-
1
-
-
73349122299
-
Evolutionary flux of canonical microRNAs and mirtrons in Drosophila
-
author reply 9-10. doi: 10.1038/ng0110-6
-
Berezikov, E., Liu, N., Flynt, A. S., Hodges, E., Rooks, M., Hannon, G. J., et al. (2010). Evolutionary flux of canonical microRNAs and mirtrons in Drosophila. Nat. Genet. 42, 6-9; author reply 9-10. doi: 10.1038/ng0110-6
-
(2010)
Nat. Genet.
, vol.42
, pp. 6-9
-
-
Berezikov, E.1
Liu, N.2
Flynt, A.S.3
Hodges, E.4
Rooks, M.5
Hannon, G.J.6
-
2
-
-
84873541811
-
The role of GW182 proteins in miRNA-mediated gene silencing
-
doi: 10.1007/978-1-4614-5107-5_9
-
Braun, J. E., Huntzinger, E., and Izaurralde, E. (2013). The role of GW182 proteins in miRNA-mediated gene silencing. Adv. Exp. Med. Biol. 768, 147-163. doi: 10.1007/978-1-4614-5107-5_9
-
(2013)
Adv. Exp. Med. Biol.
, vol.768
, pp. 147-163
-
-
Braun, J.E.1
Huntzinger, E.2
Izaurralde, E.3
-
3
-
-
77952368550
-
Mammalian microRNAs: experimental evaluation of novel and previously annotated genes
-
doi: 10.1101/gad.1884710
-
Chiang, H. R., Schoenfeld, L. W., Ruby, J. G., Auyeung, V. C., Spies, N., Baek, D., et al. (2010). Mammalian microRNAs: experimental evaluation of novel and previously annotated genes. Genes Dev. 24, 992-1009. doi: 10.1101/gad.1884710
-
(2010)
Genes Dev.
, vol.24
, pp. 992-1009
-
-
Chiang, H.R.1
Schoenfeld, L.W.2
Ruby, J.G.3
Auyeung, V.C.4
Spies, N.5
Baek, D.6
-
4
-
-
77953897182
-
A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity
-
doi: 10.1126/science.1190809
-
Cifuentes, D., Xue, H., Taylor, D. W., Patnode, H., Mishima, Y., Cheloufi, S., et al. (2010). A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity. Science 328, 1694-1698. doi: 10.1126/science.1190809
-
(2010)
Science
, vol.328
, pp. 1694-1698
-
-
Cifuentes, D.1
Xue, H.2
Taylor, D.W.3
Patnode, H.4
Mishima, Y.5
Cheloufi, S.6
-
5
-
-
84870050971
-
Bioinformatic analysis of barcoded cDNA libraries for small RNA profiling by next-generation sequencing
-
doi: 10.1016/j.ymeth.2012.07.020
-
Farazi, T. A., Brown, M., Morozov, P., Ten Hoeve, J. J., Ben-Dov, I. Z., Hovestadt, V., et al. (2012). Bioinformatic analysis of barcoded cDNA libraries for small RNA profiling by next-generation sequencing. Methods 58, 171-187. doi: 10.1016/j.ymeth.2012.07.020
-
(2012)
Methods
, vol.58
, pp. 171-187
-
-
Farazi, T.A.1
Brown, M.2
Morozov, P.3
Ten Hoeve, J.J.4
Ben-Dov, I.Z.5
Hovestadt, V.6
-
6
-
-
79959913677
-
MicroRNA sequence and expression analysis in breast tumors by deep sequencing
-
doi: 10.1158/0008-5472.CAN-11-0608
-
Farazi, T. A., Horlings, H. M., Ten Hoeve, J. J., Mihailovic, A., Halfwerk, H., Morozov, P., et al. (2011). MicroRNA sequence and expression analysis in breast tumors by deep sequencing. Cancer Res. 71, 4443-4453. doi: 10.1158/0008-5472.CAN-11-0608
-
(2011)
Cancer Res.
