-
1
-
-
84860188058
-
RNA G-quadruplexes: G-quadruplexes with ‘U’ turns
-
Agarwal T, Jayaraj G, Pandey SP, Agarwala P, Maiti S. 2012. RNA G-quadruplexes: G-quadruplexes with ‘U’ turns. Curr Pharm Des 18: 2102-2111.
-
(2012)
Curr Pharm Des
, vol.18
, pp. 2102-2111
-
-
Agarwal, T.1
Jayaraj, G.2
Pandey, S.P.3
Agarwala, P.4
Maiti, S.5
-
2
-
-
84890688724
-
Biophysical characterization of G-quadruplex forming FMR1 mRNA and of its interactions with different fragile X mental retardation protein isoforms
-
Blice-Baum AC, Mihailescu MR. 2014. Biophysical characterization of G-quadruplex forming FMR1 mRNA and of its interactions with different fragile X mental retardation protein isoforms. RNA 20: 103-114.
-
(2014)
RNA
, vol.20
, pp. 103-114
-
-
Blice-Baum, A.C.1
Mihailescu, M.R.2
-
3
-
-
79952227361
-
CD44 splice isoform switching in human and mouse epithelium is essential for epithelial-mesenchymal transition and breast cancer progression
-
Brown RL, Reinke LM, Damerow MS, Perez D, Chodosh LA, Yang J, Cheng C. 2011. CD44 splice isoform switching in human and mouse epithelium is essential for epithelial-mesenchymal transition and breast cancer progression. J Clin Invest 121: 1064-1074.
-
(2011)
J Clin Invest
, vol.121
, pp. 1064-1074
-
-
Brown, R.L.1
Reinke, L.M.2
Damerow, M.S.3
Perez, D.4
Chodosh, L.A.5
Yang, J.6
Cheng, C.7
-
4
-
-
84862229118
-
5′-UTR RNA G-quadruplexes: Translation regulation and targeting
-
Bugaut A, Balasubramanian S. 2012. 5′-UTR RNA G-quadruplexes: translation regulation and targeting. Nucleic Acids Res 40: 4727-4741.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 4727-4741
-
-
Bugaut, A.1
Balasubramanian, S.2
-
5
-
-
84990032164
-
The C9ORF72 GGGGCC expansion forms RNA G-quadruplex inclusions and sequesters hnRNP H to disrupt splicing in ALS brains
-
Conlon EG, Lu L, Sharma A, Yamazaki T, Tang T, Shneider NA, Manley JL. 2016. The C9ORF72 GGGGCC expansion forms RNA G-quadruplex inclusions and sequesters hnRNP H to disrupt splicing in ALS brains. Elife 5: e17820.
-
(2016)
Elife
, vol.5
, pp. 17820
-
-
Conlon, E.G.1
Lu, L.2
Sharma, A.3
Yamazaki, T.4
Tang, T.5
Shneider, N.A.6
Manley, J.L.7
-
6
-
-
84903383719
-
RNA helicases DDX5 and DDX17 dynamically orchestrate transcription, miRNA, and splicing programs in cell differentiation
-
Dardenne E, Polay Espinoza M, Fattet L, Germann S, Lambert MP, Neil H, Zonta E, Mortada H, Gratadou L, Deygas M, et al. 2014. RNA helicases DDX5 and DDX17 dynamically orchestrate transcription, miRNA, and splicing programs in cell differentiation. Cell Rep 7: 1900-1913.
-
(2014)
Cell Rep
, vol.7
, pp. 1900-1913
-
-
Dardenne, E.1
Polay Espinoza, M.2
Fattet, L.3
Germann, S.4
Lambert, M.P.5
Neil, H.6
Zonta, E.7
Mortada, H.8
Gratadou, L.9
Deygas, M.10
-
7
-
-
1042268168
-
G-quartets 40 years later: From 5′-GMP to molecular biology and supramolecular chemistry
-
Davis JT. 2004. G-quartets 40 years later: from 5′-GMP to molecular biology and supramolecular chemistry. Angew Chem Int Ed Engl 43: 668-698.
