-
1
-
-
80555125029
-
Post-transcriptional exon shuffling events in humans can be evolutionarily conserved and abundant
-
Al-Balool H.H., Weber D., Liu Y., Wade M., Guleria K., Nam P.L., Clayton J., Rowe W., Coxhead J., Irving J., et al. Post-transcriptional exon shuffling events in humans can be evolutionarily conserved and abundant. Genome Res. 2011, 21:1788-1799.
-
(2011)
Genome Res.
, vol.21
, pp. 1788-1799
-
-
Al-Balool, H.H.1
Weber, D.2
Liu, Y.3
Wade, M.4
Guleria, K.5
Nam, P.L.6
Clayton, J.7
Rowe, W.8
Coxhead, J.9
Irving, J.10
-
2
-
-
0034069495
-
Gene ontology: tool for the unification of biology
-
Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T., et al. Gene ontology: tool for the unification of biology. Nat. Genet. 2000, 25:25-29. The Gene Ontology Consortium.
-
(2000)
Nat. Genet.
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
-
3
-
-
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
-
4
-
-
79551586302
-
Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence
-
Berezikov E., Robine N., Samsonova A., Westholm J.O., Naqvi A., Hung J.H., Okamura K., Dai Q., Bortolamiol-Becet D., Martin R., et al. Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Res. 2011, 21:203-215.
-
(2011)
Genome Res.
, vol.21
, pp. 203-215
-
-
Berezikov, E.1
Robine, N.2
Samsonova, A.3
Westholm, J.O.4
Naqvi, A.5
Hung, J.H.6
Okamura, K.7
Dai, Q.8
Bortolamiol-Becet, D.9
Martin, R.10
-
5
-
-
84907401383
-
Diversity and dynamics of the Drosophila transcriptome
-
Brown J.B., Boley N., Eisman R., May G.E., Stoiber M.H., Duff M.O., Booth B.W., Wen J., Park S., Suzuki A.M., et al. Diversity and dynamics of the Drosophila transcriptome. Nature 2014, 512:393-399.
-
(2014)
Nature
, vol.512
, pp. 393-399
-
-
Brown, J.B.1
Boley, N.2
Eisman, R.3
May, G.E.4
Stoiber, M.H.5
Duff, M.O.6
Booth, B.W.7
Wen, J.8
Park, S.9
Suzuki, A.M.10
-
6
-
-
69449093703
-
Regulation of vertebrate nervous system alternative splicing and development by an SR-related protein
-
Calarco J.A., Superina S., O'Hanlon D., Gabut M., Raj B., Pan Q., Skalska U., Clarke L., Gelinas D., van der Kooy D., et al. Regulation of vertebrate nervous system alternative splicing and development by an SR-related protein. Cell 2009, 138:898-910.
-
(2009)
Cell
, vol.138
, pp. 898-910
-
-
Calarco, J.A.1
Superina, S.2
O'Hanlon, D.3
Gabut, M.4
Raj, B.5
Pan, Q.6
Skalska, U.7
Clarke, L.8
Gelinas, D.9
van der Kooy, D.10
-
7
-
-
0027158771
-
Circular transcripts of the testis-determining gene Sry in adult mouse testis
-
Capel B., Swain A., Nicolis S., Hacker A., Walter M., Koopman P., Goodfellow P., Lovell-Badge R. Circular transcripts of the testis-determining gene Sry in adult mouse testis. Cell 1993, 73:1019-1030.
-
(1993)
Cell
, vol.73
, pp. 1019-1030
-
-
Capel, B.1
Swain, A.2
Nicolis, S.3
Hacker, A.4
Walter, M.5
Koopman, P.6
Goodfellow, P.7
Lovell-Badge, R.8
-
8
-
-
34249804498
-
Using FlyAtlas to identify better Drosophila melanogaster models of human disease
-
Chintapalli V.R., Wang J., Dow J.A. Using FlyAtlas to identify better Drosophila melanogaster models of human disease. Nat. Genet. 2007, 39:715-720.
-
(2007)
Nat. Genet.
, vol.39
, pp. 715-720
-
-
Chintapalli, V.R.1
Wang, J.2
Dow, J.A.3
-
9
-
-
0027389804
-
Mis-splicing yields circular RNA molecules
-
Cocquerelle C., Mascrez B., Hetuin D., Bailleul B. Mis-splicing yields circular RNA molecules. FASEB journal 1993, 7:155-160.
