-
1
-
-
45549088326
-
The transcriptional landscape of the yeast genome defined by RNA sequencing
-
Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, Gerstein M, Snyder M: The transcriptional landscape of the yeast genome defined by RNA sequencing. Science 2008, 320:1344-1349.
-
(2008)
Science
, vol.320
, pp. 1344-1349
-
-
Nagalakshmi, U.1
Wang, Z.2
Waern, K.3
Shou, C.4
Raha, D.5
Gerstein, M.6
Snyder, M.7
-
2
-
-
70349956497
-
Direct RNA sequencing
-
Ozsolak F, Platt AR, Jones DR, Reifenberger JG, Sass LE, McInerney P, Thompson JF, Bowers J, Jarosz M, Milos PM: Direct RNA sequencing. Nature 2009, 461:814-818.
-
(2009)
Nature
, vol.461
, pp. 814-818
-
-
Ozsolak, F.1
Platt, A.R.2
Jones, D.R.3
Reifenberger, J.G.4
Sass, L.E.5
McInerney, P.6
Thompson, J.F.7
Bowers, J.8
Jarosz, M.9
Milos, P.M.10
-
3
-
-
0028806048
-
Quantitative monitoring of gene expression patterns with a complementary DNA microarray
-
Schena M, Shalon D, Davis RW, Brown PO: Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 1995, 270:467-470.
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
4
-
-
84857772692
-
Alternative mRNA polyadenylation in eukaryotes: an effective regulator of gene expression
-
Lutz CS, Moreira A: Alternative mRNA polyadenylation in eukaryotes: an effective regulator of gene expression. Wiley Interdiscipl Rev RNA 2011, 2:22-31.
-
(2011)
Wiley Interdiscipl Rev RNA
, vol.2
, pp. 22-31
-
-
Lutz, C.S.1
Moreira, A.2
-
5
-
-
80052979140
-
Mechanisms and consequences of alternative polyadenylation
-
Di Giammartino DC, Nishida K, Manley JL: Mechanisms and consequences of alternative polyadenylation. Mol Cell 2011, 43:853-866.
-
(2011)
Mol Cell
, vol.43
, pp. 853-866
-
-
Di Giammartino, D.C.1
Nishida, K.2
Manley, J.L.3
-
6
-
-
84869765539
-
Alternative polyadenylation: new insights from global analyses
-
Shi Y: Alternative polyadenylation: new insights from global analyses. RNA 2012, 18:2105-2117.
-
(2012)
RNA
, vol.18
, pp. 2105-2117
-
-
Shi, Y.1
-
7
-
-
78649910014
-
Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation
-
Ozsolak F, Kapranov P, Foissac S, Kim SW, Fishilevich E, Monaghan AP, John B, Milos PM: Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation. Cell 2010, 143:1018-1029.
-
(2010)
Cell
, vol.143
, pp. 1018-1029
-
-
Ozsolak, F.1
Kapranov, P.2
Foissac, S.3
Kim, S.W.4
Fishilevich, E.5
Monaghan, A.P.6
John, B.7
Milos, P.M.8
-
8
-
-
13744254695
-
A large-scale analysis of mRNA polyadenylation of human and mouse genes
-
Tian B, Hu J, Zhang H, Lutz CS: A large-scale analysis of mRNA polyadenylation of human and mouse genes. Nucleic Acids Res 2005, 33:201-212.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 201-212
-
-
Tian, B.1
Hu, J.2
Zhang, H.3
Lutz, C.S.4
-
9
-
-
84872598678
-
Rejuvenation of gene expression pattern of aged human skin by broadband light treatment: a pilot study
-
Chang ALS, Bitter PH, Qu K, Lin M, Rapicavoli NA, Chang HY: Rejuvenation of gene expression pattern of aged human skin by broadband light treatment: a pilot study. J Investig Dermatol 2013, 133:394-402.
-
(2013)
J Investig Dermatol
, vol.133
, pp. 394-402
-
-
Chang, A.L.S.1
Bitter, P.H.2
Qu, K.3
Lin, M.4
Rapicavoli, N.A.5
Chang, H.Y.6
-
10
-
-
77649314169
-
30-end sequencing for expression quantification (3SEQ) from archival tumor samples
-
Beck AH, Weng Z, Witten DM, Zhu S, Foley JW, Lacroute P, Smith CL, Tibshirani R, van de Rijn M, Sidow A et al.: 30-end sequencing for expression quantification (3SEQ) from archival tumor samples. PLoS ONE 2010, 5:e8768.
-
(2010)
PLoS ONE
, vol.5
-
-
Beck, A.H.1
Weng, Z.2
Witten, D.M.3
Zhu, S.4
Foley, J.W.5
Lacroute, P.6
Smith, C.L.7
Tibshirani, R.8
van de Rijn, M.9
Sidow, A.10
-
11
-
-
84863093448
-
E2F mediates enhanced alternative polyadenylation in proliferation
-
Elkon R, Drost J, van Haaften G, Jenal M, Schrier M, Oude Vrielink JA, Agami R: E2F mediates enhanced alternative polyadenylation in proliferation. Genome Biol 2012, 13:R59.