, vol.71
, pp. 4443-4453
-
-
Farazi, T.A.1
Horlings, H.M.2
Ten Hoeve, J.J.3
Mihailovic, A.4
Halfwerk, H.5
Morozov, P.6
-
7
-
-
84875391572
-
Ensembl 2013
-
doi: 10.1093/nar/gks1236
-
Flicek, P., Ahmed, I., Amode, M. R., Barrell, D., Beal, K., Brent, S., et al. (2013). Ensembl 2013. Nucleic Acids Res. 41, D48-D55. doi: 10.1093/nar/gks1236
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Flicek, P.1
Ahmed, I.2
Amode, M.R.3
Barrell, D.4
Beal, K.5
Brent, S.6
-
8
-
-
77953479619
-
Structural basis for 5'-nucleotide base-specific recognition of guide RNA by human AGO2
-
doi: 10.1038/nature09039
-
Frank, F., Sonenberg, N., and Nagar, B. (2010). Structural basis for 5'-nucleotide base-specific recognition of guide RNA by human AGO2. Nature 465, 818-822. doi: 10.1038/nature09039
-
(2010)
Nature
, vol.465
, pp. 818-822
-
-
Frank, F.1
Sonenberg, N.2
Nagar, B.3
-
9
-
-
60149095444
-
Most mammalian mRNAs are conserved targets of microRNAs
-
doi: 10.1101/gr.082701.108
-
Friedman, R. C., Farh, K. K., Burge, C. B., and Bartel, D. P. (2009). Most mammalian mRNAs are conserved targets of microRNAs. Genome Res. 19, 92-105. doi: 10.1101/gr.082701.108
-
(2009)
Genome Res.
, vol.19
, pp. 92-105
-
-
Friedman, R.C.1
Farh, K.K.2
Burge, C.B.3
Bartel, D.P.4
-
10
-
-
38549150275
-
miRBase: tools for microRNA genomics
-
doi: 10.1093/nar/gkm952
-
Griffiths-Jones, S., Saini, H. K., Van Dongen, S., and Enright, A. J. (2008). miRBase: tools for microRNA genomics. Nucleic Acids Res. 36, D154-D158. doi: 10.1093/nar/gkm952
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Griffiths-Jones, S.1
Saini, H.K.2
Van Dongen, S.3
Enright, A.J.4
-
11
-
-
84860389888
-
RNA-ligase-dependent biases in miRNA representation in deep-sequenced small RNA cDNA libraries
-
doi: 10.1261/rna.2799511
-
Hafner, M., Renwick, N., Brown, M., Mihailovic, A., Holoch, D., Lin, C., et al. (2011). RNA-ligase-dependent biases in miRNA representation in deep-sequenced small RNA cDNA libraries. RNA 17, 1697-1712. doi: 10.1261/rna.2799511
-
(2011)
RNA
, vol.17
, pp. 1697-1712
-
-
Hafner, M.1
Renwick, N.2
Brown, M.3
Mihailovic, A.4
Holoch, D.5
Lin, C.6
-
12
-
-
3042602447
-
Kinetic analysis of the RNAi enzyme complex
-
doi: 10.1038/nsmb780
-
Haley, B., and Zamore, P. D. (2004). Kinetic analysis of the RNAi enzyme complex. Nat. Struct. Mol. Biol. 11, 599-606. doi: 10.1038/nsmb780
-
(2004)
Nat. Struct. Mol. Biol.
, vol.11
, pp. 599-606
-
-
Haley, B.1
Zamore, P.D.2
-
13
-
-
0043123153
-
Vienna RNA secondary structure server
-
doi: 10.1093/nar/gkg599
-
Hofacker, I. L. (2003). Vienna RNA secondary structure server. Nucleic Acids Res. 31, 3429-3431. doi: 10.1093/nar/gkg599
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3429-3431
-
-
Hofacker, I.L.1
-
14
-
-
0037144546
-
A microRNA in a multiple-turnover RNAi enzyme complex
-
doi: 10.1126/science.1073827
-
Hutvagner, G., and Zamore, P. D. (2002). A microRNA in a multiple-turnover RNAi enzyme complex. Science 297, 2056-2060. doi: 10.1126/science.1073827
-
(2002)
Science
, vol.297
, pp. 2056-2060
-
-
Hutvagner, G.1
Zamore, P.D.2
-
15
-
-
58849112575
-
Biogenesis of small RNAs in animals
-
doi: 10.1038/nrm2632
-
Kim, V. N., Han, J., and Siomi, M. C. (2009). Biogenesis of small RNAs in animals. Nat. Rev. Mol. Cell Biol. 10, 126-139. doi: 10.1038/nrm2632
-
(2009)
Nat. Rev. Mol. Cell Biol.