-
(1993)
FASEB journal
, vol.7
, pp. 155-160
-
-
Cocquerelle, C.1
Mascrez, B.2
Hetuin, D.3
Bailleul, B.4
-
10
-
-
84860171056
-
Transcriptome-wide discovery of circular RNAs in Archaea
-
Danan M., Schwartz S., Edelheit S., Sorek R. Transcriptome-wide discovery of circular RNAs in Archaea. Nucleic Acids Res. 2012, 40:3131-3142.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 3131-3142
-
-
Danan, M.1
Schwartz, S.2
Edelheit, S.3
Sorek, R.4
-
11
-
-
84871809302
-
STAR: ultrafast universal RNA-seq aligner
-
Dobin A., Davis C.A., Schlesinger F., Drenkow J., Zaleski C., Jha S., Batut P., Chaisson M., Gingeras T.R. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 2013, 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
-
12
-
-
0019430645
-
The intervening sequence of the ribosomal RNA precursor is converted to a circular RNA in isolated nuclei of Tetrahymena
-
Grabowski P.J., Zaug A.J., Cech T.R. The intervening sequence of the ribosomal RNA precursor is converted to a circular RNA in isolated nuclei of Tetrahymena. Cell 1981, 23:467-476.
-
(1981)
Cell
, vol.23
, pp. 467-476
-
-
Grabowski, P.J.1
Zaug, A.J.2
Cech, T.R.3
-
13
-
-
79953043801
-
The developmental transcriptome of Drosophila melanogaster
-
Graveley B.R., Brooks A.N., Carlson J.W., Duff M.O., Landolin J.M., Yang L., Artieri C.G., van Baren M.J., Boley N., Booth B.W., et al. The developmental transcriptome of Drosophila melanogaster. Nature 2011, 471:473-479.
-
(2011)
Nature
, vol.471
, pp. 473-479
-
-
Graveley, B.R.1
Brooks, A.N.2
Carlson, J.W.3
Duff, M.O.4
Landolin, J.M.5
Yang, L.6
Artieri, C.G.7
van Baren, M.J.8
Boley, N.9
Booth, B.W.10
-
14
-
-
34250805982
-
MicroRNA targeting specificity in mammals: determinants beyond seed pairing
-
Grimson A., Farh K.K., Johnston W.K., Garrett-Engele P., Lim L.P., Bartel D.P. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol. Cell 2007, 27:91-105.
-
(2007)
Mol. Cell
, vol.27
, pp. 91-105
-
-
Grimson, A.1
Farh, K.K.2
Johnston, W.K.3
Garrett-Engele, P.4
Lim, L.P.5
Bartel, D.P.6
-
15
-
-
59649125888
-
Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs
-
Gu S., Jin L., Zhang F., Sarnow P., Kay M.A. Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs. Nat. Struct. Mol. Biol. 2009, 16:144-150.
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 144-150
-
-
Gu, S.1
Jin, L.2
Zhang, F.3
Sarnow, P.4
Kay, M.A.5
-
16
-
-
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
-
17
-
-
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
-
18
-
-
80053137344
-
Neural-specific elongation of 3' UTRs during Drosophila development
-
Hilgers V., Perry M.W., Hendrix D., Stark A., Levine M., Haley B. Neural-specific elongation of 3' UTRs during Drosophila development. Proc. Natl. Acad. Sci. USA 2011, 108:15864-15869.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 15864-15869
-
-
Hilgers, V.1
Perry, M.W.2
Hendrix, D.3
Stark, A.4
Levine, M.5
Haley, B.6
-
19
-
-
33745641056
-
Noncanonical RNAs from transcripts of the Drosophila muscleblind gene
-
Houseley J.M., Garcia-Casado Z., Pascual M., Paricio N., O'Dell K.M., Monckton D.G., Artero R.D. Noncanonical RNAs from transcripts of the Drosophila muscleblind gene. J.Hered. 2006, 97:253-260.
-
(2006)
J.Hered.
, vol.97
, pp. 253-260
-
-
Houseley, J.M.1
Garcia-Casado, Z.2
Pascual, M.3
Paricio, N.4
O'Dell, K.M.5
Monckton, D.G.6
Artero, R.D.7
-
20
-
-
84900322651
-
Detecting and characterizing circular RNAs
-
Jeck W.R., Sharpless N.E. Detecting and characterizing circular RNAs. Nat. Biotechnol. 2014, 32:453-461.
-
(2014)
Nat. Biotechnol.
, vol.32
, pp. 453-461
-
-
Jeck, W.R.1
Sharpless, N.E.2
-
21
-
-
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
-
22
-
-
0035949674
-
A computational analysis of sequence features involved in recognition of short introns
-
Lim L.P., Burge C.B. A computational analysis of sequence features involved in recognition of short introns. Proc. Natl. Acad. Sci. USA 2001, 98:11193-11198.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 11193-11198
-
-
Lim, L.P.1
Burge, C.B.2
-
23
-
-
77955622547
-
Global analysis of trans-splicing in Drosophila
-
McManus C.J., Duff M.O., Eipper-Mains J., Graveley B.R. Global analysis of trans-splicing in Drosophila. Proc. Natl. Acad. Sci. USA 2010, 107:12975-12979.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 12975-12979
-
-
McManus, C.J.1
Duff, M.O.2
Eipper-Mains, J.3
Graveley, B.R.4
-
24
-
-
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
-
25
-
-
84877111454
-
Widespread and extensive lengthening of 3' UTRs in the mammalian brain
-
Miura P., Shenker S., Andreu-Agullo C., Westholm J.O., Lai E.C. Widespread and extensive lengthening of 3' UTRs in the mammalian brain. Genome Res. 2013, 23:812-825.