-
(2012)
Genome Biol
, vol.13
-
-
Elkon, R.1
Drost, J.2
van Haaften, G.3
Jenal, M.4
Schrier, M.5
Oude Vrielink, J.A.6
Agami, R.7
-
12
-
-
84866910243
-
An indepth map of polyadenylation sites in cancer
-
Lin Y, Li Z, Ozsolak F, Kim SW, Arango-Argoty G, Liu TT, Tenenbaum SA, Bailey T, Monaghan AP, Milos PM et al.: An indepth map of polyadenylation sites in cancer. Nucleic Acids Res 2012, 40:8460-8471.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 8460-8471
-
-
Lin, Y.1
Li, Z.2
Ozsolak, F.3
Kim, S.W.4
Arango-Argoty, G.5
Liu, T.T.6
Tenenbaum, S.A.7
Bailey, T.8
Monaghan, A.P.9
Milos, P.M.10
-
13
-
-
84864447470
-
Analysis of C
-
Haenni S, Ji Z, Hoque M, Rust N, Sharpe H, Eberhard R, Browne C, Hengartner MO, Mellor J, Tian B et al.: Analysis of C. elegans intestinal gene expression and polyadenylation by fluorescence-activated nuclei sorting and 30-end-seq. Nucleic Acids Res 2012, 40:6304-6318.
-
(2012)
elegans intestinal gene expression and polyadenylation by fluorescence-activated nuclei sorting and 30-end-seq. Nucleic Acids Res
, vol.40
, pp. 6304-6318
-
-
Haenni, S.1
Ji, Z.2
Hoque, M.3
Rust, N.4
Sharpe, H.5
Eberhard, R.6
Browne, C.7
Hengartner, M.O.8
Mellor, J.9
Tian, B.10
-
14
-
-
78650972252
-
Formation, regulation and evolution of Caenorhabditis elegans 30UTRs
-
Jan CH, Friedman RC, Ruby JG, Bartel DP: Formation, regulation and evolution of Caenorhabditis elegans 30UTRs. Nature 2011, 469:97-101.
-
(2011)
Nature
, vol.469
, pp. 97-101
-
-
Jan, C.H.1
Friedman, R.C.2
Ruby, J.G.3
Bartel, D.P.4
-
15
-
-
84867163995
-
Extensive alternative polyadenylation during zebrafish development
-
Ulitsky I, Shkumatava A, Jan C, Subtelny AO, Koppstein D, Bell G, Sive H, Bartel D: Extensive alternative polyadenylation during zebrafish development. Genome Res 2012, 22:2054-2066.
-
(2012)
Genome Res
, vol.22
, pp. 2054-2066
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.3
Subtelny, A.O.4
Koppstein, D.5
Bell, G.6
Sive, H.7
Bartel, D.8
-
16
-
-
84861903786
-
A quantitative atlas of polyadenylation in five mammals
-
Derti A, Garrett-Engele P, Macisaac KD, Stevens RC, Sriram S, Chen R, Rohl CA, Johnson JM, Babak T: A quantitative atlas of polyadenylation in five mammals. Genome Res 2012, 22:1173-1183.
-
(2012)
Genome Res
, vol.22
, pp. 1173-1183
-
-
Derti, A.1
Garrett-Engele, P.2
Macisaac, K.D.3
Stevens, R.C.4
Sriram, S.5
Chen, R.6
Rohl, C.A.7
Johnson, J.M.8
Babak, T.9
-
17
-
-
79953014914
-
Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq
-
Shepard PJ, Choi E-A, Lu J, Flanagan LA, Hertel KJ, Shi Y: Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq. RNA 2011, 17:761-772.
-
(2011)
RNA
, vol.17
, pp. 761-772
-
-
Shepard, P.J.1
Choi, E.-A.2
Lu, J.3
Flanagan, L.A.4
Hertel, K.J.5
Shi, Y.6
-
18
-
-
79955554179
-
Differential genomewide profiling of tandem 30 UTRs among human breast cancer and normal cells by high-throughput sequencing
-
Fu Y, Sun Y, Li Y, Li J, Rao X, Chen C, Xu A: Differential genomewide profiling of tandem 30 UTRs among human breast cancer and normal cells by high-throughput sequencing. Genome Res 2011, 21:741-747.
-
(2011)
Genome Res
, vol.21
, pp. 741-747
-
-
Fu, Y.1
Sun, Y.2
Li, Y.3
Li, J.4
Rao, X.5
Chen, C.6
Xu, A.7
-
19
-
-
84867186197
-
Dynamic landscape of tandem 30 UTRs during zebrafish development
-
Li Y, Sun Y, Fu Y, Li M, Huang G, Zhang C, Liang J, Huang S, Shen G, Yuan S et al.: Dynamic landscape of tandem 30 UTRs during zebrafish development. Genome Res 2012, 22:1899-1906.
-
(2012)
Genome Res
, vol.22
, pp. 1899-1906
-
-
Li, Y.1
Sun, Y.2
Fu, Y.3
Li, M.4
Huang, G.5
Zhang, C.6
Liang, J.7
Huang, S.8
Shen, G.9
Yuan, S.10
-
20
-
-
77954847055
-
The landscape of C
-
Mangone M, Manoharan AP, Thierry-Mieg D, Thierry-Mieg J, Han T, Mackowiak SD, Mis E, Zegar C, Gutwein MR, Khivansara V et al.: The landscape of C. elegans 30UTRs. Science 2010, 329:432-435.
-
(2010)
elegans 30UTRs. Science
, vol.329
, pp. 432-435
-
-
Mangone, M.1
Manoharan, A.P.2
Thierry-Mieg, D.3
Thierry-Mieg, J.4
Han, T.5
Mackowiak, S.D.6
Mis, E.7
Zegar, C.8
Gutwein, M.R.9
Khivansara, V.10
-
21
-
-
84864453922
-
Identification of allele-specific alternative mRNA processing via transcriptome sequencing
-
Li G, Bahn JH, Lee J-H, Peng G, Chen Z, Nelson SF, Xiao X: Identification of allele-specific alternative mRNA processing via transcriptome sequencing. Nucleic Acids Res 2012, 40:e104.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Li, G.1
Bahn, J.H.2
Lee, J.-H.3
Peng, G.4
Chen, Z.5
Nelson, S.F.6
Xiao, X.7
-
22
-
-
80053413109
-
Transcriptional activity regulates alternative cleavage and polyadenylation
-
Ji Z, Luo W, Li W, Hoque M, Pan Z, Zhao Y, Tian B: Transcriptional activity regulates alternative cleavage and polyadenylation. Mol Syst Biol 2011, 7:534.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 534
-
-
Ji, Z.1
Luo, W.2
Li, W.3
Hoque, M.4
Pan, Z.5
Zhao, Y.6
Tian, B.7
-
23
-
-
78649714014
-
Analysis and design of RNA sequencing experiments for identifying isoform regulation
-
Katz Y, Wang ET, Airoldi EM, Burge CB: Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat Methods 2010, 7:1009-1015.
