-
1
-
-
84911476411
-
CircRNA biogenesis competes with pre-mRNA splicing
-
Ashwal-Fluss R., Meyer M., Pamudurti N.R., Ivanov A., Bartok O., Hanan M., Evantal N., Memczak S., Rajewsky N., Kadener S. circRNA biogenesis competes with pre-mRNA splicing. Mol. Cell 2014, 56:55-66.
-
(2014)
Mol. Cell
, vol.56
, pp. 55-66
-
-
Ashwal-Fluss, R.1
Meyer, M.2
Pamudurti, N.R.3
Ivanov, A.4
Bartok, O.5
Hanan, M.6
Evantal, N.7
Memczak, S.8
Rajewsky, N.9
Kadener, S.10
-
2
-
-
84894318075
-
Coupling mRNA processing with transcription in time and space
-
Bentley D.L. Coupling mRNA processing with transcription in time and space. Nat. Rev. Genet. 2014, 15:163-175.
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 163-175
-
-
Bentley, D.L.1
-
3
-
-
84864251757
-
Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions
-
Bhatt D.M., Pandya-Jones A., Tong A.J., Barozzi I., Lissner M.M., Natoli G., Black D.L., Smale S.T. Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions. Cell 2012, 150:279-290.
-
(2012)
Cell
, vol.150
, pp. 279-290
-
-
Bhatt, D.M.1
Pandya-Jones, A.2
Tong, A.J.3
Barozzi, I.4
Lissner, M.M.5
Natoli, G.6
Black, D.L.7
Smale, S.T.8
-
4
-
-
84875208735
-
Dynamic integration of splicing within gene regulatory pathways
-
Braunschweig U., Gueroussov S., Plocik A.M., Graveley B.R., Blencowe B.J. Dynamic integration of splicing within gene regulatory pathways. Cell 2013, 152:1252-1269.
-
(2013)
Cell
, vol.152
, pp. 1252-1269
-
-
Braunschweig, U.1
Gueroussov, S.2
Plocik, A.M.3
Graveley, B.R.4
Blencowe, B.J.5
-
5
-
-
84959153658
-
The biogenesis and emerging roles of circular RNAs
-
Chen L.-L. The biogenesis and emerging roles of circular RNAs. Nat. Rev. Mol. Cell Biol. 2016, 17:205-211. 10.1038/nrm.2015.32.
-
(2016)
Nat. Rev. Mol. Cell Biol.
, vol.17
, pp. 205-211
-
-
Chen, L.-L.1
-
6
-
-
84926520652
-
ADAR1 is required for differentiation and neural induction by regulating microRNA processing in a catalytically independent manner
-
Chen T., Xiang J.F., Zhu S., Chen S., Yin Q.F., Zhang X.O., Zhang J., Feng H., Dong R., Li X.J., et al. ADAR1 is required for differentiation and neural induction by regulating microRNA processing in a catalytically independent manner. Cell Res. 2015, 25:459-476.
-
(2015)
Cell Res.
, vol.25
, pp. 459-476
-
-
Chen, T.1
Xiang, J.F.2
Zhu, S.3
Chen, S.4
Yin, Q.F.5
Zhang, X.O.6
Zhang, J.7
Feng, H.8
Dong, R.9
Li, X.J.10
-
7
-
-
84924599473
-
The RNA binding protein quaking regulates formation of circRNAs
-
Conn S.J., Pillman K.A., Toubia J., Conn V.M., Salmanidis M., Phillips C.A., Roslan S., Schreiber A.W., Gregory P.A., Goodall G.J. The RNA binding protein quaking regulates formation of circRNAs. Cell 2015, 160:1125-1134.
-
(2015)
Cell
, vol.160
, pp. 1125-1134
-
-
Conn, S.J.1
Pillman, K.A.2
Toubia, J.3
Conn, V.M.4
Salmanidis, M.5
Phillips, C.A.6
Roslan, S.7
Schreiber, A.W.8
Gregory, P.A.9
Goodall, G.J.10
-
8
-
-
0141888375
-
A slow RNA polymerase II affects alternative splicing in vivo
-
de la Mata M., Alonso C.R., Kadener S., Fededa J.P., Blaustein M., Pelisch F., Cramer P., Bentley D., Kornblihtt A.R. A slow RNA polymerase II affects alternative splicing in vivo. Mol. Cell 2003, 12:525-532.
