-
2
-
-
58249088751
-
MicroRNAs: Target recognition and regulatory functions
-
Bartel DP. 2009. MicroRNAs: target recognition and regulatory functions. Cell 136:215-233.
-
(2009)
Cell
, vol.136
, pp. 215-233
-
-
Bartel, D.P.1
-
3
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. JRoy Statist Soc B Met 57:289-300.
-
(1995)
JRoy Statist Soc B Met
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
4
-
-
77449133843
-
The roleof let-7 in cell differentiation and cancer
-
Boyerinas B, Park SM, Hau A, Murmann AE, Peter ME. 2010. The roleof let-7 in cell differentiation and cancer. Endocr Relat Cancer 17:F19-F36.
-
(2010)
Endocr Relat Cancer
, vol.17
, pp. F19-F36
-
-
Boyerinas, B.1
Park, S.M.2
Hau, A.3
Murmann, A.E.4
Peter, M.E.5
-
5
-
-
70349463161
-
The estrogen receptor-α-induced microRNA signature regulates itself and its transcriptional response
-
Castellano L, Giamas G, Jacob J, Coombes RC, Lucchesi W, Thiruchelvam P, Barton G, Jiao LR, Wait R, Waxman J, et al. 2009. The estrogen receptor-α-induced microRNA signature regulates itself and its transcriptional response. Proc Natl Acad Sci 106:15732-15737.
-
(2009)
Proc Natl Acad Sci
, vol.106
, pp. 15732-15737
-
-
Castellano, L.1
Giamas, G.2
Jacob, J.3
Coombes, R.C.4
Lucchesi, W.5
Thiruchelvam, P.6
Barton, G.7
Jiao, L.R.8
Wait, R.9
Waxman, J.10
-
6
-
-
34249817549
-
Transactivation of miR-34a by p53 broadly influences gene expression and promotes apoptosis
-
Chang TC, Wentzel EA, Kent OA, Ramachandran K, Mullendore M, Lee KH, Feldmann G, Yamakuchi M, Ferlito M, Lowenstein CJ, et al. 2007. Transactivation of miR-34a by p53 broadly influences gene expression and promotes apoptosis. Mol Cell 26:745-752.
-
(2007)
Mol Cell
, vol.26
, pp. 745-752
-
-
Chang, T.C.1
Wentzel, E.A.2
Kent, O.A.3
Ramachandran, K.4
Mullendore, M.5
Lee, K.H.6
Feldmann, G.7
Yamakuchi, M.8
Ferlito, M.9
Lowenstein, C.J.10
-
7
-
-
67749132423
-
Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps
-
Chi SW, Zang JB, Mele A, Darnell RB. 2009. Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps. Nature 460:479-486.
-
(2009)
Nature
, vol.460
, pp. 479-486
-
-
Chi, S.W.1
Zang, J.B.2
Mele, A.3
Darnell, R.B.4
-
9
-
-
84939778620
-
Tumor hypoxia induces nuclear paraspeckle formation through HIF-2α dependent transcriptional activation of NEAT1 leading to cancer cell survival
-
Choudhry H, Albukhari A, Morotti M, Haider S, Moralli D, Smythies J, Schödel J, Green CM, Camps C, Buffa F, et al. 2015. Tumor hypoxia induces nuclear paraspeckle formation through HIF-2α dependent transcriptional activation of NEAT1 leading to cancer cell survival. Oncogene 34:4482-4490.
-
(2015)
Oncogene
, vol.34
, pp. 4482-4490
-
-
Choudhry, H.1
Albukhari, A.2
Morotti, M.3
Haider, S.4
Moralli, D.5
Smythies, J.6
Schödel, J.7
Green, C.M.8
Camps, C.9
Buffa, F.10
-
10
-
-
84905862595
-
Argonaute CLIP-Seq reveals miRNA targetome diversity across tissue types
-
Clark PM, Loher P, Quann K, Brody J, Londin ER, Rigoutsos I. 2014. Argonaute CLIP-Seq reveals miRNA targetome diversity across tissue types. Sci Rep 4:5947.