-
(2010)
Nat Methods
, vol.7
, pp. 1009-1015
-
-
Katz, Y.1
Wang, E.T.2
Airoldi, E.M.3
Burge, C.B.4
-
24
-
-
56549101959
-
Alternative isoform regulation in human tissue transcriptomes
-
Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, Kingsmore SF, Schroth GP, Burge CB: Alternative isoform regulation in human tissue transcriptomes. Nature 2008, 456:470-476.
-
(2008)
Nature
, vol.456
, pp. 470-476
-
-
Wang, E.T.1
Sandberg, R.2
Luo, S.3
Khrebtukova, I.4
Zhang, L.5
Mayr, C.6
Kingsmore, S.F.7
Schroth, G.P.8
Burge, C.B.9
-
25
-
-
79961084431
-
Genomewide landscape of polyadenylation in Arabidopsis provides evidence for extensive alternative polyadenylation
-
Wu X, Liu M, Downie B, Liang C, Ji G, Li QQ, Hunt AG: Genomewide landscape of polyadenylation in Arabidopsis provides evidence for extensive alternative polyadenylation. Proc Natl Acad Sci U S A 2011, 108:12533-12538.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 12533-12538
-
-
Wu, X.1
Liu, M.2
Downie, B.3
Liang, C.4
Ji, G.5
Li, Q.Q.6
Hunt, A.G.7
-
26
-
-
38649090044
-
Genome-wide analysis of transcript isoform variation in humans
-
Kwan T, Benovoy D, Dias C, Gurd S, Provencher C, Beaulieu P, Hudson TJ, Sladek R, Majewski J: Genome-wide analysis of transcript isoform variation in humans. Nat Genet 2008, 40:225-231.
-
(2008)
Nat Genet
, vol.40
, pp. 225-231
-
-
Kwan, T.1
Benovoy, D.2
Dias, C.3
Gurd, S.4
Provencher, C.5
Beaulieu, P.6
Hudson, T.J.7
Sladek, R.8
Majewski, J.9
-
27
-
-
73649139638
-
Global changes in processing of mRNA 30 untranslated regions characterize clinically distinct cancer subtypes
-
Singh P, Alley TL, Wright SM, Kamdar S, Schott W, Wilpan RY, Mills KD, Graber JH: Global changes in processing of mRNA 30 untranslated regions characterize clinically distinct cancer subtypes. Cancer Res 2009, 69:9422-9430.
-
(2009)
Cancer Res
, vol.69
, pp. 9422-9430
-
-
Singh, P.1
Alley, T.L.2
Wright, S.M.3
Kamdar, S.4
Schott, W.5
Wilpan, R.Y.6
Mills, K.D.7
Graber, J.H.8
-
28
-
-
46249092601
-
Proliferating cells express mRNAs with shortened 30 untranslated regions and fewer microRNA target sites
-
Sandberg R, Neilson JR, Sarma A, Sharp PA, Burge CB: Proliferating cells express mRNAs with shortened 30 untranslated regions and fewer microRNA target sites. Science 2008, 320:1643-1647.
-
(2008)
Science
, vol.320
, pp. 1643-1647
-
-
Sandberg, R.1
Neilson, J.R.2
Sarma, A.3
Sharp, P.A.4
Burge, C.B.5
-
29
-
-
77949538391
-
Reprogramming of 30 untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types
-
Ji Z, Tian B: Reprogramming of 30 untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types. PLoS ONE 2009, 4:e8419.
-
(2009)
PLoS ONE
, vol.4
-
-
Ji, Z.1
Tian, B.2
-
30
-
-
66049104920
-
Progressive lengthening of 30 untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development
-
Ji Z, Lee JY, Pan Z, Jiang B, Tian B: Progressive lengthening of 30 untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development. Proc Natl Acad Sci U S A 2009, 106:7028-7033.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 7028-7033
-
-
Ji, Z.1
Lee, J.Y.2
Pan, Z.3
Jiang, B.4
Tian, B.5
-
31
-
-
58149527754
-
Identification of gene 30 ends by automated EST cluster analysis
-
Muro EM, Herrington R, Janmohamed S, Frelin C, Andrade- Navarro MA, Iscove NN: Identification of gene 30 ends by automated EST cluster analysis. Proc Natl Acad Sci U S A 2008, 105:20286-20290.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 20286-20290
-
-
Muro, E.M.1
Herrington, R.2
Janmohamed, S.3
Frelin, C.4
Andrade-Navarro, M.A.5
Iscove, N.N.6
-
32
-
-
0034834248
-
Identification of alternate polyadenylation sites and analysis of their tissue distribution using EST data
-
Beaudoing E, Gautheret D: Identification of alternate polyadenylation sites and analysis of their tissue distribution using EST data. Genome Res 2001, 11:1520-1526.
