-
1
-
-
84860338675
-
R loops: from transcription byproducts to threats to genome stability
-
Aguilera, A., García-Muse, T., R loops: from transcription byproducts to threats to genome stability. Mol. Cell 46 (2012), 115–124.
-
(2012)
Mol. Cell
, vol.46
, pp. 115-124
-
-
Aguilera, A.1
García-Muse, T.2
-
2
-
-
39049127613
-
Cellular nucleic acid binding protein binds G-rich single-stranded nucleic acids and may function as a nucleic acid chaperone
-
Armas, P., Nasif, S., Calcaterra, N.B., Cellular nucleic acid binding protein binds G-rich single-stranded nucleic acids and may function as a nucleic acid chaperone. J. Cell. Biochem. 103 (2008), 1013–1036.
-
(2008)
J. Cell. Biochem.
, vol.103
, pp. 1013-1036
-
-
Armas, P.1
Nasif, S.2
Calcaterra, N.B.3
-
3
-
-
38549083634
-
RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign
-
Bindewald, E., Hayes, R., Yingling, Y.G., Kasprzak, W., Shapiro, B.A., RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign. Nucleic Acids Res. 36 (2008), D392–D397.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. D392-D397
-
-
Bindewald, E.1
Hayes, R.2
Yingling, Y.G.3
Kasprzak, W.4
Shapiro, B.A.5
-
4
-
-
48649087364
-
Mesp1 acts as a master regulator of multipotent cardiovascular progenitor specification
-
Bondue, A., Lapouge, G., Paulissen, C., Semeraro, C., Iacovino, M., Kyba, M., Blanpain, C., Mesp1 acts as a master regulator of multipotent cardiovascular progenitor specification. Cell Stem Cell 3 (2008), 69–84.
-
(2008)
Cell Stem Cell
, vol.3
, pp. 69-84
-
-
Bondue, A.1
Lapouge, G.2
Paulissen, C.3
Semeraro, C.4
Iacovino, M.5
Kyba, M.6
Blanpain, C.7
-
5
-
-
77954925925
-
Cellular nucleic-acid-binding protein, a transcriptional enhancer of c-Myc, promotes the formation of parallel G-quadruplexes
-
Borgognone, M., Armas, P., Calcaterra, N.B., Cellular nucleic-acid-binding protein, a transcriptional enhancer of c-Myc, promotes the formation of parallel G-quadruplexes. Biochem. J. 428 (2010), 491–498.
-
(2010)
Biochem. J.
, vol.428
, pp. 491-498
-
-
Borgognone, M.1
Armas, P.2
Calcaterra, N.B.3
-
6
-
-
79951973722
-
CNBP: a multifunctional nucleic acid chaperone involved in cell death and proliferation control
-
Calcaterra, N.B., Armas, P., Weiner, A.M., Borgognone, M., CNBP: a multifunctional nucleic acid chaperone involved in cell death and proliferation control. IUBMB Life 62 (2010), 707–714.
-
(2010)
IUBMB Life
, vol.62
, pp. 707-714
-
-
Calcaterra, N.B.1
Armas, P.2
Weiner, A.M.3
Borgognone, M.4
-
7
-
-
2942571539
-
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
-
Cannone, J.J., Subramanian, S., Schnare, M.N., Collett, J.R., D'Souza, L.M., Du, Y., Feng, B., Lin, N., Madabusi, L.V., Müller, K.M., et al. The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics, 3, 2002, 2.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 2
-
-
Cannone, J.J.1
Subramanian, S.2
Schnare, M.N.3
Collett, J.R.4
D'Souza, L.M.5
Du, Y.6
Feng, B.7
Lin, N.8
Madabusi, L.V.9
Müller, K.M.10
-
8
-
-
0037383855
-
The zinc-finger protein CNBP is required for forebrain formation in the mouse
-
Chen, W., Liang, Y., Deng, W., Shimizu, K., Ashique, A.M., Li, E., Li, Y.P., The zinc-finger protein CNBP is required for forebrain formation in the mouse. Development 130 (2003), 1367–1379.
-
(2003)
Development
, vol.130
, pp. 1367-1379
-
-
Chen, W.1
Liang, Y.2
Deng, W.3
Shimizu, K.4
Ashique, A.M.5
Li, E.6
Li, Y.P.7
-
9
-
-
33947321525
-
Haploinsuffciency for Znf9 in Znf9+/- mice is associated with multiorgan abnormalities resembling myotonic dystrophy
-
Chen, W., Wang, Y., Abe, Y., Cheney, L., Udd, B., Li, Y.P., Haploinsuffciency for Znf9 in Znf9+/- mice is associated with multiorgan abnormalities resembling myotonic dystrophy. J. Mol. Biol. 368 (2007), 8–17.
-
(2007)
J. Mol. Biol.
, vol.368
, pp. 8-17
-
-
Chen, W.1
Wang, Y.2
Abe, Y.3
Cheney, L.4
Udd, B.5
Li, Y.P.6
-
10
-
-
84879826304
-
Mechanistic studies for the role of cellular nucleic-acid-binding protein (CNBP) in regulation of c-myc transcription
-
Chen, S., Su, L., Qiu, J., Xiao, N., Lin, J., Tan, J.H., Ou, T.M., Gu, L.Q., Huang, Z.S., Li, D., Mechanistic studies for the role of cellular nucleic-acid-binding protein (CNBP) in regulation of c-myc transcription. Biochim. Biophys. Acta 1830 (2013), 4769–4777.