, vol.10
, pp. 126-139
-
-
Kim, V.N.1
Han, J.2
Siomi, M.C.3
-
16
-
-
78651293534
-
miRBase: integrating microRNA annotation and deep-sequencing data
-
doi: 10.1093/nar/gkq1027
-
Kozomara, A., and Griffiths-Jones, S. (2011). miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res. 39, D152-D157. doi: 10.1093/nar/gkq1027
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Kozomara, A.1
Griffiths-Jones, S.2
-
17
-
-
77955902024
-
The widespread regulation of microRNA biogenesis, function, and decay
-
doi: 10.1038/nrg2843
-
Krol, J., Loedige, I., and Filipowicz, W. (2010). The widespread regulation of microRNA biogenesis, function, and decay. Nat. Rev. Genet. 11, 597-610. doi: 10.1038/nrg2843
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 597-610
-
-
Krol, J.1
Loedige, I.2
Filipowicz, W.3
-
18
-
-
34250877841
-
A mammalian microRNA expression atlas based on small RNA library sequencing
-
doi: 10.1016/j.cell.2007.04.040
-
Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin, A., et al. (2007). A mammalian microRNA expression atlas based on small RNA library sequencing. Cell 129, 1401-1414. doi: 10.1016/j.cell.2007.04.040
-
(2007)
Cell
, vol.129
, pp. 1401-1414
-
-
Landgraf, P.1
Rusu, M.2
Sheridan, R.3
Sewer, A.4
Iovino, N.5
Aravin, A.6
-
19
-
-
0035955361
-
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
-
doi: 10.1126/science.1065062
-
Lau, N. C., Lim, L. P., Weinstein, E. G., and Bartel, D. P. (2001). An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294, 858-862. doi: 10.1126/science.1065062
-
(2001)
Science
, vol.294
, pp. 858-862
-
-
Lau, N.C.1
Lim, L.P.2
Weinstein, E.G.3
Bartel, D.P.4
-
20
-
-
0141843656
-
The nuclear RNase III Drosha initiates microRNA processing
-
doi: 10.1038/nature01957
-
Lee, Y., Ahn, C., Han, J., Choi, H., Kim, J., Yim, J., et al. (2003). The nuclear RNase III Drosha initiates microRNA processing. Nature 425, 415-419.doi: 10.1038/nature01957
-
(2003)
Nature
, vol.425
, pp. 415-419
-
-
Lee, Y.1
Ahn, C.2
Han, J.3
Choi, H.4
Kim, J.5
Yim, J.6
-
21
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
doi: 10.1093/bioinformatics/btp324
-
Li, H., and Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760. doi: 10.1093/bioinformatics/btp324
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
22
-
-
84860762769
-
Are all the miRBase-registered microRNAs true? A structure- and expression-based re-examination in plants
-
doi: 10.4161/rna.19230
-
Meng, Y., Shao, C., Wang, H., and Chen, M. (2012). Are all the miRBase-registered microRNAs true? A structure- and expression-based re-examination in plants. RNA Biol. 9, 249-253. doi: 10.4161/rna.19230
-
(2012)
RNA Biol.