-
(2004)
Angew Chem Int Ed Engl
, vol.43
, pp. 668-698
-
-
Davis, J.T.1
-
8
-
-
79551595610
-
Essential role for the interaction between hnRNP H/F and a G quadruplex in maintaining p53 pre-mRNA 3′-end processing and function during DNA damage
-
Decorsière A, Cayrel A, Vagner S, Millevoi S. 2011. Essential role for the interaction between hnRNP H/F and a G quadruplex in maintaining p53 pre-mRNA 3′-end processing and function during DNA damage. Genes Dev 25: 220-225.
-
(2011)
Genes Dev
, vol.25
, pp. 220-225
-
-
Decorsière, A.1
Cayrel, A.2
Vagner, S.3
Millevoi, S.4
-
9
-
-
84871809302
-
STAR: Ultrafast universal RNA-seq aligner
-
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, Gingeras TR. 2013. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29: 15-21.
-
(2013)
Bioinformatics
, vol.29
, pp. 15-21
-
-
Dobin, A.1
Davis, C.A.2
Schlesinger, F.3
Drenkow, J.4
Zaleski, C.5
Jha, S.6
Batut, P.7
Chaisson, M.8
Gingeras, T.R.9
-
10
-
-
33747085899
-
NMR structure of the three quasi RNA recognition motifs (qRRMs) of human hnRNP F and interaction studies with Bcl-x G-tract RNA: A novel mode of RNA recognition
-
Dominguez C, Allain FH. 2006. NMR structure of the three quasi RNA recognition motifs (qRRMs) of human hnRNP F and interaction studies with Bcl-x G-tract RNA: a novel mode of RNA recognition. Nucleic Acids Res 34: 3634-3645.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 3634-3645
-
-
Dominguez, C.1
Allain, F.H.2
-
12
-
-
40249084264
-
Conserved elements with potential to form polymorphic G-quadruplex structures in the first intron of human genes
-
Eddy J, Maizels N. 2008. Conserved elements with potential to form polymorphic G-quadruplex structures in the first intron of human genes. Nucleic Acids Res 36: 1321-1333.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 1321-1333
-
-
Eddy, J.1
Maizels, N.2
-
13
-
-
0032504020
-
Cation-regulated self-association of ‘synapsable’ DNA duplexes
-
Fahlman RP, Sen D. 1998. Cation-regulated self-association of ‘synapsable’ DNA duplexes. J Mol Biol 280: 237-244.
-
(1998)
J Mol Biol
, vol.280
, pp. 237-244
-
-
Fahlman, R.P.1
Sen, D.2
-
14
-
-
84922255144
-
Context-dependent control of alternative splicing by RNA-binding proteins
-
Fu XD, Ares M Jr. 2014. Context-dependent control of alternative splicing by RNA-binding proteins. Nat Rev Genet 15: 689-701.
-
(2014)
Nat Rev Genet
, vol.15
, pp. 689-701
-
-
Fu, X.D.1
Ares, M.2
-
15
-
-
20744450092
-
Heterogeneous nuclear ribonucleoprotein F/H proteins modulate the alternative splicing of the apoptotic mediator Bcl-x
-
Garneau D, Revil T, Fisette JF, Chabot B. 2005. Heterogeneous nuclear ribonucleoprotein F/H proteins modulate the alternative splicing of the apoptotic mediator Bcl-x. J Biol Chem 280:22641-22650.
-
(2005)
J Biol Chem
, vol.280
, pp. 22641-22650
-
-
Garneau, D.1
Revil, T.2
Fisette, J.F.3
Chabot, B.4
-
16
-
-
1242342930
-
Telomerase downregulation induced by the G-quad-ruplex ligand 12459 in A549 cells is mediated by hTERT RNA alternative splicing
-
Gomez D, Lemarteleur T, Lacroix L, Mailliet P, Mergny JL, Riou JF. 2004. Telomerase downregulation induced by the G-quad-ruplex ligand 12459 in A549 cells is mediated by hTERT RNA alternative splicing. Nucleic Acids Res 32: 371-379.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 371-379
-
-
Gomez, D.1
Lemarteleur, T.2
Lacroix, L.3
Mailliet, P.4
Mergny, J.L.5
Riou, J.F.6
-
17
-
-
0035252410
-
Alternative splicing: Increasing diversity in the proteomic world
-
Graveley BR. 2001. Alternative splicing: increasing diversity in the proteomic world. Trends Genet 17: 100-107.