-
(2014)
Sci Rep
, vol.4
, pp. 5947
-
-
Clark, P.M.1
Loher, P.2
Quann, K.3
Brody, J.4
Londin, E.R.5
Rigoutsos, I.6
-
11
-
-
62549117314
-
An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles
-
Clemson CM, Hutchinson JN, Sara SA, Ensminger AW, Fox AH, Chess A, Lawrence JB. 2009. An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles. Mol Cell 33:717-726.
-
(2009)
Mol Cell
, vol.33
, pp. 717-726
-
-
Clemson, C.M.1
Hutchinson, J.N.2
Sara, S.A.3
Ensminger, A.W.4
Fox, A.H.5
Chess, A.6
Lawrence, J.B.7
-
12
-
-
80051786284
-
PARalyzer: Definition of RNA binding sites from PAR-CLIP short-read sequence data
-
Corcoran DL, Georgiev S, Mukherjee N, Gottwein E, Skalsky RL, Keene JD, Ohler U. 2011. PARalyzer: definition of RNA binding sites from PAR-CLIP short-read sequence data. Genome Biol 12:R79.
-
(2011)
Genome Biol
, vol.12
, pp. R79
-
-
Corcoran, D.L.1
Georgiev, S.2
Mukherjee, N.3
Gottwein, E.4
Skalsky, R.L.5
Keene, J.D.6
Ohler, U.7
-
13
-
-
84886910303
-
Emerging roles of competing endogenous RNAs in cancer: Insights from the regulation of PTEN
-
De Giorgio A, Krell J, Harding V, Stebbing J, Castellano L. 2013. Emerging roles of competing endogenous RNAs in cancer: insights from the regulation of PTEN. Mol Cell Biol 33:3976-3982.
-
(2013)
Mol Cell Biol
, vol.33
, pp. 3976-3982
-
-
De Giorgio, A.1
Krell, J.2
Harding, V.3
Stebbing, J.4
Castellano, L.5
-
14
-
-
84864647205
-
Site-specific DICER and DROSHA RNA products control the DNA-damage response
-
Francia S, Michelini F, Saxena A, Tang D, De Hoon M, Anelli V, Mione M, Carninci P, D'Adda Di Fagagna F. 2012. Site-specific DICER and DROSHA RNA products control the DNA-damage response. Nature 488:231-235.
-
(2012)
Nature
, vol.488
, pp. 231-235
-
-
Francia, S.1
Michelini, F.2
Saxena, A.3
Tang, D.4
De Hoon, M.5
Anelli, V.6
Mione, M.7
Carninci, P.8
D'Adda Di Fagagna, F.9
-
15
-
-
84903616729
-
Unambiguous identification of miRNA: Target site interactions by different types of ligation reactions
-
Grosswendt S, Filipchyk A, Manzano M, Klironomos F, Schilling M, Herzog M, Gottwein E, Rajewsky N. 2014. Unambiguous identification of miRNA: target site interactions by different types of ligation reactions. Mol Cell 54:1042-1054.
-
(2014)
Mol Cell
, vol.54
, pp. 1042-1054
-
-
Grosswendt, S.1
Filipchyk, A.2
Manzano, M.3
Klironomos, F.4
Schilling, M.5
Herzog, M.6
Gottwein, E.7
Rajewsky, N.8
-
16
-
-
77950920903
-
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP
-
Hafner M, Landthaler M, Burger L, Khorshid M, Hausser J, Berninger P, Rothballer A, Ascano M Jr, Jungkamp AC, Munschauer M, et al. 2010. Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell 141:129-141.