-
(2003)
Mol. Cell
, vol.12
, pp. 525-532
-
-
de la Mata, M.1
Alonso, C.R.2
Kadener, S.3
Fededa, J.P.4
Blaustein, M.5
Pelisch, F.6
Cramer, P.7
Bentley, D.8
Kornblihtt, A.R.9
-
9
-
-
84940825361
-
Tracking distinct RNA populations using efficient and reversible covalent chemistry
-
Duffy E.E., Rutenberg-Schoenberg M., Stark C.D., Kitchen R.R., Gerstein M.B., Simon M.D. Tracking distinct RNA populations using efficient and reversible covalent chemistry. Mol. Cell 2015, 59:858-866.
-
(2015)
Mol. Cell
, vol.59
, pp. 858-866
-
-
Duffy, E.E.1
Rutenberg-Schoenberg, M.2
Stark, C.D.3
Kitchen, R.R.4
Gerstein, M.B.5
Simon, M.D.6
-
10
-
-
84914173890
-
Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate
-
Fong N., Kim H., Zhou Y., Ji X., Qiu J., Saldi T., Diener K., Jones K., Fu X.D., Bentley D.L. Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate. Genes Dev. 2014, 28:2663-2676.
-
(2014)
Genes Dev.
, vol.28
, pp. 2663-2676
-
-
Fong, N.1
Kim, H.2
Zhou, Y.3
Ji, X.4
Qiu, J.5
Saldi, T.6
Diener, K.7
Jones, K.8
Fu, X.D.9
Bentley, D.L.10
-
11
-
-
84991566019
-
4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells
-
Fuchs G., Voichek Y., Benjamin S., Gilad S., Amit I., Oren M. 4sUDRB-seq: measuring genomewide transcriptional elongation rates and initiation frequencies within cells. Genome Biol. 2014, 15:R69.
-
(2014)
Genome Biol.
, vol.15
, pp. R69
-
-
Fuchs, G.1
Voichek, Y.2
Benjamin, S.3
Gilad, S.4
Amit, I.5
Oren, M.6
-
12
-
-
84925857522
-
Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq
-
Fuchs G., Voichek Y., Rabani M., Benjamin S., Gilad S., Amit I., Oren M. Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq. Nat. Protoc. 2015, 10:605-618.
-
(2015)
Nat. Protoc.
, vol.10
, pp. 605-618
-
-
Fuchs, G.1
Voichek, Y.2
Rabani, M.3
Benjamin, S.4
Gilad, S.5
Amit, I.6
Oren, M.7
-
13
-
-
84956906428
-
Expanded identification and characterization of mammalian circular RNAs
-
Guo J.U., Agarwal V., Guo H., Bartel D.P. Expanded identification and characterization of mammalian circular RNAs. Genome Biol. 2014, 15:409.
-
(2014)
Genome Biol.
, vol.15
, pp. 409
-
-
Guo, J.U.1
Agarwal, V.2
Guo, H.3
Bartel, D.P.4
-
14
-
-
80455143733
-
MiRNA-dependent gene silencing involving Ago2-mediated cleavage of a circular antisense RNA
-
Hansen T.B., Wiklund E.D., Bramsen J.B., Villadsen S.B., Statham A.L., Clark S.J., Kjems J. miRNA-dependent gene silencing involving Ago2-mediated cleavage of a circular antisense RNA. EMBO J. 2011, 30:4414-4422.
-
(2011)
EMBO J.
, vol.30
, pp. 4414-4422
-
-
Hansen, T.B.1
Wiklund, E.D.2
Bramsen, J.B.3
Villadsen, S.B.4
Statham, A.L.5
Clark, S.J.6
Kjems, J.7
-
15
-
-
84875372911
-
Natural RNA circles function as efficient microRNA sponges
-
Hansen T.B., Jensen T.I., Clausen B.H., Bramsen J.B., Finsen B., Damgaard C.K., Kjems J. Natural RNA circles function as efficient microRNA sponges. Nature 2013, 495:384-388.