-
(2001)
Trends Genet
, vol.17
, pp. 100-107
-
-
Graveley, B.R.1
-
18
-
-
84989267452
-
RNA G-quadruplexes are globally unfolded in eukaryotic cells and depleted in bacteria
-
Guo JU, Bartel DP. 2016. RNA G-quadruplexes are globally unfolded in eukaryotic cells and depleted in bacteria. Science 353: aaf5371.
-
(2016)
Science
, vol.353
, pp. 5371
-
-
Guo, J.U.1
Bartel, D.P.2
-
19
-
-
0033594341
-
Interactions of TMPyP4 and TMPyP2 with quadruplex DNA. Structural basis for the differential effects on telomerase inhibition
-
Han FX, Wheelhouse RT, Hurley LH. 1999. Interactions of TMPyP4 and TMPyP2 with quadruplex DNA. Structural basis for the differential effects on telomerase inhibition. J Am Chem Soc 121: 3561-3570.
-
(1999)
J Am Chem Soc
, vol.121
, pp. 3561-3570
-
-
Han, F.X.1
Wheelhouse, R.T.2
Hurley, L.H.3
-
20
-
-
84953277669
-
Methods for characterization of alternative RNA splicing
-
Harvey SE, Cheng C. 2016. Methods for characterization of alternative RNA splicing. Methods Mol Biol 1402: 229-241.
-
(2016)
Methods Mol Biol
, vol.1402
, pp. 229-241
-
-
Harvey, S.E.1
Cheng, C.2
-
21
-
-
84927137590
-
Alternative CD44 splicing identifies epithelial prostate cancer cells from the mesenchymal counterparts
-
Hernandez JR, Kim JJ, Verdone JE, Liu X, Torga G, Pienta KJ, Mooney SM. 2015. Alternative CD44 splicing identifies epithelial prostate cancer cells from the mesenchymal counterparts. Med Oncol 32: 159.
-
(2015)
Med Oncol
, vol.32
, pp. 159
-
-
Hernandez, J.R.1
Kim, J.J.2
Verdone, J.E.3
Liu, X.4
Torga, G.5
Pienta, K.J.6
Mooney, S.M.7
-
22
-
-
84908339439
-
Detection of alternative splicing during epithelial-mesenchymal transition
-
Huang H, Xu Y, Cheng C. 2014. Detection of alternative splicing during epithelial-mesenchymal transition. J Vis Exp 9: e51845.
-
(2014)
J Vis Exp
, vol.9
, pp. 51845
-
-
Huang, H.1
Xu, Y.2
Cheng, C.3
-
23
-
-
84861161751
-
Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins
-
Huelga SC, Vu AQ, Arnold JD, Liang TY, Liu PP, Yan BY, Donohue JP, Shiue L, Hoon S, Brenner S, et al. 2012. Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Rep 1: 167-178.
-
(2012)
Cell Rep
, vol.1
, pp. 167-178
-
-
Huelga, S.C.1
Vu, A.Q.2
Arnold, J.D.3
Liang, T.Y.4
Liu, P.P.5
Yan, B.Y.6
Donohue, J.P.7
Shiue, L.8
Hoon, S.9
Brenner, S.10
-
25
-
-
84908284686
-
Building robust transcriptomes with master splicing factors
-
Jangi M, Sharp PA. 2014. Building robust transcriptomes with master splicing factors. Cell 159: 487-498.
-
(2014)
Cell
, vol.159
, pp. 487-498
-
-
Jangi, M.1
Sharp, P.A.2
-
26
-
-
80052178586
-
Research progress of RNA quadruplex
-
Ji X, Sun H, Zhou H, Xiang J, Tang Y, Zhao C. 2011. Research progress of RNA quadruplex. Nucleic Acid Ther 21: 185-200.
-
(2011)
Nucleic Acid Ther
, vol.21
, pp. 185-200
-
-
Ji, X.1
Sun, H.2
Zhou, H.3
Xiang, J.4
Tang, Y.5
Zhao, C.6
-
27
-
-
0347623371
-
Genome-wide survey of human alternative premRNA splicing with exon junction microarrays
-
Johnson JM, Castle J, Garrett-Engele P, Kan Z, Loerch PM, Armour CD, Santos R, Schadt EE, Stoughton R, Shoemaker DD. 2003. Genome-wide survey of human alternative premRNA splicing with exon junction microarrays. Science 302: 2141-2144.