-
(2010)
Cell
, vol.141
, pp. 129-141
-
-
Hafner, M.1
Landthaler, M.2
Burger, L.3
Khorshid, M.4
Hausser, J.5
Berninger, P.6
Rothballer, A.7
Ascano, M.8
Jungkamp, A.C.9
Munschauer, M.10
-
17
-
-
34250851115
-
A microRNA component of the p53 tumour suppressor network
-
He L, He X, Lim LP, De Stanchina E, Xuan Z, Liang Y, Xue W, Zender L, Magnus J, Ridzon D, et al. 2007. A microRNA component of the p53 tumour suppressor network. Nature 447:1130-1134.
-
(2007)
Nature
, vol.447
, pp. 1130-1134
-
-
He, L.1
He, X.2
Lim, L.P.3
De Stanchina, E.4
Xuan, Z.5
Liang, Y.6
Xue, W.7
Zender, L.8
Magnus, J.9
Ridzon, D.10
-
18
-
-
84895493169
-
Mapping the miRNA interactome by crosslinking ligation and sequencing of hybrids (CLASH)
-
Helwak A, Tollervey D. 2014. Mapping the miRNA interactome by crosslinking ligation and sequencing of hybrids (CLASH). Nat Protoc 9:711-728.
-
(2014)
Nat Protoc
, vol.9
, pp. 711-728
-
-
Helwak, A.1
Tollervey, D.2
-
19
-
-
84876935138
-
Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding
-
Helwak A, Kudla G, Dudnakova T, Tollervey D. 2013. Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding. Cell 153:654-665.
-
(2013)
Cell
, vol.153
, pp. 654-665
-
-
Helwak, A.1
Kudla, G.2
Dudnakova, T.3
Tollervey, D.4
-
21
-
-
79959756263
-
Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters
-
Hung T, Wang Y, Lin MF, Koegel AK, Kotake Y, Grant GD, Horlings HM, Shah N, Umbricht C, Wang P, et al. 2011. Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters. Nat Genet 43:621-629.
-
(2011)
Nat Genet
, vol.43
, pp. 621-629
-
-
Hung, T.1
Wang, Y.2
Lin, M.F.3
Koegel, A.K.4
Kotake, Y.5
Grant, G.D.6
Horlings, H.M.7
Shah, N.8
Umbricht, C.9
Wang, P.10
-
22
-
-
80455179726
-
Iclip-transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution
-
Konig J, Zarnack K, Rot G, Curk T, Kayikci M, Zupan B, Turner DJ, Luscombe NM, Ule J. 2011. iCLIP-transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution. J Vis Exp doi: 10.3791/2638.
-
(2011)
J Vis Exp
-
-
Konig, J.1
Zarnack, K.2
Rot, G.3
Curk, T.4
Kayikci, M.5
Zupan, B.6
Turner, D.J.7
Luscombe, N.M.8
Ule, J.9
-
23
-
-
84881093466
-
The p53 miRNA interactome and its potential role in the cancer clinic
-
Krell J, Frampton AE, Colombo T, Gall TM, De Giorgio A, Harding V, Stebbing J, Castellano L. 2013. The p53 miRNA interactome and its potential role in the cancer clinic. Epigenomics 5:417-428.
-
(2013)
Epigenomics
, vol.5
, pp. 417-428
-
-
Krell, J.1
Frampton, A.E.2
Colombo, T.3
Gall, T.M.4
De Giorgio, A.5
Harding, V.6
Stebbing, J.7
Castellano, L.8
-
24
-
-
84903220386
-
Growth arrest-specific transcript 5 associated snoRNA levels are related to p53 expression and DNA damage in colorectal cancer
-
Krell J, Frampton AE, Mirnezami R, Harding V, De Giorgio A, Roca Alonso L, Cohen P, Ottaviani S, Colombo T, Jacob J, et al. 2014. Growth arrest-specific transcript 5 associated snoRNA levels are related to p53 expression and DNA damage in colorectal cancer. PLoS One 9:e98561.