-
(2013)
Biochim. Biophys. Acta
, vol.1830
, pp. 4769-4777
-
-
Chen, S.1
Su, L.2
Qiu, J.3
Xiao, N.4
Lin, J.5
Tan, J.H.6
Ou, T.M.7
Gu, L.Q.8
Huang, Z.S.9
Li, D.10
-
11
-
-
84929355793
-
Systematic discovery of Xist RNA binding proteins
-
Chu, C., Zhang, Q.C., da Rocha, S.T., Flynn, R.A., Bharadwaj, M., Calabrese, J.M., Magnuson, T., Heard, E., Chang, H.Y., Systematic discovery of Xist RNA binding proteins. Cell 161 (2015), 404–416.
-
(2015)
Cell
, vol.161
, pp. 404-416
-
-
Chu, C.1
Zhang, Q.C.2
da Rocha, S.T.3
Flynn, R.A.4
Bharadwaj, M.5
Calabrese, J.M.6
Magnuson, T.7
Heard, E.8
Chang, H.Y.9
-
12
-
-
58549109608
-
Accurate SHAPE-directed RNA structure determination
-
Deigan, K.E., Li, T.W., Mathews, D.H., Weeks, K.M., Accurate SHAPE-directed RNA structure determination. Proc. Natl. Acad. Sci. USA 106 (2009), 97–102.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 97-102
-
-
Deigan, K.E.1
Li, T.W.2
Mathews, D.H.3
Weeks, K.M.4
-
13
-
-
84893427735
-
In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features
-
Ding, Y., Tang, Y., Kwok, C.K., Zhang, Y., Bevilacqua, P.C., Assmann, S.M., In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features. Nature 505 (2014), 696–700.
-
(2014)
Nature
, vol.505
, pp. 696-700
-
-
Ding, Y.1
Tang, Y.2
Kwok, C.K.3
Zhang, Y.4
Bevilacqua, P.C.5
Assmann, S.M.6
-
14
-
-
84890559595
-
Long non-coding RNAs: new players in cell differentiation and development
-
Fatica, A., Bozzoni, I., Long non-coding RNAs: new players in cell differentiation and development. Nat. Rev. Genet. 15 (2014), 7–21.
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 7-21
-
-
Fatica, A.1
Bozzoni, I.2
-
15
-
-
84902141800
-
Long noncoding RNAs in cell-fate programming and reprogramming
-
Flynn, R.A., Chang, H.Y., Long noncoding RNAs in cell-fate programming and reprogramming. Cell Stem Cell 14 (2014), 752–761.
-
(2014)
Cell Stem Cell
, vol.14
, pp. 752-761
-
-
Flynn, R.A.1
Chang, H.Y.2
-
16
-
-
84886252113
-
RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts
-
Geisler, S., Coller, J., RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts. Nat. Rev. Mol. Cell Biol. 14 (2013), 699–712.
-
(2013)
Nat. Rev. Mol. Cell Biol.
, vol.14
, pp. 699-712
-
-
Geisler, S.1
Coller, J.2
-
17
-
-
84942848636
-
Linking RNA biology to lncRNAs
-
Goff, L.A., Rinn, J.L., Linking RNA biology to lncRNAs. Genome Res. 25 (2015), 1456–1465.
-
(2015)
Genome Res.
, vol.25
, pp. 1456-1465
-
-
Goff, L.A.1
Rinn, J.L.2
-
18
-
-
84873829893
-
The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse
-
Grote, P., Wittler, L., Hendrix, D., Koch, F., Währisch, S., Beisaw, A., Macura, K., Bläss, G., Kellis, M., Werber, M., Herrmann, B.G., The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse. Dev. Cell 24 (2013), 206–214.
-
(2013)
Dev. Cell
, vol.24
, pp. 206-214
-
-
Grote, P.1
Wittler, L.2
Hendrix, D.3
Koch, F.4
Währisch, S.5
Beisaw, A.6
Macura, K.7
Bläss, G.8
Kellis, M.9
Werber, M.10
Herrmann, B.G.11
-
19
-
-
0036600570
-
The accuracy of ribosomal RNA comparative structure models
-
Gutell, R.R., Lee, J.C., Cannone, J.J., The accuracy of ribosomal RNA comparative structure models. Curr. Opin. Struct. Biol. 12 (2002), 301–310.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 301-310
-
-
Gutell, R.R.1
Lee, J.C.2
Cannone, J.J.3
-
20
-
-
84908020927
-
A long noncoding RNA protects the heart from pathological hypertrophy
-
Han, P., Li, W., Lin, C.-H., Yang, J., Shang, C., Nurnberg, S.T., Jin, K.K., Xu, W., Lin, C.-Y., Lin, C.-J., et al. A long noncoding RNA protects the heart from pathological hypertrophy. Nature 514 (2014), 102–106.
-
(2014)
Nature
, vol.514
, pp. 102-106
-
-
Han, P.1
Li, W.2
Lin, C.-H.3
Yang, J.4
Shang, C.5
Nurnberg, S.T.6
Jin, K.K.7
Xu, W.8
Lin, C.-Y.9
Lin, C.-J.10
-
21
-
-
49749108546
-
Marking embryonic stem cells with a 2A self-cleaving peptide: a NKX2-5 emerald GFP BAC reporter
-
Hsiao, E.C., Yoshinaga, Y., Nguyen, T.D., Musone, S.L., Kim, J.E., Swinton, P., Espineda, I., Manalac, C., deJong, P.J., Conklin, B.R., Marking embryonic stem cells with a 2A self-cleaving peptide: a NKX2-5 emerald GFP BAC reporter. PLoS ONE, 3, 2008, e2532.