-
(2003)
Science
, vol.302
, pp. 2141-2144
-
-
Johnson, J.M.1
Castle, J.2
Garrett-Engele, P.3
Kan, Z.4
Loerch, P.M.5
Armour, C.D.6
Santos, R.7
Schadt, E.E.8
Stoughton, R.9
Shoemaker, D.D.10
-
28
-
-
78649714014
-
Analysis and design of RNA sequencing experiments for identifying isoform regulation
-
Katz Y, Wang ET, Airoldi EM, Burge CB. 2010. Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat Methods 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
-
29
-
-
34948898592
-
The tetraplex (CGG)n destabilizing proteins hnRNP A2 and CBF-A enhance the in vivo translation of fragile X premutation mRNA
-
Khateb S, Weisman-Shomer P, Hershco-Shani I, Ludwig AL, Fry M. 2007. The tetraplex (CGG)n destabilizing proteins hnRNP A2 and CBF-A enhance the in vivo translation of fragile X premutation mRNA. Nucleic Acids Res 35: 5775-5788.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 5775-5788
-
-
Khateb, S.1
Weisman-Shomer, P.2
Hershco-Shani, I.3
Ludwig, A.L.4
Fry, M.5
-
30
-
-
33747860882
-
QGRS Mapper: A Web-based server for predicting G-quadruplexes in nucleotide sequences
-
Kikin O, D’Antonio L, Bagga PS. 2006. QGRS Mapper: a Web-based server for predicting G-quadruplexes in nucleotide sequences. Nucleic Acids Res 34: W676-W682.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W676-W682
-
-
Kikin, O.1
D’Antonio, L.2
Bagga, P.S.3
-
31
-
-
38549087401
-
GRSDB2 and GRS_UTRdb: Databases of quadruplex forming G-rich sequences in pre-mRNAs and mRNAs
-
Kikin O, Zappala Z, D’Antonio L, Bagga PS. 2008. GRSDB2 and GRS_UTRdb: databases of quadruplex forming G-rich sequences in pre-mRNAs and mRNAs. Nucleic Acids Res 36: D141-D148.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D141-D148
-
-
Kikin, O.1
Zappala, Z.2
D’Antonio, L.3
Bagga, P.S.4
-
32
-
-
0026740718
-
Primary structure and binding activity of the hnRNP U protein: Binding RNA through RGG box
-
Kiledjian M, Dreyfuss G. 1992. Primary structure and binding activity of the hnRNP U protein: binding RNA through RGG box. EMBO J 11: 2655-2664.
-
(1992)
EMBO J
, vol.11
, pp. 2655-2664
-
-
Kiledjian, M.1
Dreyfuss, G.2
-
33
-
-
33947310727
-
An RNA G-quadruplex in the 5′ UTR of the NRAS proto-oncogene modulates translation
-
Kumari S, Bugaut A, Huppert JL, Balasubramanian S. 2007. An RNA G-quadruplex in the 5′ UTR of the NRAS proto-oncogene modulates translation. Nat Chem Biol 3: 218-221.
-
(2007)
Nat Chem Biol
, vol.3
, pp. 218-221
-
-
Kumari, S.1
Bugaut, A.2
Huppert, J.L.3
Balasubramanian, S.4
-
34
-
-
84984611742
-
rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome
-
Kwok CK, Marsico G, Sahakyan AB, Chambers VS, Balasubramanian S. 2016. rG4-seq reveals widespread formation of G-quadruplex structures in the human transcriptome. Nat Methods 13: 841-844.
-
(2016)
Nat Methods
, vol.13
, pp. 841-844
-
-
Kwok, C.K.1
Marsico, G.2
Sahakyan, A.B.3
Chambers, V.S.4
Balasubramanian, S.5
-
35
-
-
78049439594
-
Role of the amino terminal RHAU-specific motif in the recognition and resolution of guanine quadruplex-RNA by the DEAH-box RNA helicase RHAU
-
Lattmann S, Giri B, Vaughn JP, Akman SA, Nagamine Y. 2010. Role of the amino terminal RHAU-specific motif in the recognition and resolution of guanine quadruplex-RNA by the DEAH-box RNA helicase RHAU. Nucleic Acids Res 38: 6219-6233.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 6219-6233
-
-
Lattmann, S.1
Giri, B.2
Vaughn, J.P.3
Akman, S.A.4
Nagamine, Y.5
-
36
-
-
84882268443
-
Alternative RNA splicing and cancer
-
Liu S, Cheng C. 2013. Alternative RNA splicing and cancer. Wiley Interdiscip Rev RNA 4: 547-566.