-
(2001)
Genome Res
, vol.11
, pp. 1520-1526
-
-
Beaudoing, E.1
Gautheret, D.2
-
33
-
-
33846706844
-
Systematic variation in mRNA 30-processing signals during mouse spermatogenesis
-
Liu D, Brockman JM, Dass B, Hutchins LN, Singh P, McCarrey JR, MacDonald CC, Graber JH: Systematic variation in mRNA 30-processing signals during mouse spermatogenesis. Nucleic Acids Res 2007, 35:234-246.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 234-246
-
-
Liu, D.1
Brockman, J.M.2
Dass, B.3
Hutchins, L.N.4
Singh, P.5
McCarrey, J.R.6
MacDonald, C.C.7
Graber, J.H.8
-
34
-
-
13444302775
-
PolyA_DB: a database for mammalian mRNA polyadenylation
-
Zhang H, Hu J, Recce M, Tian B: PolyA_DB: a database for mammalian mRNA polyadenylation. Nucleic Acids Res 2005, 33:D116-D120.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Zhang, H.1
Hu, J.2
Recce, M.3
Tian, B.4
-
35
-
-
33646950851
-
Biased alternative polyadenylation in human tissues
-
Zhang H, Lee JY, Tian B: Biased alternative polyadenylation in human tissues. Genome Biol 2005, 6:R100.
-
(2005)
Genome Biol
, vol.6
-
-
Zhang, H.1
Lee, J.Y.2
Tian, B.3
-
36
-
-
80052519170
-
Transcriptome dynamics through alternative polyadenylation in developmental and environmental responses in plants revealed by deep sequencing
-
Shen Y, Venu RC, Nobuta K, Wu X, Notibala V, Demirci C, Meyers BC, Wang G-L, Ji G, Li QQ: Transcriptome dynamics through alternative polyadenylation in developmental and environmental responses in plants revealed by deep sequencing. Genome Res 2011, 21:1478-1486.
-
(2011)
Genome Res
, vol.21
, pp. 1478-1486
-
-
Shen, Y.1
Venu, R.C.2
Nobuta, K.3
Wu, X.4
Notibala, V.5
Demirci, C.6
Meyers, B.C.7
Wang, G.-L.8
Ji, G.9
Li, Q.Q.10
-
37
-
-
70350569286
-
Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches
-
Chen M, Manley JL: Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches. Nat Rev Mol Cell Biol 2009, 10:741-754.
-
(2009)
Nat Rev Mol Cell Biol
, vol.10
, pp. 741-754
-
-
Chen, M.1
Manley, J.L.2
-
38
-
-
79954991435
-
Tissue-specific mechanisms of alternative polyadenylation: testis, brain, and beyond
-
MacDonald CC, McMahon KW: Tissue-specific mechanisms of alternative polyadenylation: testis, brain, and beyond. Wiley Interdiscipl Rev RNA 2010, 1:494-501.
-
(2010)
Wiley Interdiscipl Rev RNA
, vol.1
, pp. 494-501
-
-
MacDonald, C.C.1
McMahon, K.W.2
-
39
-
-
80052999677
-
Induction of antagonistic soluble decoy receptor tyrosine kinases by intronic polyA activation
-
Vorlová S, Rocco G, Lefave CV, Jodelka FM, Hess K, Hastings ML, Henke E, Cartegni L: Induction of antagonistic soluble decoy receptor tyrosine kinases by intronic polyA activation. Mol Cell 2011, 43:927-939.
-
(2011)
Mol Cell
, vol.43
, pp. 927-939
-
-
Vorlová, S.1
Rocco, G.2
Lefave, C.V.3
Jodelka, F.M.4
Hess, K.5
Hastings, M.L.6
Henke, E.7
Cartegni, L.8
-
40
-
-
84862777633
-
Coding region polyadenylation generates a truncated tRNA synthetase that counters translation repression
-
Yao P, Potdar AA, Arif A, Ray PS, Mukhopadhyay R, Willard B, Xu Y, Yan J, Saidel GM, Fox PL: Coding region polyadenylation generates a truncated tRNA synthetase that counters translation repression. Cell 2012, 149:88-100.
-
(2012)
Cell
, vol.149
, pp. 88-100
-
-
Yao, P.1
Potdar, A.A.2
Arif, A.3
Ray, P.S.4
Mukhopadhyay, R.5
Willard, B.6
Xu, Y.7
Yan, J.8
Saidel, G.M.9
Fox, P.L.10
-
41
-
-
0242526150
-
An alternatively spliced cyclin D1 isoform, cyclin D1b, is a nuclear oncogene
-
Lu F, Gladden AB, Diehl JA: An alternatively spliced cyclin D1 isoform, cyclin D1b, is a nuclear oncogene. Cancer Res 2003, 63:7056-7061.
-
(2003)
Cancer Res
, vol.63
, pp. 7056-7061
-
-
Lu, F.1
Gladden, A.B.2
Diehl, J.A.3
-
42
-
-
0041528506
-
Cyclin D1 splice variants. Differential effects on. localization. RB phosphorylation, and cellular transformation
-
Solomon DA, Wang Y, Fox SR, Lambeck TC, Giesting S, Lan Z, Senderowicz AM, Conti CJ, Knudsen ES: Cyclin D1 splice variants. Differential effects on localization, RB phosphorylation, and cellular transformation. J Biol Chem 2003, 278:30339-30347.
-
(2003)
J Biol Chem
, vol.278
, pp. 30339-30347
-
-
Solomon, D.A.1
Wang, Y.2
Fox, S.R.3
Lambeck, T.C.4
Giesting, S.5
Lan, Z.6
Senderowicz, A.M.7
Conti, C.J.8
Knudsen, E.S.9
-
43
-
-
84155163076
-
Brainderived neurotrophic factor expression is repressed during myogenic differentiation by miR-206
-
Miura P, Amirouche A, Clow C, Bélanger G, Jasmin BJ: Brainderived neurotrophic factor expression is repressed during myogenic differentiation by miR-206. J Neurochem 2012, 120:230-238.