-
(2008)
PLoS ONE
, vol.3
, pp. e2532
-
-
Hsiao, E.C.1
Yoshinaga, Y.2
Nguyen, T.D.3
Musone, S.L.4
Kim, J.E.5
Swinton, P.6
Espineda, I.7
Manalac, C.8
deJong, P.J.9
Conklin, B.R.10
-
22
-
-
79959756263
-
Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters
-
Hung, T., Wang, Y., Lin, M.F., Koegel, A.K., Kotake, Y., Grant, G.D., Horlings, H.M., Shah, N., Umbricht, C., Wang, P., et al. Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters. Nat. Genet. 43 (2011), 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
-
23
-
-
79959948197
-
YY1 tethers Xist RNA to the inactive X nucleation center
-
Jeon, Y., Lee, J.T., YY1 tethers Xist RNA to the inactive X nucleation center. Cell 146 (2011), 119–133.
-
(2011)
Cell
, vol.146
, pp. 119-133
-
-
Jeon, Y.1
Lee, J.T.2
-
24
-
-
84890852686
-
Evolutionary conservation of long non-coding RNAs; sequence, structure, function
-
Johnsson, P., Lipovich, L., Grandér, D., Morris, K.V., Evolutionary conservation of long non-coding RNAs; sequence, structure, function. Biochim. Biophys. Acta 1840 (2014), 1063–1071.
-
(2014)
Biochim. Biophys. Acta
, vol.1840
, pp. 1063-1071
-
-
Johnsson, P.1
Lipovich, L.2
Grandér, D.3
Morris, K.V.4
-
25
-
-
80055006740
-
RNA Foci, CUGBP1, and ZNF9 are the primary targets of the mutant CUG and CCUG repeats expanded in myotonic dystrophies type 1 and type 2
-
Jones, K., Jin, B., Iakova, P., Huichalaf, C., Sarkar, P., Schneider-Gold, C., Schoser, B., Meola, G., Shyu, A.B., Timchenko, N., Timchenko, L., RNA Foci, CUGBP1, and ZNF9 are the primary targets of the mutant CUG and CCUG repeats expanded in myotonic dystrophies type 1 and type 2. Am. J. Pathol. 179 (2011), 2475–2489.
-
(2011)
Am. J. Pathol.
, vol.179
, pp. 2475-2489
-
-
Jones, K.1
Jin, B.2
Iakova, P.3
Huichalaf, C.4
Sarkar, P.5
Schneider-Gold, C.6
Schoser, B.7
Meola, G.8
Shyu, A.B.9
Timchenko, N.10
Timchenko, L.11
-
26
-
-
79551597211
-
Stage-specific optimization of activin/nodal and BMP signaling promotes cardiac differentiation of mouse and human pluripotent stem cell lines
-
Kattman, S.J., Witty, A.D., Gagliardi, M., Dubois, N.C., Niapour, M., Hotta, A., Ellis, J., Keller, G., Stage-specific optimization of activin/nodal and BMP signaling promotes cardiac differentiation of mouse and human pluripotent stem cell lines. Cell Stem Cell 8 (2011), 228–240.
-
(2011)
Cell Stem Cell
, vol.8
, pp. 228-240
-
-
Kattman, S.J.1
Witty, A.D.2
Gagliardi, M.3
Dubois, N.C.4
Niapour, M.5
Hotta, A.6
Ellis, J.7
Keller, G.8
-
27
-
-
33747860882
-
QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences
-
Kikin, O., D'Antonio, L., Bagga, P.S., QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences. Nucleic Acids Res. 34 (2006), W676–W682.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. W676-W682
-
-
Kikin, O.1
D'Antonio, L.2
Bagga, P.S.3
-
28
-
-
77951638287
-
Noncoding RNA gas5 is a growth arrest- and starvation-associated repressor of the glucocorticoid receptor
-
Kino, T., Hurt, D.E., Ichijo, T., Nader, N., Chrousos, G.P., Noncoding RNA gas5 is a growth arrest- and starvation-associated repressor of the glucocorticoid receptor. Sci. Signal., 3, 2010, ra8.
-
(2010)
Sci. Signal.
, vol.3
, pp. ra8
-
-
Kino, T.1
Hurt, D.E.2
Ichijo, T.3
Nader, N.4
Chrousos, G.P.5
-
29
-
-
84873300214
-
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment
-
Klattenhoff, C.A., Scheuermann, J.C., Surface, L.E., Bradley, R.K., Fields, P.A., Steinhauser, M.L., Ding, H., Butty, V.L., Torrey, L., Haas, S., et al. Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell 152 (2013), 570–583.