-
(2013)
Wiley Interdiscip Rev RNA
, vol.4
, pp. 547-566
-
-
Liu, S.1
Cheng, C.2
-
37
-
-
85023756242
-
Akt signaling is sustained by a CD44 splice isoform-mediated positive feedback loop
-
Liu S, Cheng C. 2017. Akt signaling is sustained by a CD44 splice isoform-mediated positive feedback loop. Cancer Res 77: 3791-3801.
-
(2017)
Cancer Res
, vol.77
, pp. 3791-3801
-
-
Liu, S.1
Cheng, C.2
-
38
-
-
85020457449
-
Structure-dependent binding of hnRNPA1 to telomere RNA
-
Liu X, Ishizuka T, Bao H-L, Wada K, Takeda Y, Iida K, Nagasawa K, Yang D, Xu Y. 2017. Structure-dependent binding of hnRNPA1 to telomere RNA. J Am Chem Soc 139: 7533-7539.
-
(2017)
J Am Chem Soc
, vol.139
, pp. 7533-7539
-
-
Liu, X.1
Ishizuka, T.2
Bao, H.-L.3
Wada, K.4
Takeda, Y.5
Iida, K.6
Nagasawa, K.7
Yang, D.8
Xu, Y.9
-
39
-
-
79952299200
-
G-quadruplex structures in TP53 intron 3: Role in alternative splicing and in production of p53 mRNA isoforms
-
Marcel V, Tran PL, Sagne C, Martel-Planche G, Vaslin L, Teulade-Fichou MP, Hall J, Mergny JL, Hainaut P, Van Dyck E. 2011. G-quadruplex structures in TP53 intron 3: role in alternative splicing and in production of p53 mRNA isoforms. Carcinogenesis 32: 271-278.
-
(2011)
Carcinogenesis
, vol.32
, pp. 271-278
-
-
Marcel, V.1
Tran, P.L.2
Sagne, C.3
Martel-Planche, G.4
Vaslin, L.5
Teulade-Fichou, M.P.6
Hall, J.7
Mergny, J.L.8
Hainaut, P.9
Van Dyck, E.10
-
40
-
-
72449126172
-
Shedding light on the interaction between TMPyP4 and human telomeric quadruplexes
-
Martino L, Pagano B, Fotticchia I, Neidle S, Giancola C. 2009. Shedding light on the interaction between TMPyP4 and human telomeric quadruplexes. J Phys Chem B 113: 14779-14786.
-
(2009)
J Phys Chem B
, vol.113
, pp. 14779-14786
-
-
Martino, L.1
Pagano, B.2
Fotticchia, I.3
Neidle, S.4
Giancola, C.5
-
41
-
-
0028356054
-
The hnRNP F protein: Unique primary structure, nucleic acid-binding properties, and subcellular localization
-
Matunis MJ, Xing J, Dreyfuss G. 1994. The hnRNP F protein: unique primary structure, nucleic acid-binding properties, and subcellular localization. Nucleic Acids Res 22: 1059-1067.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 1059-1067
-
-
Matunis, M.J.1
Xing, J.2
Dreyfuss, G.3
-
43
-
-
84861382319
-
The porphyrin TmPyP4 unfolds the extremely stable G-quadruplex in MT3-MMP mRNA and alleviates its repressive effect to enhance translation in eukaryotic cells
-
Morris MJ, Wingate KL, Silwal J, Leeper TC, Basu S. 2012. The porphyrin TmPyP4 unfolds the extremely stable G-quadruplex in MT3-MMP mRNA and alleviates its repressive effect to enhance translation in eukaryotic cells. Nucleic Acids Res 40: 4137-4145.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 4137-4145
-
-
Morris, M.J.1
Wingate, K.L.2
Silwal, J.3
Leeper, T.C.4
Basu, S.5
-
44
-
-
38949167747
-
Formation and temperature stability of G-quadruplex structures studied by electronic and vibrational circular dichroism spectroscopy combined with ab initio calculations
-
Novy J, Bohm S, Kralova J, Kral V, Urbanova M. 2008. Formation and temperature stability of G-quadruplex structures studied by electronic and vibrational circular dichroism spectroscopy combined with ab initio calculations. Biopolymers 89: 144-152.