-
(2012)
J Neurochem
, vol.120
, pp. 230-238
-
-
Miura, P.1
Amirouche, A.2
Clow, C.3
Bélanger, G.4
Jasmin, B.J.5
-
44
-
-
84863230221
-
Alternative polyadenylation mediates microRNA regulation of muscle stem cell function
-
Boutet SC, Cheung TH, Quach NL, Liu L, Prescott SL, Edalati A, Iori K, Rando TA: Alternative polyadenylation mediates microRNA regulation of muscle stem cell function. Cell Stem Cell 2012, 10:327-336.
-
(2012)
Cell Stem Cell
, vol.10
, pp. 327-336
-
-
Boutet, S.C.1
Cheung, T.H.2
Quach, N.L.3
Liu, L.4
Prescott, S.L.5
Edalati, A.6
Iori, K.7
Rando, T.A.8
-
45
-
-
68749113985
-
Widespread shortening of 30UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells
-
Mayr C, Bartel DP: Widespread shortening of 30UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells. Cell 2009, 138:673-684.
-
(2009)
Cell
, vol.138
, pp. 673-684
-
-
Mayr, C.1
Bartel, D.P.2
-
46
-
-
0032880399
-
Aberrant mRNAs with extended 30 UTRs are substrates for rapid degradation by mRNA surveillance
-
Muhlrad D, Parker R: Aberrant mRNAs with extended 30 UTRs are substrates for rapid degradation by mRNA surveillance. RNA 1999, 5:1299-1307.
-
(1999)
RNA
, vol.5
, pp. 1299-1307
-
-
Muhlrad, D.1
Parker, R.2
-
47
-
-
66249097064
-
Long 30-UTRs target wild-type mRNAs for nonsense-mediated mRNA decay in Saccharomyces cerevisiae
-
Kebaara BW, Atkin AL: Long 30-UTRs target wild-type mRNAs for nonsense-mediated mRNA decay in Saccharomyces cerevisiae. Nucleic Acids Res 2009, 37:2771-2778.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 2771-2778
-
-
Kebaara, B.W.1
Atkin, A.L.2
-
48
-
-
77958459763
-
Upf1 senses 30UTR length to potentiate mRNA decay
-
Hogg JR, Goff SP: Upf1 senses 30UTR length to potentiate mRNA decay. Cell 2010, 143:379-389.
-
(2010)
Cell
, vol.143
, pp. 379-389
-
-
Hogg, J.R.1
Goff, S.P.2
-
49
-
-
84860765680
-
Systematic discovery of structural elements governing stability of mammalian messenger RNAs
-
Goodarzi H, Najafabadi HS, Oikonomou P, Greco TM, Fish L, Salavati R, Cristea IM, Tavazoie S: Systematic discovery of structural elements governing stability of mammalian messenger RNAs. Nature 2012, 485:264-268.
-
(2012)
Nature
, vol.485
, pp. 264-268
-
-
Goodarzi, H.1
Najafabadi, H.S.2
Oikonomou, P.3
Greco, T.M.4
Fish, L.5
Salavati, R.6
Cristea, I.M.7
Tavazoie, S.8
-
50
-
-
69549135202
-
To localize or not to localize: mRNA fate is in 30UTR ends
-
Andreassi C, Riccio A: To localize or not to localize: mRNA fate is in 30UTR ends. Trends Cell Biol 2009, 19:465-474.
-
(2009)
Trends Cell Biol
, vol.19
, pp. 465-474
-
-
Andreassi, C.1
Riccio, A.2
-
51
-
-
0037308625
-
Translational control by the 30-UTR: the ends specify the means
-
Mazumder B, Seshadri V, Fox PL: Translational control by the 30-UTR: the ends specify the means. Trends Biochem Sci 2003, 28:91-98.
-
(2003)
Trends Biochem Sci
, vol.28
, pp. 91-98
-
-
Mazumder, B.1
Seshadri, V.2
Fox, P.L.3
-
52
-
-
84857891402
-
Tissuespecific alternative polyadenylation at the imprinted gene Mest regulates allelic usage at Copg2
-
MacIsaac JL, Bogutz AB, Morrissy AS, Lefebvre L: Tissuespecific alternative polyadenylation at the imprinted gene Mest regulates allelic usage at Copg2. Nucleic Acids Res 2012, 40:1523-1535.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 1523-1535
-
-
MacIsaac, J.L.1
Bogutz, A.B.2
Morrissy, A.S.3
Lefebvre, L.4
-
53
-
-
80053137344
-
Neural-specific elongation of 30 UTRs during Drosophila development
-
Hilgers V, Perry MW, Hendrix D, Stark A, Levine M, Haley B: Neural-specific elongation of 30 UTRs during Drosophila development. Proc Natl Acad Sci U S A 2011, 108:15864-15869.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 15864-15869
-
-
Hilgers, V.1
Perry, M.W.2
Hendrix, D.3
Stark, A.4
Levine, M.5
Haley, B.6
-
54
-
-
0026457921
-
A rat brain-derived neurotrophic factor-encoding gene generates multiple transcripts through alternative use of 50 exons and polyadenylation sites
-
Ohara O, Gahara Y, Teraoka H, Kitamura T: A rat brain-derived neurotrophic factor-encoding gene generates multiple transcripts through alternative use of 50 exons and polyadenylation sites. Gene 1992, 121:383-386.