-
(2013)
Cell
, vol.152
, pp. 570-583
-
-
Klattenhoff, C.A.1
Scheuermann, J.C.2
Surface, L.E.3
Bradley, R.K.4
Fields, P.A.5
Steinhauser, M.L.6
Ding, H.7
Butty, V.L.8
Torrey, L.9
Haas, S.10
-
30
-
-
84872135457
-
Control of somatic tissue differentiation by the long non-coding RNA TINCR
-
Kretz, M., Siprashvili, Z., Chu, C., Webster, D.E., Zehnder, A., Qu, K., Lee, C.S., Flockhart, R.J., Groff, A.F., Chow, J., et al. Control of somatic tissue differentiation by the long non-coding RNA TINCR. Nature 493 (2013), 231–235.
-
(2013)
Nature
, vol.493
, pp. 231-235
-
-
Kretz, M.1
Siprashvili, Z.2
Chu, C.3
Webster, D.E.4
Zehnder, A.5
Qu, K.6
Lee, C.S.7
Flockhart, R.J.8
Groff, A.F.9
Chow, J.10
-
31
-
-
84874368349
-
Activating RNAs associate with Mediator to enhance chromatin architecture and transcription
-
Lai, F., Orom, U.A., Cesaroni, M., Beringer, M., Taatjes, D.J., Blobel, G.A., Shiekhattar, R., Activating RNAs associate with Mediator to enhance chromatin architecture and transcription. Nature 494 (2013), 497–501.
-
(2013)
Nature
, vol.494
, pp. 497-501
-
-
Lai, F.1
Orom, U.A.2
Cesaroni, M.3
Beringer, M.4
Taatjes, D.J.5
Blobel, G.A.6
Shiekhattar, R.7
-
32
-
-
84875177348
-
X-inactivation, imprinting, and long noncoding RNAs in health and disease
-
Lee, J.T., Bartolomei, M.S., X-inactivation, imprinting, and long noncoding RNAs in health and disease. Cell 152 (2013), 1308–1323.
-
(2013)
Cell
, vol.152
, pp. 1308-1323
-
-
Lee, J.T.1
Bartolomei, M.S.2
-
33
-
-
84861183915
-
Severe dilated cardiomyopathy in a patient with myotonic dystrophy type 2 and homozygous repeat expansion in ZNF9
-
Lee, T.M., Maurer, M.S., Karbassi, I., Braastad, C., Batish, S.D., Chung, W.K., Severe dilated cardiomyopathy in a patient with myotonic dystrophy type 2 and homozygous repeat expansion in ZNF9. Congest. Heart Fail. 18 (2012), 183–186.
-
(2012)
Congest. Heart Fail.
, vol.18
, pp. 183-186
-
-
Lee, T.M.1
Maurer, M.S.2
Karbassi, I.3
Braastad, C.4
Batish, S.D.5
Chung, W.K.6
-
34
-
-
84954399183
-
Noncoding RNA NORAD regulates genomic stability by sequestering PUMILIO proteins
-
Lee, S., Kopp, F., Chang, T.C., Sataluri, A., Chen, B., Sivakumar, S., Yu, H., Xie, Y., Mendell, J.T., Noncoding RNA NORAD regulates genomic stability by sequestering PUMILIO proteins. Cell 164 (2016), 69–80.
-
(2016)
Cell
, vol.164
, pp. 69-80
-
-
Lee, S.1
Kopp, F.2
Chang, T.C.3
Sataluri, A.4
Chen, B.5
Sivakumar, S.6
Yu, H.7
Xie, Y.8
Mendell, J.T.9
-
35
-
-
33744807172
-
The building blocks and motifs of RNA architecture
-
Leontis, N.B., Lescoute, A., Westhof, E., The building blocks and motifs of RNA architecture. Curr. Opin. Struct. Biol. 16 (2006), 279–287.
-
(2006)
Curr. Opin. Struct. Biol.
, vol.16
, pp. 279-287
-
-
Leontis, N.B.1
Lescoute, A.2
Westhof, E.3
-
36
-
-
48649106835
-
Mesp1 coordinately regulates cardiovascular fate restriction and epithelial-mesenchymal transition in differentiating ESCs
-
Lindsley, R.C., Gill, J.G., Murphy, T.L., Langer, E.M., Cai, M., Mashayekhi, M., Wang, W., Niwa, N., Nerbonne, J.M., Kyba, M., Murphy, K.M., Mesp1 coordinately regulates cardiovascular fate restriction and epithelial-mesenchymal transition in differentiating ESCs. Cell Stem Cell 3 (2008), 55–68.
-
(2008)
Cell Stem Cell
, vol.3
, pp. 55-68
-
-
Lindsley, R.C.1
Gill, J.G.2
Murphy, T.L.3
Langer, E.M.4
Cai, M.5
Mashayekhi, M.6
Wang, W.7
Niwa, N.8
Nerbonne, J.M.9
Kyba, M.10
Murphy, K.M.11
-
37
-
-
0035800434
-
Myotonic dystrophy type 2 caused by a CCTG expansion in intron 1 of ZNF9
-
Liquori, C.L., Ricker, K., Moseley, M.L., Jacobsen, J.F., Kress, W., Naylor, S.L., Day, J.W., Ranum, L.P., Myotonic dystrophy type 2 caused by a CCTG expansion in intron 1 of ZNF9. Science 293 (2001), 864–867.