-
(2008)
Biopolymers
, vol.89
, pp. 144-152
-
-
Novy, J.1
Bohm, S.2
Kralova, J.3
Kral, V.4
Urbanova, M.5
-
45
-
-
65849117023
-
The quadruplex r(CGG)n destabilizing cationic porphyrin TMPyP4 cooperates with hnRNPs to increase the translation efficiency of fragile X premutation mRNA
-
Ofer N, Weisman-Shomer P, Shklover J, Fry M. 2009. The quadruplex r(CGG)n destabilizing cationic porphyrin TMPyP4 cooperates with hnRNPs to increase the translation efficiency of fragile X premutation mRNA. Nucleic Acids Res 37: 2712-2722.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 2712-2722
-
-
Ofer, N.1
Weisman-Shomer, P.2
Shklover, J.3
Fry, M.4
-
46
-
-
33845891582
-
A bichromatic fluorescent reporter for cell-based screens of alternative splicing
-
Orengo JP, Bundman D, Cooper TA. 2006. A bichromatic fluorescent reporter for cell-based screens of alternative splicing. Nucleic Acids Research 34: e148.
-
(2006)
Nucleic Acids Research
, vol.34
, pp. 148
-
-
Orengo, J.P.1
Bundman, D.2
Cooper, T.A.3
-
47
-
-
56749098074
-
Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing
-
Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ. 2008. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet 40: 1413-1415.
-
(2008)
Nat Genet
, vol.40
, pp. 1413-1415
-
-
Pan, Q.1
Shai, O.2
Lee, L.J.3
Frey, B.J.4
Blencowe, B.J.5
-
48
-
-
84867795377
-
Snail represses the splicing regulator epithelial splicing regulatory protein 1 to promote epithelial-mesenchymal transition
-
Reinke LM, Xu Y, Cheng C. 2012. Snail represses the splicing regulator epithelial splicing regulatory protein 1 to promote epithelial-mesenchymal transition. J Biol Chem 287: 36435-36442.
-
(2012)
J Biol Chem
, vol.287
, pp. 36435-36442
-
-
Reinke, L.M.1
Xu, Y.2
Cheng, C.3
-
49
-
-
84956585383
-
Learning the sequence determinants of alternative splicing from millions of random sequences
-
Rosenberg AB, Patwardhan RP, Shendure J, Seelig G. 2015. Learning the sequence determinants of alternative splicing from millions of random sequences. Cell 163: 698-711.
-
(2015)
Cell
, vol.163
, pp. 698-711
-
-
Rosenberg, A.B.1
Patwardhan, R.P.2
Shendure, J.3
Seelig, G.4
-
50
-
-
84876367345
-
The high kinetic stability of a G-quadruplex limits hnRNP F qRRM3 binding to G-tract RNA
-
Samatanga B, Dominguez C, Jelesarov I, Allain FHT. 2013. The high kinetic stability of a G-quadruplex limits hnRNP F qRRM3 binding to G-tract RNA. Nucleic Acids Research 41: 2505-2516.
-
(2013)
Nucleic Acids Research
, vol.41
, pp. 2505-2516
-
-
Samatanga, B.1
Dominguez, C.2
Jelesarov, I.3
Allain, F.H.T.4
-
51
-
-
84919936245
-
rMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data
-
Shen S, Park JW, Lu ZX, Lin L, Henry MD, Wu YN, Zhou Q, Xing Y. 2014. rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data. Proc Natl Acad Sci 111: E5593-E5601.
-
(2014)
Proc Natl Acad Sci
, vol.111
, pp. 5593-5601
-
-
Shen, S.1
Park, J.W.2
Lu, Z.X.3
Lin, L.4
Henry, M.D.5
Wu, Y.N.6
Zhou, Q.7
Xing, Y.8
-
52
-
-
0037015078
-
Direct evidence for a G-quadruplex in a promoter region and its targeting with a small molecule to repress c-MYC transcription
-
Siddiqui-Jain A, Grand CL, Bearss DJ, Hurley LH. 2002. Direct evidence for a G-quadruplex in a promoter region and its targeting with a small molecule to repress c-MYC transcription. Proc Natl Acad Sci 99: 11593-11598.