-
(2014)
PLoS One
, vol.9
, pp. e98561
-
-
Krell, J.1
Frampton, A.E.2
Mirnezami, R.3
Harding, V.4
De Giorgio, A.5
Roca Alonso, L.6
Cohen, P.7
Ottaviani, S.8
Colombo, T.9
Jacob, J.10
-
25
-
-
84934281252
-
P53 in survival, death and metabolic health: A lifeguard with a licence to kill
-
Kruiswijk F, Labuschagne CF, Vousden KH. 2015. p53 in survival, death and metabolic health: a lifeguard with a licence to kill. Nat Rev Mol Cell Biol 16:393-405.
-
(2015)
Nat Rev Mol Cell Biol
, vol.16
, pp. 393-405
-
-
Kruiswijk, F.1
Labuschagne, C.F.2
Vousden, K.H.3
-
26
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. 2009. Circos: an information aesthetic for comparative genomics. Genome Res 19:1639-1645.
-
(2009)
Genome Res
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
Schein, J.2
Birol, I.3
Connors, J.4
Gascoyne, R.5
Horsman, D.6
Jones, S.J.7
Marra, M.A.8
-
27
-
-
11844278458
-
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
-
Lewis BP, Burge CB, Bartel DP. 2005. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120:15-20.
-
(2005)
Cell
, vol.120
, pp. 15-20
-
-
Lewis, B.P.1
Burge, C.B.2
Bartel, D.P.3
-
28
-
-
77149146794
-
A common gain of function of p53 cancer mutants in inducing genetic instability
-
Liu DP, Song H, Xu Y. 2010. A common gain of function of p53 cancer mutants in inducing genetic instability. Oncogene 29:949-956.
-
(2010)
Oncogene
, vol.29
, pp. 949-956
-
-
Liu, D.P.1
Song, H.2
Xu, Y.3
-
29
-
-
77950897652
-
A genome-scale protein interaction profile of Drosophila p53 uncovers additional nodes of the human p53 network
-
Lunardi A, Di Minin G, Provero P, Dal Ferro M, Carotti M, Del Sal G, Collavin L. 2010. A genome-scale protein interaction profile of Drosophila p53 uncovers additional nodes of the human p53 network. Proc Natl Acad Sci 107:6322-6327.
-
(2010)
Proc Natl Acad Sci
, vol.107
, pp. 6322-6327
-
-
Lunardi, A.1
Di Minin, G.2
Provero, P.3
Dal Ferro, M.4
Carotti, M.5
Del Sal, G.6
Collavin, L.7
-
30
-
-
34547441263
-
Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5' UTR as in the 3' UTR
-
Lytle JR, Yario TA, Steitz JA. 2007. Target mRNAs are repressed as efficiently by microRNA-binding sites in the 5' UTR as in the 3' UTR. Proc Natl Acad Sci 104:9667-9672.
-
(2007)
Proc Natl Acad Sci
, vol.104
, pp. 9667-9672
-
-
Lytle, J.R.1
Yario, T.A.2
Steitz, J.A.3
-
32
-
-
20444479428
-
C-Mycregulated microRNAs modulate E2F1 expression
-
O'Donnell KA, Wentzel EA, Zeller KI, Dang CV, Mendell JT. 2005. c-Mycregulated microRNAs modulate E2F1 expression. Nature 435:839-843.
-
(2005)
Nature
, vol.435
, pp. 839-843
-
-
O'Donnell, K.A.1
Wentzel, E.A.2
Zeller, K.I.3
Dang, C.V.4
Mendell, J.T.5
-
33
-
-
77953957633
-
A coding-independent function of gene and pseudogene mRNAs regulates tumour biology
-
Poliseno L, Salmena L, Zhang J, Carver B, Haveman WJ, Pandolfi PP. 2010. A coding-independent function of gene and pseudogene mRNAs regulates tumour biology. Nature 465:1033-1038.
-
(2010)
Nature
, vol.465
, pp. 1033-1038
-
-
Poliseno, L.1
Salmena, L.2
Zhang, J.3
Carver, B.4
Haveman, W.J.5
Pandolfi, P.P.6
-
34
-
-
80054937128
-
∗ in glioblastoma stem cells
-
∗ in glioblastoma stem cells. EMBO J 30:4309-4322.