-
(2001)
Science
, vol.293
, pp. 864-867
-
-
Liquori, C.L.1
Ricker, K.2
Moseley, M.L.3
Jacobsen, J.F.4
Kress, W.5
Naylor, S.L.6
Day, J.W.7
Ranum, L.P.8
-
38
-
-
84966478699
-
RNA duplex map in living cells reveals higher-order transcriptome structure
-
Lu, Z., Zhang, Q.C., Lee, B., Flynn, R.A., Smith, M.A., Robinson, J.T., Davidovich, C., Gooding, A.R., Goodrich, K.J., Mattick, J.S., et al. RNA duplex map in living cells reveals higher-order transcriptome structure. Cell 165 (2016), 1267–1279.
-
(2016)
Cell
, vol.165
, pp. 1267-1279
-
-
Lu, Z.1
Zhang, Q.C.2
Lee, B.3
Flynn, R.A.4
Smith, M.A.5
Robinson, J.T.6
Davidovich, C.7
Gooding, A.R.8
Goodrich, K.J.9
Mattick, J.S.10
-
39
-
-
53649094995
-
Reassessment of Isl1 and Nkx2-5 cardiac fate maps using a Gata4-based reporter of Cre activity
-
Ma, Q., Zhou, B., Pu, W.T., Reassessment of Isl1 and Nkx2-5 cardiac fate maps using a Gata4-based reporter of Cre activity. Dev. Biol. 323 (2008), 98–104.
-
(2008)
Dev. Biol.
, vol.323
, pp. 98-104
-
-
Ma, Q.1
Zhou, B.2
Pu, W.T.3
-
40
-
-
84915820650
-
Long noncoding RNA EWSAT1-mediated gene repression facilitates Ewing sarcoma oncogenesis
-
Marques Howarth, M., Simpson, D., Ngok, S.P., Nieves, B., Chen, R., Siprashvili, Z., Vaka, D., Breese, M.R., Crompton, B.D., Alexe, G., et al. Long noncoding RNA EWSAT1-mediated gene repression facilitates Ewing sarcoma oncogenesis. J. Clin. Invest. 124 (2014), 5275–5290.
-
(2014)
J. Clin. Invest.
, vol.124
, pp. 5275-5290
-
-
Marques Howarth, M.1
Simpson, D.2
Ngok, S.P.3
Nieves, B.4
Chen, R.5
Siprashvili, Z.6
Vaka, D.7
Breese, M.R.8
Crompton, B.D.9
Alexe, G.10
-
41
-
-
0028356054
-
The hnRNP F protein: unique primary structure, nucleic acid-binding properties, and subcellular localization
-
Matunis, M.J., Xing, J., Dreyfuss, G., The hnRNP F protein: unique primary structure, nucleic acid-binding properties, and subcellular localization. Nucleic Acids Res. 22 (1994), 1059–1067.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 1059-1067
-
-
Matunis, M.J.1
Xing, J.2
Dreyfuss, G.3
-
42
-
-
84864485953
-
QGRS-H Predictor: a web server for predicting homologous quadruplex forming G-rich sequence motifs in nucleotide sequences
-
Menendez, C., Frees, S., Bagga, P.S., QGRS-H Predictor: a web server for predicting homologous quadruplex forming G-rich sequence motifs in nucleotide sequences. Nucleic Acids Res. 40 (2012), W96–W103.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. W96-W103
-
-
Menendez, C.1
Frees, S.2
Bagga, P.S.3
-
43
-
-
0030836805
-
Comparative sequence analysis of ribonucleases HII, III, II PH and D
-
Mian, I.S., Comparative sequence analysis of ribonucleases HII, III, II PH and D. Nucleic Acids Res. 25 (1997), 3187–3195.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3187-3195
-
-
Mian, I.S.1
-
44
-
-
84877739247
-
Structural studies of RNase P
-
Mondragón, A., Structural studies of RNase P. Annu. Rev. Biophys. 42 (2013), 537–557.
-
(2013)
Annu. Rev. Biophys.
, vol.42
, pp. 537-557
-
-
Mondragón, A.1
-
45
-
-
33748183271
-
Low abundance of telomerase in yeast: implications for telomerase haploinsufficiency
-
Mozdy, A.D., Cech, T.R., Low abundance of telomerase in yeast: implications for telomerase haploinsufficiency. RNA 12 (2006), 1721–1737.
-
(2006)
RNA
, vol.12
, pp. 1721-1737
-
-
Mozdy, A.D.1
Cech, T.R.2
-
46
-
-
84945541116
-
Post-transcriptional regulation of Nkx2-5 by RHAU in heart development
-
Nie, J., Jiang, M., Zhang, X., Tang, H., Jin, H., Huang, X., Yuan, B., Zhang, C., Lai, J.C., Nagamine, Y., et al. Post-transcriptional regulation of Nkx2-5 by RHAU in heart development. Cell Rep. 13 (2015), 723–732.
-
(2015)
Cell Rep.
, vol.13
, pp. 723-732
-
-
Nie, J.1
Jiang, M.2
Zhang, X.3
Tang, H.4
Jin, H.5
Huang, X.6
Yuan, B.7
Zhang, C.8
Lai, J.C.9
Nagamine, Y.10
-
47
-
-
0021158357
-
Structure of ribosomal RNA
-
Noller, H.F., Structure of ribosomal RNA. Annu. Rev. Biochem. 53 (1984), 119–162.
-
(1984)
Annu. Rev. Biochem.