-
(2002)
Proc Natl Acad Sci
, vol.99
, pp. 11593-11598
-
-
Siddiqui-Jain, A.1
Grand, C.L.2
Bearss, D.J.3
Hurley, L.H.4
-
53
-
-
47649124124
-
A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome
-
Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, Seifert M, Borodina T, Soldatov A, Parkhomchuk D, et al. 2008. A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science 321: 956-960.
-
(2008)
Science
, vol.321
, pp. 956-960
-
-
Sultan, M.1
Schulz, M.H.2
Richard, H.3
Magen, A.4
Klingenhoff, A.5
Scherf, M.6
Seifert, M.7
Borodina, T.8
Soldatov, A.9
Parkhomchuk, D.10
-
54
-
-
33244463813
-
Complex networks orchestrate epithelial-mesenchymal transitions
-
Thiery JP, Sleeman JP. 2006. Complex networks orchestrate epithelial-mesenchymal transitions. Nat Rev Mol Cell Biol 7: 131-142.
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, pp. 131-142
-
-
Thiery, J.P.1
Sleeman, J.P.2
-
55
-
-
77952123055
-
Transcript assembly and quantification by RNA-seq reveals unannotated transcripts and isoform switching during cell differentiation
-
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L. 2010. Transcript assembly and quantification by RNA-seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 28: 511-515.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 511-515
-
-
Trapnell, C.1
Williams, B.A.2
Pertea, G.3
Mortazavi, A.4
Kwan, G.5
van Baren, M.J.6
Salzberg, S.L.7
Wold, B.J.8
Pachter, L.9
-
56
-
-
84903124215
-
Identification and characterization of RNA guanine-quadruplex binding proteins
-
von Hacht A, Seifert O, Menger M, Schutze T, Arora A, Konthur Z, Neubauer P, Wagner A, Weise C, Kurreck J. 2014. Identification and characterization of RNA guanine-quadruplex binding proteins. Nucleic Acids Res 42: 6630-6644.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. 6630-6644
-
-
von Hacht, A.1
Seifert, O.2
Menger, M.3
Schutze, T.4
Arora, A.5
Konthur, Z.6
Neubauer, P.7
Wagner, A.8
Weise, C.9
Kurreck, J.10
-
57
-
-
84865091109
-
Circular dichroism and guanine quadruplexes
-
Vorlickova M, Kejnovska I, Sagi J, Renciuk D, Bednarova K, Motlova J, Kypr J. 2012. Circular dichroism and guanine quadruplexes. Methods (San Diego, Calif) 57: 64-75.
-
(2012)
Methods (San Diego, Calif)
, vol.57
, pp. 64-75
-
-
Vorlickova, M.1
Kejnovska, I.2
Sagi, J.3
Renciuk, D.4
Bednarova, K.5
Motlova, J.6
Kypr, J.7
-
58
-
-
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. 2008. Alternative isoform regulation in human tissue transcriptomes. Nature 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
-
59
-
-
84866606212
-
Translational repression of cyclin D3 by a stable G-quadruplex in its 5′ UTR: Implications for cell cycle regulation
-
Weng H-Y, Huang H-L, Zhao P-P, Zhou H, Qu L-H. 2012. Translational repression of cyclin D3 by a stable G-quadruplex in its 5′ UTR: implications for cell cycle regulation. RNA Biol 9: 1099-1109.
-
(2012)
RNA Biol
, vol.9
, pp. 1099-1109
-
-
Weng, H.-Y.1
Huang, H.-L.2
Zhao, P.-P.3
Zhou, H.4
Qu, L.-H.5
-
60
-
-
84907221438
-
RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer
-
Wolfe AL, Singh K, Zhong Y, Drewe P, Rajasekhar VK, Sanghvi VR, Mavrakis KJ, Jiang M, Roderick JE, Van der Meulen J, et al. 2014. RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer. Nature 513: 65-70.