-
(2013)
Nature
, vol.495
, pp. 384-388
-
-
Hansen, T.B.1
Jensen, T.I.2
Clausen, B.H.3
Bramsen, J.B.4
Finsen, B.5
Damgaard, C.K.6
Kjems, J.7
-
16
-
-
84920917407
-
Analysis of intron sequences reveals hallmarks of circular RNA biogenesis in animals
-
Ivanov A., Memczak S., Wyler E., Torti F., Porath H.T., Orejuela M.R., Piechotta M., Levanon E.Y., Landthaler M., Dieterich C., Rajewsky N. Analysis of intron sequences reveals hallmarks of circular RNA biogenesis in animals. Cell Rep. 2015, 10:170-177.
-
(2015)
Cell Rep.
, vol.10
, pp. 170-177
-
-
Ivanov, A.1
Memczak, S.2
Wyler, E.3
Torti, F.4
Porath, H.T.5
Orejuela, M.R.6
Piechotta, M.7
Levanon, E.Y.8
Landthaler, M.9
Dieterich, C.10
Rajewsky, N.11
-
17
-
-
84872531655
-
Circular RNAs are abundant, conserved, and associated with ALU repeats
-
Jeck W.R., Sorrentino J.A., Wang K., Slevin M.K., Burd C.E., Liu J., Marzluff W.F., Sharpless N.E. Circular RNAs are abundant, conserved, and associated with ALU repeats. RNA 2013, 19:141-157.
-
(2013)
RNA
, vol.19
, pp. 141-157
-
-
Jeck, W.R.1
Sorrentino, J.A.2
Wang, K.3
Slevin, M.K.4
Burd, C.E.5
Liu, J.6
Marzluff, W.F.7
Sharpless, N.E.8
-
18
-
-
84899796207
-
Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons
-
Jonkers I., Kwak H., Lis J.T. Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons. eLife 2014, 3:e02407.
-
(2014)
eLife
, vol.3
, pp. e02407
-
-
Jonkers, I.1
Kwak, H.2
Lis, J.T.3
-
19
-
-
84944768846
-
Combinatorial control of Drosophila circular RNA expression by intronic repeats, hnRNPs, and SR proteins
-
Kramer M.C., Liang D., Tatomer D.C., Gold B., March Z.M., Cherry S., Wilusz J.E. Combinatorial control of Drosophila circular RNA expression by intronic repeats, hnRNPs, and SR proteins. Genes Dev. 2015, 29:2168-2182.
-
(2015)
Genes Dev.
, vol.29
, pp. 2168-2182
-
-
Kramer, M.C.1
Liang, D.2
Tatomer, D.C.3
Gold, B.4
March, Z.M.5
Cherry, S.6
Wilusz, J.E.7
-
20
-
-
84924274183
-
Exon-intron circular RNAs regulate transcription in the nucleus
-
Li Z., Huang C., Bao C., Chen L., Lin M., Wang X., Zhong G., Yu B., Hu W., Dai L., et al. Exon-intron circular RNAs regulate transcription in the nucleus. Nat. Struct. Mol. Biol. 2015, 22:256-264.
-
(2015)
Nat. Struct. Mol. Biol.
, vol.22
, pp. 256-264
-
-
Li, Z.1
Huang, C.2
Bao, C.3
Chen, L.4
Lin, M.5
Wang, X.6
Zhong, G.7
Yu, B.8
Hu, W.9
Dai, L.10
-
21
-
-
84908093894
-
Short intronic repeat sequences facilitate circular RNA production
-
Liang D., Wilusz J.E. Short intronic repeat sequences facilitate circular RNA production. Genes Dev. 2014, 28:2233-2247.
-
(2014)
Genes Dev.