-
(1992)
Gene
, vol.121
, pp. 383-386
-
-
Ohara, O.1
Gahara, Y.2
Teraoka, H.3
Kitamura, T.4
-
55
-
-
77957682512
-
Distinct 30UTRs differentially regulate activity-dependent translation of brain-derived neurotrophic factor (BDNF)
-
Lau AG, Irier HA, Gu J, Tian D, Ku L, Liu G, Xia M, Fritsch B, Zheng JQ, Dingledine R et al.: Distinct 30UTRs differentially regulate activity-dependent translation of brain-derived neurotrophic factor (BDNF). Proc Natl Acad Sci U S A 2010, 107:15945-15950.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 15945-15950
-
-
Lau, A.G.1
Irier, H.A.2
Gu, J.3
Tian, D.4
Ku, L.5
Liu, G.6
Xia, M.7
Fritsch, B.8
Zheng, J.Q.9
Dingledine, R.10
-
56
-
-
84862909013
-
RNA-binding protein HuR autoregulates its expression by promoting alternative polyadenylation site usage
-
Dai W, Zhang G, Makeyev EV: RNA-binding protein HuR autoregulates its expression by promoting alternative polyadenylation site usage. Nucleic Acids Res 2012, 40:787-800.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 787-800
-
-
Dai, W.1
Zhang, G.2
Makeyev, E.V.3
-
57
-
-
84859355676
-
Neuron-specific ELAV/Hu proteins suppress HuR mRNA during neuronal differentiation by alternative polyadenylation
-
Mansfield KD, Keene JD: Neuron-specific ELAV/Hu proteins suppress HuR mRNA during neuronal differentiation by alternative polyadenylation. Nucleic Acids Res 2012, 40:2734-2746.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 2734-2746
-
-
Mansfield, K.D.1
Keene, J.D.2
-
58
-
-
0035117473
-
Elevated levels of the polyadenylation factor CstF 64 enhance formation of the 1kB Testis brain RNA-binding protein (TBRBP) mRNA in male germ cells
-
Chennathukuzhi VM, Lefrancois S, Morales CR, Syed V, Hecht NB: Elevated levels of the polyadenylation factor CstF 64 enhance formation of the 1kB Testis brain RNA-binding protein (TBRBP) mRNA in male germ cells. Mol Reprod Dev 2001, 58:460-469.
-
(2001)
Mol Reprod Dev
, vol.58
, pp. 460-469
-
-
Chennathukuzhi, V.M.1
Lefrancois, S.2
Morales, C.R.3
Syed, V.4
Hecht, N.B.5
-
59
-
-
0345676496
-
The DNA/RNA-binding protein, TB-RBP, moves from the nucleus to the cytoplasm and through intercellular bridges in male germ cells
-
Morales CR, Wu XQ, Hecht NB: The DNA/RNA-binding protein, TB-RBP, moves from the nucleus to the cytoplasm and through intercellular bridges in male germ cells. Dev Biol 1998, 201:113-123.
-
(1998)
Dev Biol
, vol.201
, pp. 113-123
-
-
Morales, C.R.1
Wu, X.Q.2
Hecht, N.B.3
-
60
-
-
84869228761
-
Transcriptome-wide analyses of CstF64-RNA interactions in global regulation of mRNA alternative polyadenylation
-
Yao C, Biesinger J, Wan J, Weng L, Xing Y, Xie X, Shi Y: Transcriptome-wide analyses of CstF64-RNA interactions in global regulation of mRNA alternative polyadenylation. Proc Natl Acad Sci U S A 2012, 109:18773-18778.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 18773-18778
-
-
Yao, C.1
Biesinger, J.2
Wan, J.3
Weng, L.4
Xing, Y.5
Xie, X.6
Shi, Y.7
-
61
-
-
0034999252
-
Overexpression of the CstF-64 and CPSF-160 polyadenylation protein messenger RNAs in mouse male germ cells
-
Dass B, Attaya EN, Michelle Wallace A, MacDonald CC: Overexpression of the CstF-64 and CPSF-160 polyadenylation protein messenger RNAs in mouse male germ cells. Biol Reprod 2001, 64:1722-1729.
-
(2001)
Biol Reprod
, vol.64
, pp. 1722-1729
-
-
Dass, B.1
Attaya, E.N.2
Michelle Wallace, A.3
MacDonald, C.C.4
-
62
-
-
2942629589
-
Polypyrimidine tract binding protein modulates efficiency of polyadenylation
-
Castelo-Branco P, Furger A, Wollerton M, Smith C, Moreira A, Proudfoot N: Polypyrimidine tract binding protein modulates efficiency of polyadenylation. Mol Cell Biol 2004, 24:4174-4183.
-
(2004)
Mol Cell Biol
, vol.24
, pp. 4174-4183
-
-
Castelo-Branco, P.1
Furger, A.2
Wollerton, M.3
Smith, C.4
Moreira, A.5
Proudfoot, N.6
-
63
-
-
0030777180
-
A neuron-specific splicing switch mediated by an array of pre-mRNA repressor sites: evidence of a regulatory role for the polypyrimidine tract binding protein and a brain-specific PTB counterpart
-
Ashiya M, Grabowski PJ: A neuron-specific splicing switch mediated by an array of pre-mRNA repressor sites: evidence of a regulatory role for the polypyrimidine tract binding protein and a brain-specific PTB counterpart. RNA 1997, 3:996-1015.
-
(1997)
RNA
, vol.3
, pp. 996-1015
-
-
Ashiya, M.1
Grabowski, P.J.2
-
64
-
-
79956217935
-
RBM4 down-regulates PTB and antagonizes its activity in muscle cell-specific alternative splicing
-
Lin J-C, Tarn W-Y: RBM4 down-regulates PTB and antagonizes its activity in muscle cell-specific alternative splicing. J Cell Biol 2011, 193:509-520.
-
(2011)
J Cell Biol
, vol.193
, pp. 509-520
-
-
Lin, J.-C.1
Tarn, W.-Y.2
-
65
-
-
78049264844
-
Heterogeneity in the muscle satellite cell population
-
Biressi S, Rando TA: Heterogeneity in the muscle satellite cell population. Semin Cell Dev Biol 2010, 21:845-854.