-
(2014)
Nature
, vol.513
, pp. 65-70
-
-
Wolfe, A.L.1
Singh, K.2
Zhong, Y.3
Drewe, P.4
Rajasekhar, V.K.5
Sanghvi, V.R.6
Mavrakis, K.J.7
Jiang, M.8
Roderick, J.E.9
Van der Meulen, J.10
-
61
-
-
70349843229
-
Splice site strength-dependent activity and genetic buffering by poly-G runs
-
Xiao X, Wang Z, Jang M, Nutiu R, Wang ET, Burge CB. 2009. Splice site strength-dependent activity and genetic buffering by poly-G runs. Nat Struct Mol Biol 16: 1094-1100.
-
(2009)
Nat Struct Mol Biol
, vol.16
, pp. 1094-1100
-
-
Xiao, X.1
Wang, Z.2
Jang, M.3
Nutiu, R.4
Wang, E.T.5
Burge, C.B.6
-
62
-
-
84901746783
-
Cell type-restricted activity of hnRNPM promotes breast cancer metastasis via regulating alternative splicing
-
Xu Y, Gao XD, Lee JH, Huang H, Tan H, Ahn J, Reinke LM, Peter ME, Feng Y, Gius D, et al. 2014. Cell type-restricted activity of hnRNPM promotes breast cancer metastasis via regulating alternative splicing. Genes Dev 28: 1191-1203.
-
(2014)
Genes Dev
, vol.28
, pp. 1191-1203
-
-
Xu, Y.1
Gao, X.D.2
Lee, J.H.3
Huang, H.4
Tan, H.5
Ahn, J.6
Reinke, L.M.7
Peter, M.E.8
Feng, Y.9
Gius, D.10
-
63
-
-
44449144396
-
Epithelial-mesenchymal transition: At the crossroads of development and tumor metastasis
-
Yang J, Weinberg RA. 2008. Epithelial-mesenchymal transition: at the crossroads of development and tumor metastasis. Dev Cell 14: 818-829.
-
(2008)
Dev Cell
, vol.14
, pp. 818-829
-
-
Yang, J.1
Weinberg, R.A.2
-
64
-
-
84894465709
-
TMPyP4 porphyrin distorts RNA G-quadruplex structures of the disease-associated r(GGGGCC)n repeat of the C9orf72 gene and blocks interaction of RNA-binding proteins
-
Zamiri B, Reddy K, Macgregor RB Jr, Pearson CE. 2014. TMPyP4 porphyrin distorts RNA G-quadruplex structures of the disease-associated r(GGGGCC)n repeat of the C9orf72 gene and blocks interaction of RNA-binding proteins. J Biol Chem 289: 4653-4659.
-
(2014)
J Biol Chem
, vol.289
, pp. 4653-4659
-
-
Zamiri, B.1
Reddy, K.2
Macgregor, R.B.3
Pearson, C.E.4
-
65
-
-
84887460995
-
Misregulation of pre-mRNA alternative splicing in cancer
-
Zhang J, Manley JL. 2013. Misregulation of pre-mRNA alternative splicing in cancer. Cancer Discov 3: 1228-1237.
-
(2013)
Cancer Discov
, vol.3
, pp. 1228-1237
-
-
Zhang, J.1
Manley, J.L.2
-
66
-
-
84940923271
-
The C9orf72 repeat expansion disrupts nucleocytoplasmic transport
-
Zhang K, Donnelly CJ, Haeusler AR, Grima JC, Machamer JB, Steinwald P, Daley EL, Miller SJ, Cunningham KM, Vidensky S, et al. 2015. The C9orf72 repeat expansion disrupts nucleocytoplasmic transport. Nature 525: 56-61.
-
(2015)
Nature
, vol.525
, pp. 56-61
-
-
Zhang, K.1
Donnelly, C.J.2
Haeusler, A.R.3
Grima, J.C.4
Machamer, J.B.5
Steinwald, P.6
Daley, E.L.7
Miller, S.J.8
Cunningham, K.M.9
Vidensky, S.10
-
67
-
-
84964063270
-
The CD44s splice isoform is a central mediator for invadopodia activity
-
Zhao P, Xu Y, Wei Y, Qiu Q, Chew TL, Kang Y, Cheng C. 2016. The CD44s splice isoform is a central mediator for invadopodia activity. J Cell Sci 129: 1355-1365.
-
(2016)
J Cell Sci
, vol.129
, pp. 1355-1365
-
-
Zhao, P.1
Xu, Y.2
Wei, Y.3
Qiu, Q.4
Chew, T.L.5
Kang, Y.6
Cheng, C.7
|