-
-
Hoffman, Y.1
Dahary, D.2
Bublik, D.R.3
-
91
-
-
33947262696
-
AU-rich-element-mediated upregulation of translation by FXR1 and argonaute 2
-
Vasudevan S, Steitz JA. AU-rich-element-mediated upregulation of translation by FXR1 and argonaute 2. Cell 2007;128:1105-18.
-
(2007)
Cell
, vol.128
, pp. 1105-1118
-
-
Vasudevan, S.1
Steitz, J.A.2
-
92
-
-
79958165626
-
Assessing the utility of thermodynamic features for microRNA target prediction under relaxed seed and no conservation requirements
-
e20622
-
Lekprasert P, Mayhew M, Ohler U. Assessing the utility of thermodynamic features for microRNA target prediction under relaxed seed and no conservation requirements. PLoS One 2011;6:e20622.
-
(2011)
PLoS One
, vol.6
-
-
Lekprasert, P.1
Mayhew, M.2
Ohler, U.3
-
93
-
-
84875992976
-
Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation
-
Hausser J, Syed AP, Bilen B, et al. Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation. Genome Res 2013;23:604-15.
-
(2013)
Genome Res
, vol.23
, pp. 604-615
-
-
Hausser, J.1
Syed, A.P.2
Bilen, B.3
-
94
-
-
84875409279
-
Searching the coding region for microRNA targets
-
Marín RM, Šulc M, Vaníček J. Searching the coding region for microRNA targets. RNA 2013;19:467-74.
-
(2013)
RNA
, vol.19
, pp. 467-474
-
-
Marín, R.M.1
Šulc, M.2
Vaníček, J.3
-
95
-
-
77955644289
-
Mammalian microRNAs predominantly act to decrease target mRNA levels
-
Guo H, Ingolia NT, Weissman JS, et al. Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature 2010;466:835-40.
-
(2010)
Nature
, vol.466
, pp. 835-840
-
-
Guo, H.1
Ingolia, N.T.2
Weissman, J.S.3
-
96
-
-
84859978927
-
Target gene expression levels and competition between transfected and endogenous microRNAs are strong confounding factors in microRNA high-throughput experiments
-
Saito T, Saetrom P. Target gene expression levels and competition between transfected and endogenous microRNAs are strong confounding factors in microRNA high-throughput experiments. Silence 2012;3:1-15.
-
(2012)
Silence
, vol.3
, pp. 1-15
-
-
Saito, T.1
Saetrom, P.2
-
97
-
-
31044444975
-
TarBase: A comprehensive database of experimentally supported animal microRNA targets
-
Sethupathy P, Corda B, Hatzigeorgiou AG. TarBase: a comprehensive database of experimentally supported animal microRNA targets. RNA 2006;12:192-7.
-
(2006)
RNA
, vol.12
, pp. 192-197
-
-
Sethupathy, P.1
Corda, B.2
Hatzigeorgiou, A.G.3
-
98
-
-
38549124383
-
The microRNA.org resource: Targets and expression
-
Betel D, Wilson M, Gabow A, et al. The microRNA.org resource: targets and expression. Nucleic Acids Res 2008;36:D149-53.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D149-D153
-
-
Betel, D.1
Wilson, M.2
Gabow, A.3
-
99
-
-
79952907985
-
The impact of miRNA target sites in coding sequences and in 3'UTRs
-
e18067
-
Fang Z, Rajewsky N. The impact of miRNA target sites in coding sequences and in 3'UTRs. PLoS One 2011;6:e18067.
-
(2011)
PLoS One
, vol.6
-
-
Fang, Z.1
Rajewsky, N.2
-
100
-
-
84876935138
-
Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding
-
Helwak A, Kudla G, Dudnakova T, et al. Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding. Cell 2013;153:654-65.
-
(2013)
Cell
, vol.153
, pp. 654-665
-
-
Helwak, A.1
Kudla, G.2
Dudnakova, T.3
-
101
-
-
60149095444
-
Most mammalian mRNAs are conserved targets of microRNAs
-
Friedman RC, Farh KK, Burge CB, et al. Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 2009;19:92-105.
-
(2009)
Genome Res
, vol.19
, pp. 92-105
-
-
Friedman, R.C.1
Farh, K.K.2
Burge, C.B.3
-
102
-
-
1642374097
-
Specificity of microRNA target selection in translational repression
-
Doench JG, Sharp PA. Specificity of microRNA target selection in translational repression. Gene Dev 2004;18:504-11.
-
(2004)
Gene Dev
, vol.18
, pp. 504-511
-
-
Doench, J.G.1
Sharp, P.A.2
-
103
-
-
33745248430
-
microRNA target predictions in animals
-
Rajewsky N. microRNA target predictions in animals. Nat Genet 2006;38:S8-S13.
-
(2006)
Nat Genet
, vol.38
, pp. S8-S13
-
-
Rajewsky, N.1
-
104
-
-
84872242932
-
mirTarPri: Improved prioritization of microRNA targets through incorporation of functional genomics data
-
e53685
-
Wang P, Ning S, Wang Q, et al. mirTarPri: improved prioritization of microRNA targets through incorporation of functional genomics data. PLoS One 2013;8:e53685.
-
(2013)
PLoS One
, vol.8
-
-
Wang, P.1
Ning, S.2
Wang, Q.3
-
105
-
-
84891818924
-
starBase v2.0: Decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-seq data
-
Li J, Liu S, Zhou H, et al. starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-seq data. Nucleic Acids Res 2014;42:D92-7.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D92-D97
-
-
Li, J.1
Liu, S.2
Zhou, H.3
-
106
-
-
84883157920
-
BayMiR: Inferring evidence for endogenous miRNA-induced gene repression from mRNA expression profiles
-
Radfar H, Wong W, Morris Q. BayMiR: inferring evidence for endogenous miRNA-induced gene repression from mRNA expression profiles. BMC Genomics 2013;14:592.
-
(2013)
BMC Genomics
, vol.14
, pp. 592
-
-
Radfar, H.1
Wong, W.2
Morris, Q.3
|