-
(2010)
Semin Cell Dev Biol
, vol.21
, pp. 845-854
-
-
Biressi, S.1
Rando, T.A.2
-
66
-
-
33845218548
-
Transcription factor profiling in individual hematopoietic progenitors by digital RT-PCR
-
Warren L, Bryder D, Weissman IL, Quake SR: Transcription factor profiling in individual hematopoietic progenitors by digital RT-PCR. Proc Natl Acad Sci U S A 2006, 103:17807-17812.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 17807-17812
-
-
Warren, L.1
Bryder, D.2
Weissman, I.L.3
Quake, S.R.4
-
67
-
-
84859602728
-
Microfluidic single-cell real-time PCR for comparative analysis of gene expression patterns
-
Sanchez-Freire V, Ebert AD, Kalisky T, Quake SR, Wu JC: Microfluidic single-cell real-time PCR for comparative analysis of gene expression patterns. Nat Protoc 2012, 7:829-838.
-
(2012)
Nat Protoc
, vol.7
, pp. 829-838
-
-
Sanchez-Freire, V.1
Ebert, A.D.2
Kalisky, T.3
Quake, S.R.4
Wu, J.C.5
-
68
-
-
83255177150
-
Singlecell dissection of transcriptional heterogeneity in human colon tumors
-
Dalerba P, Kalisky T, Sahoo D, Rajendran PS, Rothenberg ME, Leyrat AA, Sim S, Okamoto J, Johnston DM, Qian D et al.: Singlecell dissection of transcriptional heterogeneity in human colon tumors. Nat Biotechnol 2011, 29:1120-1127.
-
(2011)
Nat Biotechnol
, vol.29
, pp. 1120-1127
-
-
Dalerba, P.1
Kalisky, T.2
Sahoo, D.3
Rajendran, P.S.4
Rothenberg, M.E.5
Leyrat, A.A.6
Sim, S.7
Okamoto, J.8
Johnston, D.M.9
Qian, D.10
-
69
-
-
84864880991
-
Fulllength mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells
-
Ramsköld D, Luo S, Wang Y-C, Li R, Deng Q, Faridani OR, Daniels GA, Khrebtukova I, Loring JF, Laurent LC et al.: Fulllength mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells. Nat Biotechnol 2012, 30:777-782.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 777-782
-
-
Ramsköld, D.1
Luo, S.2
Wang, Y.-C.3
Li, R.4
Deng, Q.5
Faridani, O.R.6
Daniels, G.A.7
Khrebtukova, I.8
Loring, J.F.9
Laurent, L.C.10
-
70
-
-
67349146589
-
mRNA-Seq wholetranscriptome analysis of a single cell
-
Tang F, Barbacioru C, Wang Y, Nordman E, Lee C, Xu N, Wang X, Bodeau J, Tuch BB, Siddiqui A et al.: mRNA-Seq wholetranscriptome analysis of a single cell. Nat Methods 2009, 6:377-382.
-
(2009)
Nat Methods
, vol.6
, pp. 377-382
-
-
Tang, F.1
Barbacioru, C.2
Wang, Y.3
Nordman, E.4
Lee, C.5
Xu, N.6
Wang, X.7
Bodeau, J.8
Tuch, B.B.9
Siddiqui, A.10
-
71
-
-
34548316982
-
MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells
-
Ebert MS, Neilson JR, Sharp PA: MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods 2007, 4:721-726.
-
(2007)
Nat Methods
, vol.4
, pp. 721-726
-
-
Ebert, M.S.1
Neilson, J.R.2
Sharp, P.A.3
-
72
-
-
78149303249
-
MicroRNA sponges: progress and possibilities
-
Ebert MS, Sharp PA: MicroRNA sponges: progress and possibilities. RNA 2010, 16:2043-2050.
-
(2010)
RNA
, vol.16
, pp. 2043-2050
-
-
Ebert, M.S.1
Sharp, P.A.2
-
73
-
-
77951474125
-
Target mRNA abundance dilutes microRNA and siRNA activity
-
Arvey A, Larsson E, Sander C, Leslie CS, Marks DS: Target mRNA abundance dilutes microRNA and siRNA activity. Mol Syst Biol 2010, 6:363.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 363
-
-
Arvey, A.1
Larsson, E.2
Sander, C.3
Leslie, C.S.4
Marks, D.S.5
-
74
-
-
79961170994
-
A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?
-
Salmena L, Poliseno L, Tay Y, Kats L, Pandolfi PP: A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell 2011, 146:353-358.
-
(2011)
Cell
, vol.146
, pp. 353-358
-
-
Salmena, L.1
Poliseno, L.2
Tay, Y.3
Kats, L.4
Pandolfi, P.P.5
-
75
-
-
80054700538
-
Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs
-
Tay Y, Kats L, Salmena L, Weiss D, Tan SM, Ala U, Karreth F, Poliseno L, Provero P, Di Cunto F et al.: Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs. Cell 2011, 147:344-357.
-
(2011)
Cell
, vol.147
, pp. 344-357
-
-
Tay, Y.1
Kats, L.2
Salmena, L.3
Weiss, D.4
Tan, S.M.5
Ala, U.6
Karreth, F.7
Poliseno, L.8
Provero, P.9
Di Cunto, F.10
-
76
-
-
80054689794
-
An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma
-
Sumazin P, Yang X, Chiu H-S, Chung W-J, Iyer A, Llobet-Navas D, Rajbhandari P, Bansal M, Guarnieri P, Silva J et al.: An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma. Cell 2011, 147:370-381.