, vol.9
, pp. 249-253
-
-
Meng, Y.1
Shao, C.2
Wang, H.3
Chen, M.4
-
23
-
-
84875404794
-
The UCSC Genome Browser database: extensions and updates 2013
-
doi: 10.1093/nar/gks1048
-
Meyer, L. R., Zweig, A. S., Hinrichs, A. S., Karolchik, D., Kuhn, R. M., Wong, M., et al. (2013). The UCSC Genome Browser database: extensions and updates 2013. Nucleic Acids Res. 41, D64-D69. doi: 10.1093/nar/gks1048
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Meyer, L.R.1
Zweig, A.S.2
Hinrichs, A.S.3
Karolchik, D.4
Kuhn, R.M.5
Wong, M.6
-
24
-
-
60149090481
-
Criteria for annotation of plant microRNAs
-
doi: 10.1105/tpc.108.064311
-
Meyers, B. C., Axtell, M. J., Bartel, B., Bartel, D. P., Baulcombe, D., Bowman, J. L., et al. (2008). Criteria for annotation of plant microRNAs. Plant Cell 20, 3186-3190. doi: 10.1105/tpc.108.064311
-
(2008)
Plant Cell
, vol.20
, pp. 3186-3190
-
-
Meyers, B.C.1
Axtell, M.J.2
Bartel, B.3
Bartel, D.P.4
Baulcombe, D.5
Bowman, J.L.6
-
25
-
-
80455126001
-
-
doi: 10.1186/gb-2011-12-11-r112
-
Minoche, A. E., Dohm, J. C., and Himmelbauer, H. (2011). Genome Biol. 12, R112. doi: 10.1186/gb-2011-12-11-r112
-
(2011)
Genome Biol
, vol.12
-
-
Minoche, A.E.1
Dohm, J.C.2
Himmelbauer, H.3
-
26
-
-
34347378274
-
Pimet, the Drosophila homolog of HEN1, mediates 2'-O-methylation of Piwi- interacting RNAs at their 3' ends
-
doi: 10.1101/gad.1563607
-
Saito, K., Sakaguchi, Y., Suzuki, T., Suzuki, T., Siomi, H., and Siomi, M. C. (2007). Pimet, the Drosophila homolog of HEN1, mediates 2'-O-methylation of Piwi- interacting RNAs at their 3' ends. Genes Dev. 21, 1603-1608. doi: 10.1101/gad.1563607
-
(2007)
Genes Dev.
, vol.21
, pp. 1603-1608
-
-
Saito, K.1
Sakaguchi, Y.2
Suzuki, T.3
Suzuki, T.4
Siomi, H.5
Siomi, M.C.6
-
27
-
-
4644223259
-
Mechanisms of gene silencing by double-stranded RNA
-
doi: 10.1038/nature02873
-
Tuschl, G. M. T. (2004). Mechanisms of gene silencing by double-stranded RNA. Nature 431, 343-349. doi: 10.1038/nature02873
-
(2004)
Nature
, vol.431
, pp. 343-349
-
-
Tuschl, G.M.T.1
-
28
-
-
70349961432
-
Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes
-
doi: 10.1038/nature08434
-
Wang, Y., Juranek, S., Li, H., Sheng, G., Wardle, G. S., Tuschl, T., et al. (2009). Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes. Nature 461, 754-761. doi: 10.1038/nature08434
-
(2009)
Nature
, vol.461
, pp. 754-761
-
-
Wang, Y.1
Juranek, S.2
Li, H.3
Sheng, G.4
Wardle, G.S.5
Tuschl, T.6
-
29
-
-
56249145105
-
Structure of the guide-strand-containing argonaute silencing complex
-
doi: 10.1038/nature07315
-
Wang, Y., Sheng, G., Juranek, S., Tuschl, T., and Patel, D. J. (2008). Structure of the guide-strand-containing argonaute silencing complex. Nature 456, 209-213. doi: 10.1038/nature07315
-
(2008)
Nature
, vol.456
, pp. 209-213
-
-
Wang, Y.1
Sheng, G.2
Juranek, S.3
Tuschl, T.4
Patel, D.J.5
-
30
-
-
80052996141
-
Alternative miRNA biogenesis pathways and the interpretation of core miRNA pathway mutants
-
doi: 10.1016/j.molcel.2011.07.024
-
Yang, J. S., and Lai, E. C. (2011). Alternative miRNA biogenesis pathways and the interpretation of core miRNA pathway mutants. Mol. Cell 43, 892-903. doi: 10.1016/j.molcel.2011.07.024
-
(2011)
Mol. Cell
, vol.43
, pp. 892-903
-
-
Yang, J.S.1
Lai, E.C.2
-
31
-
-
0347361541
-
Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs
-
doi: 10.1101/gad.1158803
-
Yi, R., Qin, Y., Macara, I. G., and Cullen, B. R. (2003). Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs. Genes Dev. 17, 3011-3016. doi: 10.1101/gad.1158803
-
(2003)
Genes Dev.
, vol.17
, pp. 3011-3016
-
-
Yi, R.1
Qin, Y.2
Macara, I.G.3
Cullen, B.R.4
-
32
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
doi: 10.1093/nar/gkg595
-
Zuker, M. (2003). Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 31, 3406-3415. doi: 10.1093/nar/gkg595
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
|