, vol.53
, pp. 119-162
-
-
Noller, H.F.1
-
48
-
-
84862195751
-
Structural architecture of the human long non-coding RNA, steroid receptor RNA activator
-
Novikova, I.V., Hennelly, S.P., Sanbonmatsu, K.Y., Structural architecture of the human long non-coding RNA, steroid receptor RNA activator. Nucleic Acids Res. 40 (2012), 5034–5051.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 5034-5051
-
-
Novikova, I.V.1
Hennelly, S.P.2
Sanbonmatsu, K.Y.3
-
49
-
-
84885127971
-
3S: shotgun secondary structure determination of long non-coding RNAs
-
Novikova, I.V., Dharap, A., Hennelly, S.P., Sanbonmatsu, K.Y., 3S: shotgun secondary structure determination of long non-coding RNAs. Methods 63 (2013), 170–177.
-
(2013)
Methods
, vol.63
, pp. 170-177
-
-
Novikova, I.V.1
Dharap, A.2
Hennelly, S.P.3
Sanbonmatsu, K.Y.4
-
50
-
-
84928208773
-
PARTICLE, a triplex-forming long ncRNA, regulates locus-specific methylation in response to low-dose irradiation
-
O'Leary, V.B., Ovsepian, S.V., Carrascosa, L.G., Buske, F.A., Radulovic, V., Niyazi, M., Moertl, S., Trau, M., Atkinson, M.J., Anastasov, N., PARTICLE, a triplex-forming long ncRNA, regulates locus-specific methylation in response to low-dose irradiation. Cell Rep. 11 (2015), 474–485.
-
(2015)
Cell Rep.
, vol.11
, pp. 474-485
-
-
O'Leary, V.B.1
Ovsepian, S.V.2
Carrascosa, L.G.3
Buske, F.A.4
Radulovic, V.5
Niyazi, M.6
Moertl, S.7
Trau, M.8
Atkinson, M.J.9
Anastasov, N.10
-
51
-
-
0033980890
-
Comparative sequence analysis and patterns of covariation in RNA secondary structures
-
Parsch, J., Braverman, J.M., Stephan, W., Comparative sequence analysis and patterns of covariation in RNA secondary structures. Genetics 154 (2000), 909–921.
-
(2000)
Genetics
, vol.154
, pp. 909-921
-
-
Parsch, J.1
Braverman, J.M.2
Stephan, W.3
-
52
-
-
60149099385
-
Evolution and functions of long noncoding RNAs
-
Ponting, C.P., Oliver, P.L., Reik, W., Evolution and functions of long noncoding RNAs. Cell 136 (2009), 629–641.
-
(2009)
Cell
, vol.136
, pp. 629-641
-
-
Ponting, C.P.1
Oliver, P.L.2
Reik, W.3
-
53
-
-
84899871594
-
Cellular nucleic acid binding protein suppresses tumor cell metastasis and induces tumor cell death by downregulating heterogeneous ribonucleoprotein K in fibrosarcoma cells
-
Qiu, J., Chen, S., Su, L., Liu, J., Xiao, N., Ou, T.M., Tan, J.H., Gu, L.Q., Huang, Z.S., Li, D., Cellular nucleic acid binding protein suppresses tumor cell metastasis and induces tumor cell death by downregulating heterogeneous ribonucleoprotein K in fibrosarcoma cells. Biochim. Biophys. Acta 1840 (2014), 2244–2252.
-
(2014)
Biochim. Biophys. Acta
, vol.1840
, pp. 2244-2252
-
-
Qiu, J.1
Chen, S.2
Su, L.3
Liu, J.4
Xiao, N.5
Ou, T.M.6
Tan, J.H.7
Gu, L.Q.8
Huang, Z.S.9
Li, D.10
-
54
-
-
84949952099
-
Unique features of long non-coding RNA biogenesis and function
-
Quinn, J.J., Chang, H.Y., Unique features of long non-coding RNA biogenesis and function. Nat. Rev. Genet. 17 (2016), 47–62.
-
(2016)
Nat. Rev. Genet.
, vol.17
, pp. 47-62
-
-
Quinn, J.J.1
Chang, H.Y.2
-
55
-
-
84887010498
-
Genome engineering using the CRISPR-Cas9 system
-
Ran, F.A., Hsu, P.D., Wright, J., Agarwala, V., Scott, D.A., Zhang, F., Genome engineering using the CRISPR-Cas9 system. Nat. Protoc. 8 (2013), 2281–2308.
-
(2013)
Nat. Protoc.
, vol.8
, pp. 2281-2308
-
-
Ran, F.A.1
Hsu, P.D.2
Wright, J.3
Agarwala, V.4
Scott, D.A.5
Zhang, F.6
-
56
-
-
84978149857
-
Pistol ribozyme adopts a pseudoknot fold facilitating site-specific in-line cleavage
-
Ren, A., Vušurović, N., Gebetsberger, J., Gao, P., Juen, M., Kreutz, C., Micura, R., Patel, D.J., Pistol ribozyme adopts a pseudoknot fold facilitating site-specific in-line cleavage. Nat. Chem. Biol., 2016, 10.1038/nchembio.2125.
-
(2016)
Nat. Chem. Biol.
-
-
Ren, A.1
Vušurović, N.2
Gebetsberger, J.3
Gao, P.4
Juen, M.5
Kreutz, C.6
Micura, R.7
Patel, D.J.8
-
57
-
-
84903641551
-
hnRNP F complexes with tristetraprolin and stimulates ARE-mRNA decay
-
Reznik, B., Clement, S.L., Lykke-Andersen, J., hnRNP F complexes with tristetraprolin and stimulates ARE-mRNA decay. PLoS ONE, 9, 2014, e100992.