-
(2013)
Genome Res.
, vol.23
, pp. 812-825
-
-
Miura, P.1
Shenker, S.2
Andreu-Agullo, C.3
Westholm, J.O.4
Lai, E.C.5
-
26
-
-
0025976493
-
Scrambled exons
-
Nigro J.M., Cho K.R., Fearon E.R., Kern S.E., Ruppert J.M., Oliner J.D., Kinzler K.W., Vogelstein B. Scrambled exons. Cell 1991, 64:607-613.
-
(1991)
Cell
, vol.64
, pp. 607-613
-
-
Nigro, J.M.1
Cho, K.R.2
Fearon, E.R.3
Kern, S.E.4
Ruppert, J.M.5
Oliner, J.D.6
Kinzler, K.W.7
Vogelstein, B.8
-
28
-
-
78650331647
-
Identification of functional elements and regulatory circuits by Drosophila modENCODE
-
Roy S., Ernst J., Kharchenko P.V., Kheradpour P., Negre N., Eaton M.L., Landolin J.M., Bristow C.A., Ma L., Lin M.F., et al. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science 2010, 330:1787-1797. modENCODE Consortium.
-
(2010)
Science
, vol.330
, pp. 1787-1797
-
-
Roy, S.1
Ernst, J.2
Kharchenko, P.V.3
Kheradpour, P.4
Negre, N.5
Eaton, M.L.6
Landolin, J.M.7
Bristow, C.A.8
Ma, L.9
Lin, M.F.10
-
29
-
-
38149071979
-
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
-
Ruby J.G., Stark A., Johnston W.K., Kellis M., Bartel D.P., Lai E.C. Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res. 2007, 17:1850-1864.
-
(2007)
Genome Res.
, vol.17
, pp. 1850-1864
-
-
Ruby, J.G.1
Stark, A.2
Johnston, W.K.3
Kellis, M.4
Bartel, D.P.5
Lai, E.C.6
-
30
-
-
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
-
31
-
-
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
-
32
-
-
0017180370
-
Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures
-
Sanger H.L., Klotz G., Riesner D., Gross H.J., Kleinschmidt A.K. Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures. Proc. Natl. Acad. Sci. USA 1976, 73:3852-3856.
-
(1976)
Proc. Natl. Acad. Sci. USA
, vol.73
, pp. 3852-3856
-
-
Sanger, H.L.1
Klotz, G.2
Riesner, D.3
Gross, H.J.4
Kleinschmidt, A.K.5
-
33
-
-
77957662209
-
Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs
-
Schnall-Levin M., Zhao Y., Perrimon N., Berger B. Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. Proc. Natl. Acad. Sci. USA 2010, 107:15751-15756.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 15751-15756
-
-
Schnall-Levin, M.1
Zhao, Y.2
Perrimon, N.3
Berger, B.4
-
34
-
-
84861179159
-
Global patterns of tissue-specific alternative polyadenylation in Drosophila
-
Smibert P., Miura P., Westholm J.O., Shenker S., May G., Duff M.O., Zhang D., Eads B.D., Carlson J., Brown J.B., et al. Global patterns of tissue-specific alternative polyadenylation in Drosophila. Cell Reports 2012, 1:277-289.
-
(2012)
Cell Reports
, vol.1
, pp. 277-289
-
-
Smibert, P.1
Miura, P.2
Westholm, J.O.3
Shenker, S.4
May, G.5
Duff, M.O.6
Zhang, D.7
Eads, B.D.8
Carlson, J.9
Brown, J.B.10
-
35
-
-
84904263912
-
Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines
-
Wen J., Mohammed J., Bortolamiol-Becet D., Tsai H., Robine N., Westholm J.O., Ladewig E., Dai Q., Okamura K., Flynt A.S., et al. Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines. Genome Res. 2014, 24:1236-1250.
-
(2014)
Genome Res.
, vol.24
, pp. 1236-1250
-
-
Wen, J.1
Mohammed, J.2
Bortolamiol-Becet, D.3
Tsai, H.4
Robine, N.5
Westholm, J.O.6
Ladewig, E.7
Dai, Q.8
Okamura, K.9
Flynt, A.S.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
|