, vol.28
, pp. 2233-2247
-
-
Liang, D.1
Wilusz, J.E.2
-
22
-
-
84875369248
-
Circular RNAs are a large class of animal RNAs with regulatory potency
-
Memczak S., Jens M., Elefsinioti A., Torti F., Krueger J., Rybak A., Maier L., Mackowiak S.D., Gregersen L.H., Munschauer M., et al. Circular RNAs are a large class of animal RNAs with regulatory potency. Nature 2013, 495:333-338.
-
(2013)
Nature
, vol.495
, pp. 333-338
-
-
Memczak, S.1
Jens, M.2
Elefsinioti, A.3
Torti, F.4
Krueger, J.5
Rybak, A.6
Maier, L.7
Mackowiak, S.D.8
Gregersen, L.H.9
Munschauer, M.10
-
23
-
-
79955768436
-
Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells
-
Rabani M., Levin J.Z., Fan L., Adiconis X., Raychowdhury R., Garber M., Gnirke A., Nusbaum C., Hacohen N., Friedman N., et al. Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells. Nat. Biotechnol. 2011, 29:436-442.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 436-442
-
-
Rabani, M.1
Levin, J.Z.2
Fan, L.3
Adiconis, X.4
Raychowdhury, R.5
Garber, M.6
Gnirke, A.7
Nusbaum, C.8
Hacohen, N.9
Friedman, N.10
-
24
-
-
84881539278
-
Metabolic labeling of newly transcribed RNA for high resolution gene expression profiling of RNA synthesis, processing and decay in cell culture
-
Rädle B., Rutkowski A.J., Ruzsics Z., Friedel C.C., Koszinowski U.H., Dölken L. Metabolic labeling of newly transcribed RNA for high resolution gene expression profiling of RNA synthesis, processing and decay in cell culture. J. Vis. Exp. 2013, 78:e50195.
-
(2013)
J. Vis. Exp.
, vol.78
, pp. e50195
-
-
Rädle, B.1
Rutkowski, A.J.2
Ruzsics, Z.3
Friedel, C.C.4
Koszinowski, U.H.5
Dölken, L.6
-
25
-
-
0035203881
-
Neural progenitors from human embryonic stem cells
-
Reubinoff B.E., Itsykson P., Turetsky T., Pera M.F., Reinhartz E., Itzik A., Ben-Hur T. Neural progenitors from human embryonic stem cells. Nat. Biotechnol. 2001, 19:1134-1140.
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 1134-1140
-
-
Reubinoff, B.E.1
Itsykson, P.2
Turetsky, T.3
Pera, M.F.4
Reinhartz, E.5
Itzik, A.6
Ben-Hur, T.7
-
26
-
-
1642528971
-
Analysis of the requirement for RNA polymerase II CTD heptapeptide repeats in pre-mRNA splicing and 3'-end cleavage
-
Rosonina E., Blencowe B.J. Analysis of the requirement for RNA polymerase II CTD heptapeptide repeats in pre-mRNA splicing and 3'-end cleavage. RNA 2004, 10:581-589.
-
(2004)
RNA
, vol.10
, pp. 581-589
-
-
Rosonina, E.1
Blencowe, B.J.2
-
27
-
-
84939419124
-
Circular RNAs in the mammalian brain are highly abundant, conserved, and dynamically expressed
-
Rybak-Wolf A., Stottmeister C., Glažar P., Jens M., Pino N., Giusti S., Hanan M., Behm M., Bartok O., Ashwal-Fluss R., et al. Circular RNAs in the mammalian brain are highly abundant, conserved, and dynamically expressed. Mol. Cell 2015, 58:870-885.
-
(2015)
Mol. Cell
, vol.58
, pp. 870-885
-
-
Rybak-Wolf, A.1
Stottmeister, C.2
Glažar, P.3
Jens, M.4
Pino, N.5
Giusti, S.6
Hanan, M.7
Behm, M.8
Bartok, O.9
Ashwal-Fluss, R.10
-
28
-
-
84863045982
-
Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types
-
Salzman J., Gawad C., Wang P.L., Lacayo N., Brown P.O. Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types. PLoS ONE 2012, 7:e30733.