-
(2014)
PLoS ONE
, vol.9
, pp. e100992
-
-
Reznik, B.1
Clement, S.L.2
Lykke-Andersen, J.3
-
58
-
-
84948677788
-
G-quadruplexes and their regulatory roles in biology
-
Rhodes, D., Lipps, H.J., G-quadruplexes and their regulatory roles in biology. Nucleic Acids Res. 43 (2015), 8627–8637.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. 8627-8637
-
-
Rhodes, D.1
Lipps, H.J.2
-
59
-
-
84861904178
-
Genome regulation by long noncoding RNAs
-
Rinn, J.L., Chang, H.Y., Genome regulation by long noncoding RNAs. Annu. Rev. Biochem. 81 (2012), 145–166.
-
(2012)
Annu. Rev. Biochem.
, vol.81
, pp. 145-166
-
-
Rinn, J.L.1
Chang, H.Y.2
-
60
-
-
84937710173
-
Lncing epigenetic control of transcription to cardiovascular development and disease
-
Rizki, G., Boyer, L.A., Lncing epigenetic control of transcription to cardiovascular development and disease. Circ. Res. 117 (2015), 192–206.
-
(2015)
Circ. Res.
, vol.117
, pp. 192-206
-
-
Rizki, G.1
Boyer, L.A.2
-
61
-
-
84893351549
-
Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo
-
Rouskin, S., Zubradt, M., Washietl, S., Kellis, M., Weissman, J.S., Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo. Nature 505 (2014), 701–705.
-
(2014)
Nature
, vol.505
, pp. 701-705
-
-
Rouskin, S.1
Zubradt, M.2
Washietl, S.3
Kellis, M.4
Weissman, J.S.5
-
62
-
-
84953393235
-
Towards structural classification of long non-coding RNAs
-
Sanbonmatsu, K.Y., Towards structural classification of long non-coding RNAs. Biochim. Biophys. Acta 1859 (2016), 41–45.
-
(2016)
Biochim. Biophys. Acta
, vol.1859
, pp. 41-45
-
-
Sanbonmatsu, K.Y.1
-
63
-
-
77958576363
-
Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes
-
Schmitz, K.M., Mayer, C., Postepska, A., Grummt, I., Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes. Genes Dev. 24 (2010), 2264–2269.
-
(2010)
Genes Dev.
, vol.24
, pp. 2264-2269
-
-
Schmitz, K.M.1
Mayer, C.2
Postepska, A.3
Grummt, I.4
-
64
-
-
34548778155
-
Ribozymes, riboswitches and beyond: regulation of gene expression without proteins
-
Serganov, A., Patel, D.J., Ribozymes, riboswitches and beyond: regulation of gene expression without proteins. Nat. Rev. Genet. 8 (2007), 776–790.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 776-790
-
-
Serganov, A.1
Patel, D.J.2
-
65
-
-
84869047676
-
Identification of proteins binding coding and non-coding human RNAs using protein microarrays
-
Siprashvili, Z., Webster, D.E., Kretz, M., Johnston, D., Rinn, J.L., Chang, H.Y., Khavari, P.A., Identification of proteins binding coding and non-coding human RNAs using protein microarrays. BMC Genomics, 13, 2012, 633.
-
(2012)
BMC Genomics
, vol.13
, pp. 633
-
-
Siprashvili, Z.1
Webster, D.E.2
Kretz, M.3
Johnston, D.4
Rinn, J.L.5
Chang, H.Y.6
Khavari, P.A.7
-
66
-
-
84928207166
-
HOTAIR forms an intricate and modular secondary structure
-
Somarowthu, S., Legiewicz, M., Chillón, I., Marcia, M., Liu, F., Pyle, A.M., HOTAIR forms an intricate and modular secondary structure. Mol. Cell 58 (2015), 353–361.
-
(2015)
Mol. Cell
, vol.58
, pp. 353-361
-
-
Somarowthu, S.1
Legiewicz, M.2
Chillón, I.3
Marcia, M.4
Liu, F.5
Pyle, A.M.6
-
67
-
-
84871298684
-
RNA SHAPE analysis in living cells
-
Spitale, R.C., Crisalli, P., Flynn, R.A., Torre, E.A., Kool, E.T., Chang, H.Y., RNA SHAPE analysis in living cells. Nat. Chem. Biol. 9 (2013), 18–20.
-
(2013)
Nat. Chem. Biol.
, vol.9
, pp. 18-20
-
-
Spitale, R.C.1
Crisalli, P.2
Flynn, R.A.3
Torre, E.A.4
Kool, E.T.5
Chang, H.Y.6
-
68
-
-
84925777836
-
Structural imprints in vivo decode RNA regulatory mechanisms
-
Spitale, R.C., Flynn, R.A., Zhang, Q.C., Crisalli, P., Lee, B., Jung, J.W., Kuchelmeister, H.Y., Batista, P.J., Torre, E.A., Kool, E.T., Chang, H.Y., Structural imprints in vivo decode RNA regulatory mechanisms. Nature 519 (2015), 486–490.