-
(2011)
Cell
, vol.147
, pp. 370-381
-
-
Sumazin, P.1
Yang, X.2
Chiu, H.-S.3
Chung, W.-J.4
Iyer, A.5
Llobet-Navas, D.6
Rajbhandari, P.7
Bansal, M.8
Guarnieri, P.9
Silva, J.10
-
77
-
-
80054681545
-
In vivo identification of tumor-suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma
-
Karreth FA, Tay Y, Perna D, Ala U, Tan SM, Rust AG, DeNicola G, Webster KA, Weiss D, Perez-Mancera PA et al.: In vivo identification of tumor-suppressive PTEN ceRNAs in an oncogenic BRAF-induced mouse model of melanoma. Cell 2011, 147:382-395.
-
(2011)
Cell
, vol.147
, pp. 382-395
-
-
Karreth, F.A.1
Tay, Y.2
Perna, D.3
Ala, U.4
Tan, S.M.5
Rust, A.G.6
DeNicola, G.7
Webster, K.A.8
Weiss, D.9
Perez-Mancera, P.A.10
-
78
-
-
80054715378
-
A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA
-
Cesana M, Cacchiarelli D, Legnini I, Santini T, Sthandier O, Chinappi M, Tramontano A, Bozzoni I: A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell 2011, 147:358-369.
-
(2011)
Cell
, vol.147
, pp. 358-369
-
-
Cesana, M.1
Cacchiarelli, D.2
Legnini, I.3
Santini, T.4
Sthandier, O.5
Chinappi, M.6
Tramontano, A.7
Bozzoni, I.8
-
79
-
-
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: A coding-independent function of gene and pseudogene mRNAs regulates tumour biology. Nature 2010, 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
-
80
-
-
56549105330
-
HITS-CLIP yields genome-wide insights into brain alternative RNA processing
-
Licatalosi DD, Mele A, Fak JJ, Ule J, Kayikci M, Chi SW, Clark TA, Schweitzer AC, Blume JE, Wang X et al.: HITS-CLIP yields genome-wide insights into brain alternative RNA processing. Nature 2008, 456:464-469.
-
(2008)
Nature
, vol.456
, pp. 464-469
-
-
Licatalosi, D.D.1
Mele, A.2
Fak, J.J.3
Ule, J.4
Kayikci, M.5
Chi, S.W.6
Clark, T.A.7
Schweitzer, A.C.8
Blume, J.E.9
Wang, X.10
-
81
-
-
84861302942
-
Genome-wide determination of a broad ESRPregulated posttranscriptional network by high-throughput sequencing
-
Dittmar KA, Jiang P, Park JW, Amirikian K, Wan J, Shen S, Xing Y, Carstens RP: Genome-wide determination of a broad ESRPregulated posttranscriptional network by high-throughput sequencing. Mol Cell Biol 2012, 32:1468-1482.
-
(2012)
Mol Cell Biol
, vol.32
, pp. 1468-1482
-
-
Dittmar, K.A.1
Jiang, P.2
Park, J.W.3
Amirikian, K.4
Wan, J.5
Shen, S.6
Xing, Y.7
Carstens, R.P.8
-
82
-
-
84860317107
-
The poly(A)-binding protein nuclear 1 suppresses alternative cleavage and polyadenylation sites
-
Jenal M, Elkon R, Loayza-Puch F, van Haaften G, Kühn U, Menzies FM, Vrielink J AFO, Bos AJ, Drost J, Rooijers K et al.: The poly(A)-binding protein nuclear 1 suppresses alternative cleavage and polyadenylation sites. Cell 2012, 149:538-553.
-
(2012)
Cell
, vol.149
, pp. 538-553
-
-
Jenal, M.1
Elkon, R.2
Loayza-Puch, F.3
van Haaften, G.4
Kühn, U.5
Menzies, F.M.6
Vrielink, J.A.F.O.7
Bos, A.J.8
Drost, J.9
Rooijers, K.10
-
83
-
-
84860779086
-
Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
-
Dominissini D, Moshitch-Moshkovitz S, Schwartz S, Salmon-Divon M, Ungar L, Osenberg S, Cesarkas K, Jacob-Hirsch J, Amariglio N, Kupiec M et al.: Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 2012, 485:201-206.
-
(2012)
Nature
, vol.485
, pp. 201-206
-
-
Dominissini, D.1
Moshitch-Moshkovitz, S.2
Schwartz, S.3
Salmon-Divon, M.4
Ungar, L.5
Osenberg, S.6
Cesarkas, K.7
Jacob-Hirsch, J.8
Amariglio, N.9
Kupiec, M.10
-
84
-
-
84862649489
-
Comprehensive analysis of mRNA methylation reveals enrichment in 30 UTRs and near stop codons
-
Meyer KD, Saletore Y, Zumbo P, Elemento O, Mason CE, Jaffrey SR: Comprehensive analysis of mRNA methylation reveals enrichment in 30 UTRs and near stop codons. Cell 2012, 149:1635-1646.
-
(2012)
Cell
, vol.149
, pp. 1635-1646
-
-
Meyer, K.D.1
Saletore, Y.2
Zumbo, P.3
Elemento, O.4
Mason, C.E.5
Jaffrey, S.R.6
-
85
-
-
17344371397
-
Short GCG, expansions in the PABP2 gene cause oculopharyngeal muscular dystrophy
-
Brais B, Bouchard JP, Xie YG, Rochefort DL, Chrétien N, ToméFM, Lafrenière RG, Rommens JM, Uyama E, Nohira O et al.: Short GCG, expansions in the PABP2 gene cause oculopharyngeal muscular dystrophy. Nat Genet 1998, 18:164-167.
-
(1998)
Nat Genet
, vol.18
, pp. 164-167
-
-
Brais, B.1
Bouchard, J.P.2
Xie, Y.G.3
Rochefort, D.L.4
Chrétien, N.5
Tomé, F.M.6
Lafrenière, R.G.7
Rommens, J.M.8
Uyama, E.9
Nohira, O.10
|