-
(2012)
PLoS ONE
, vol.7
, pp. e30733
-
-
Salzman, J.1
Gawad, C.2
Wang, P.L.3
Lacayo, N.4
Brown, P.O.5
-
29
-
-
84884687363
-
Cell-type specific features of circular RNA expression
-
Salzman J., Chen R.E., Olsen M.N., Wang P.L., Brown P.O. Cell-type specific features of circular RNA expression. PLoS Genet. 2013, 9:e1003777.
-
(2013)
PLoS Genet.
, vol.9
, pp. e1003777
-
-
Salzman, J.1
Chen, R.E.2
Olsen, M.N.3
Wang, P.L.4
Brown, P.O.5
-
30
-
-
84920923470
-
Exon circularization requires canonical splice signals
-
Starke S., Jost I., Rossbach O., Schneider T., Schreiner S., Hung L.H., Bindereif A. Exon circularization requires canonical splice signals. Cell Rep. 2015, 10:103-111.
-
(2015)
Cell Rep.
, vol.10
, pp. 103-111
-
-
Starke, S.1
Jost, I.2
Rossbach, O.3
Schneider, T.4
Schreiner, S.5
Hung, L.H.6
Bindereif, A.7
-
31
-
-
84921368391
-
Efficient backsplicing produces translatable circular mRNAs
-
Wang Y., Wang Z. Efficient backsplicing produces translatable circular mRNAs. RNA 2015, 21:172-179.
-
(2015)
RNA
, vol.21
, pp. 172-179
-
-
Wang, Y.1
Wang, Z.2
-
32
-
-
84915820022
-
Genome-wide analysis of Drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation
-
Westholm J.O., Miura P., Olson S., Shenker S., Joseph B., Sanfilippo P., Celniker S.E., Graveley B.R., Lai E.C. Genome-wide analysis of Drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation. Cell Rep. 2014, 9:1966-1980.
-
(2014)
Cell Rep.
, vol.9
, pp. 1966-1980
-
-
Westholm, J.O.1
Miura, P.2
Olson, S.3
Shenker, S.4
Joseph, B.5
Sanfilippo, P.6
Celniker, S.E.7
Graveley, B.R.8
Lai, E.C.9
-
33
-
-
79951551684
-
Genomewide characterization of non-polyadenylated RNAs
-
Yang L., Duff M.O., Graveley B.R., Carmichael G.G., Chen L.L. Genomewide characterization of non-polyadenylated RNAs. Genome Biol. 2011, 12:R16.
-
(2011)
Genome Biol.
, vol.12
, pp. R16
-
-
Yang, L.1
Duff, M.O.2
Graveley, B.R.3
Carmichael, G.G.4
Chen, L.L.5
-
34
-
-
84921874618
-
Fractionation of non-polyadenylated and ribosomal-free RNAs from mammalian cells
-
Yin Q.F., Chen L.L., Yang L. Fractionation of non-polyadenylated and ribosomal-free RNAs from mammalian cells. Methods Mol. Biol. 2015, 1206:69-80.
-
(2015)
Methods Mol. Biol.
, vol.1206
, pp. 69-80
-
-
Yin, Q.F.1
Chen, L.L.2
Yang, L.3
-
35
-
-
84925773568
-
Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity
-
You X., Vlatkovic I., Babic A., Will T., Epstein I., Tushev G., Akbalik G., Wang M., Glock C., Quedenau C., et al. Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity. Nat. Neurosci. 2015, 18:603-610.
-
(2015)
Nat. Neurosci.
, vol.18
, pp. 603-610
-
-
You, X.1
Vlatkovic, I.2
Babic, A.3
Will, T.4
Epstein, I.5
Tushev, G.6
Akbalik, G.7
Wang, M.8
Glock, C.9
Quedenau, C.10
-
36
-
-
84907509527
-
Complementary sequence-mediated exon circularization
-
Zhang X.O., Wang H.B., Zhang Y., Lu X., Chen L.L., Yang L. Complementary sequence-mediated exon circularization. Cell 2014, 159:134-147.
-
(2014)
Cell
, vol.159
, pp. 134-147
-
-
Zhang, X.O.1
Wang, H.B.2
Zhang, Y.3
Lu, X.4
Chen, L.L.5
Yang, L.6
|