-
(2015)
Nature
, vol.519
, pp. 486-490
-
-
Spitale, R.C.1
Flynn, R.A.2
Zhang, Q.C.3
Crisalli, P.4
Lee, B.5
Jung, J.W.6
Kuchelmeister, H.Y.7
Batista, P.J.8
Torre, E.A.9
Kool, E.T.10
Chang, H.Y.11
-
69
-
-
0043009768
-
A four-way junction accelerates hairpin ribozyme folding via a discrete intermediate
-
Tan, E., Wilson, T.J., Nahas, M.K., Clegg, R.M., Lilley, D.M., Ha, T., A four-way junction accelerates hairpin ribozyme folding via a discrete intermediate. Proc. Natl. Acad. Sci. USA 100 (2003), 9308–9313.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 9308-9313
-
-
Tan, E.1
Wilson, T.J.2
Nahas, M.K.3
Clegg, R.M.4
Lilley, D.M.5
Ha, T.6
-
70
-
-
38449119903
-
DMS footprinting of structured RNAs and RNA-protein complexes
-
Tijerina, P., Mohr, S., Russell, R., DMS footprinting of structured RNAs and RNA-protein complexes. Nat. Protoc. 2 (2007), 2608–2623.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 2608-2623
-
-
Tijerina, P.1
Mohr, S.2
Russell, R.3
-
71
-
-
84879987789
-
lincRNAs: genomics, evolution, and mechanisms
-
Ulitsky, I., Bartel, D.P., lincRNAs: genomics, evolution, and mechanisms. Cell 154 (2013), 26–46.
-
(2013)
Cell
, vol.154
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
72
-
-
84867073340
-
Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage
-
Wamstad, J.A., Alexander, J.M., Truty, R.M., Shrikumar, A., Li, F., Eilertson, K.E., Ding, H., Wylie, J.N., Pico, A.R., Capra, J.A., et al. Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage. Cell 151 (2012), 206–220.
-
(2012)
Cell
, vol.151
, pp. 206-220
-
-
Wamstad, J.A.1
Alexander, J.M.2
Truty, R.M.3
Shrikumar, A.4
Li, F.5
Eilertson, K.E.6
Ding, H.7
Wylie, J.N.8
Pico, A.R.9
Capra, J.A.10
-
73
-
-
84867234474
-
Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules
-
Wang, Y., Ma, M., Xiao, X., Wang, Z., Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nat. Struct. Mol. Biol. 19 (2012), 1044–1052.
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 1044-1052
-
-
Wang, Y.1
Ma, M.2
Xiao, X.3
Wang, Z.4
-
74
-
-
77955787630
-
Advances in RNA structure analysis by chemical probing
-
Weeks, K.M., Advances in RNA structure analysis by chemical probing. Curr. Opin. Struct. Biol. 20 (2010), 295–304.
-
(2010)
Curr. Opin. Struct. Biol.
, vol.20
, pp. 295-304
-
-
Weeks, K.M.1
-
75
-
-
36849094934
-
CNBP mediates neural crest cell expansion by controlling cell proliferation and cell survival during rostral head development
-
Weiner, A.M., Allende, M.L., Becker, T.S., Calcaterra, N.B., CNBP mediates neural crest cell expansion by controlling cell proliferation and cell survival during rostral head development. J. Cell. Biochem. 102 (2007), 1553–1570.
-
(2007)
J. Cell. Biochem.
, vol.102
, pp. 1553-1570
-
-
Weiner, A.M.1
Allende, M.L.2
Becker, T.S.3
Calcaterra, N.B.4
-
76
-
-
80054681598
-
Deciphering the cellular and molecular roles of cellular nucleic acid binding protein during cranial neural crest development
-
Weiner, A.M., Sdrigotti, M.A., Kelsh, R.N., Calcaterra, N.B., Deciphering the cellular and molecular roles of cellular nucleic acid binding protein during cranial neural crest development. Dev. Growth Differ. 53 (2011), 934–947.
-
(2011)
Dev. Growth Differ.
, vol.53
, pp. 934-947
-
-
Weiner, A.M.1
Sdrigotti, M.A.2
Kelsh, R.N.3
Calcaterra, N.B.4
-
77
-
-
38549092075
-
QuadBase: genome-wide database of G4 DNA-occurrence and conservation in human, chimpanzee, mouse and rat promoters and 146 microbes
-
Yadav, V.K., Abraham, J.K., Mani, P., Kulshrestha, R., Chowdhury, S., QuadBase: genome-wide database of G4 DNA-occurrence and conservation in human, chimpanzee, mouse and rat promoters and 146 microbes. Nucleic Acids Res. 36 (2008), D381–D385.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. D381-D385
-
-
Yadav, V.K.1
Abraham, J.K.2
Mani, P.3
Kulshrestha, R.4
Chowdhury, S.5
-
78
-
-
3042798454
-
Yeast telomerase RNA: a flexible scaffold for protein subunits
-
Zappulla, D.C., Cech, T.R., Yeast telomerase RNA: a flexible scaffold for protein subunits. Proc. Natl. Acad. Sci. USA 101 (2004), 10024–10029.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 10024-10029
-
-
Zappulla, D.C.1
Cech, T.R.2
-
79
-
-
38549157087
-
Greglist: a database listing potential G-quadruplex regulated genes
-
Zhang, R., Lin, Y., Zhang, C.T., Greglist: a database listing potential G-quadruplex regulated genes. Nucleic Acids Res. 36 (2008), D372–D376.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. D372-D376
-
-
Zhang, R.1
Lin, Y.2
Zhang, C.T.3
|