-
(2011)
EMBO J
, vol.30
, pp. 4309-4322
-
-
Schraivogel, D.1
Weinmann, L.2
Beier, D.3
Tabatabai, G.4
Eichner, A.5
Zhu, J.Y.6
Anton, M.7
Sixt, M.8
Weller, M.9
Beier, C.P.10
-
35
-
-
84878108145
-
EGFR modulates microRNA maturation in response to hypoxia through phosphorylation of AGO2
-
Shen J, Xia W, Khotskaya YB, Huo L, Nakanishi K, Lim SO, Du Y, Wang Y, Chang WC, Chen CH, et al. 2013. EGFR modulates microRNA maturation in response to hypoxia through phosphorylation of AGO2. Nature 497:383-387.
-
(2013)
Nature
, vol.497
, pp. 383-387
-
-
Shen, J.1
Xia, W.2
Khotskaya, Y.B.3
Huo, L.4
Nakanishi, K.5
Lim, S.O.6
Du, Y.7
Wang, Y.8
Chang, W.C.9
Chen, C.H.10
-
36
-
-
0034671945
-
Oncogenic mutations of the p53 tumor suppressor: The demons of the guardian of the genome
-
Sigal A, Rotter V. 2000. Oncogenic mutations of the p53 tumor suppressor: the demons of the guardian of the genome. Cancer Res 60:6788-6793.
-
(2000)
Cancer Res
, vol.60
, pp. 6788-6793
-
-
Sigal, A.1
Rotter, V.2
-
37
-
-
67749143728
-
Modulation of microRNA processing by p53
-
Suzuki HI, Yamagata K, Sugimoto K, Iwamoto T, Kato S, Miyazono K. 2009. Modulation of microRNA processing by p53. Nature 460:529-533.
-
(2009)
Nature
, vol.460
, pp. 529-533
-
-
Suzuki, H.I.1
Yamagata, K.2
Sugimoto, K.3
Iwamoto, T.4
Kato, S.5
Miyazono, K.6
-
38
-
-
54549108798
-
MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation
-
Tay Y, Zhang J, Thomson AM, Lim B, Rigoutsos I. 2008. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation. Nature 455:1124-1128.
-
(2008)
Nature
, vol.455
, pp. 1124-1128
-
-
Tay, Y.1
Zhang, J.2
Thomson, A.M.3
Lim, B.4
Rigoutsos, I.5
-
39
-
-
34249819336
-
MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals
-
Tsang J, Zhu J, Van Oudenaarden A. 2007. MicroRNA-mediated feedback and feedforward loops are recurrent network motifs in mammals. Mol Cell 26:753-767.
-
(2007)
Mol Cell
, vol.26
, pp. 753-767
-
-
Tsang, J.1
Zhu, J.2
Van Oudenaarden, A.3
-
40
-
-
30344478870
-
A global map of p53 transcription-factor binding sites in the human genome
-
Wei CL, Wu Q, Vega VB, Chiu KP, Ng P, Zhang T, Shahab A, Yong HC, Fu Y, Weng Z, et al. 2006. A global map of p53 transcription-factor binding sites in the human genome. Cell 124:207-219.
-
(2006)
Cell
, vol.124
, pp. 207-219
-
-
Wei, C.L.1
Wu, Q.2
Vega, V.B.3
Chiu, K.P.4
Ng, P.5
Zhang, T.6
Shahab, A.7
Yong, H.C.8
Fu, Y.9
Weng, Z.10
-
41
-
-
84860718683
-
Clusterprofiler: An R package for comparing biological themes among gene clusters
-
Yu G, Wang LG, Han Y, He QY. 2012. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS 16:284-287.
-
(2012)
OMICS
, vol.16
, pp. 284-287
-
-
Yu, G.1
Wang, L.G.2
Han, Y.3
He, Q.Y.4
|