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Volumn 1, Issue 3, 2012, Pages 277-289

Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; RNA BINDING PROTEIN;

EID: 84861179159     PISSN: None     EISSN: 22111247     Source Type: Journal    
DOI: 10.1016/j.celrep.2012.01.001     Document Type: Article
Times cited : (184)

References (43)
  • 1
    • 29144509665 scopus 로고    scopus 로고
    • Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development
    • Aboobaker A.A., Tomancak P., Patel N., Rubin G.M., Lai E.C. Drosophila microRNAs exhibit diverse spatial expression patterns during embryonic development. Proc. Natl. Acad. Sci. USA 2005, 102:18017-18022.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 18017-18022
    • Aboobaker, A.A.1    Tomancak, P.2    Patel, N.3    Rubin, G.M.4    Lai, E.C.5
  • 3
    • 33747823564 scopus 로고    scopus 로고
    • MEME: discovering and analyzing DNA and protein sequence motifs
    • Web Server issue, W369-73
    • Bailey T.L., Williams N., Misleh C., Li W.W. MEME: discovering and analyzing DNA and protein sequence motifs. Nucleic Acids Res. 2006, 34(Web Server issue). W369-73.
    • (2006) Nucleic Acids Res. , vol.34
    • Bailey, T.L.1    Williams, N.2    Misleh, C.3    Li, W.W.4
  • 5
    • 34249804498 scopus 로고    scopus 로고
    • 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
  • 6
    • 80052979140 scopus 로고    scopus 로고
    • Mechanisms and consequences of alternative polyadenylation
    • Di Giammartino D.C., Nishida K., Manley J.L. 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
  • 7
    • 54149095553 scopus 로고    scopus 로고
    • Biological principles of microRNA-mediated regulation: shared themes amid diversity
    • Flynt A.S., Lai E.C. Biological principles of microRNA-mediated regulation: shared themes amid diversity. Nat. Rev. Genet. 2008, 9:831-842.
    • (2008) Nat. Rev. Genet. , vol.9 , pp. 831-842
    • Flynt, A.S.1    Lai, E.C.2
  • 8
    • 79955554179 scopus 로고    scopus 로고
    • Differential genome-wide profiling of tandem 3' 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 genome-wide profiling of tandem 3' 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
  • 13
    • 25844497003 scopus 로고    scopus 로고
    • Bioinformatic identification of candidate cis-regulatory elements involved in human mRNA polyadenylation
    • Hu J., Lutz C.S., Wilusz J., Tian B. Bioinformatic identification of candidate cis-regulatory elements involved in human mRNA polyadenylation. RNA 2005, 11:1485-1493.
    • (2005) RNA , vol.11 , pp. 1485-1493
    • Hu, J.1    Lutz, C.S.2    Wilusz, J.3    Tian, B.4
  • 14
    • 78650972252 scopus 로고    scopus 로고
    • Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs
    • Jan C.H., Friedman R.C., Ruby J.G., Bartel D.P. Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs. 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
    • 77949538391 scopus 로고    scopus 로고
    • Reprogramming of 3' untranslated regions of mRNAs by alternative polyadenylation in generation of pluripotent stem cells from different cell types
    • Ji Z., Tian B. Reprogramming of 3' 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
  • 16
    • 66049104920 scopus 로고    scopus 로고
    • Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development
    • Ji Z., Lee J.Y., Pan Z., Jiang B., Tian B. Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development. Proc. Natl. Acad. Sci. USA 2009, 106:7028-7033.
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 7028-7033
    • Ji, Z.1    Lee, J.Y.2    Pan, Z.3    Jiang, B.4    Tian, B.5
  • 17
    • 0031469465 scopus 로고    scopus 로고
    • The Bearded box, a novel 3' UTR sequence motif, mediates negative post-transcriptional regulation of Bearded and Enhancer of split Complex gene expression
    • Lai E.C., Posakony J.W. The Bearded box, a novel 3' UTR sequence motif, mediates negative post-transcriptional regulation of Bearded and Enhancer of split Complex gene expression. Development 1997, 124:4847-4856.
    • (1997) Development , vol.124 , pp. 4847-4856
    • Lai, E.C.1    Posakony, J.W.2
  • 18
    • 18244402404 scopus 로고    scopus 로고
    • Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs
    • Lai E.C., Tam B., Rubin G.M. Pervasive regulation of Drosophila Notch target genes by GY-box-, Brd-box-, and K-box-class microRNAs. Genes Dev. 2005, 19:1067-1080.
    • (2005) Genes Dev. , vol.19 , pp. 1067-1080
    • Lai, E.C.1    Tam, B.2    Rubin, G.M.3
  • 19
    • 79953177468 scopus 로고    scopus 로고
    • Aligning short sequencing reads with Bowtie
    • Langmead B. Aligning short sequencing reads with Bowtie. Curr. Protoc. Bioinformatics 2010, Chapter 11:Unit 11.17.
    • (2010) Curr. Protoc. Bioinformatics , vol.Chapter 11
    • Langmead, B.1
  • 20
    • 72849106592 scopus 로고    scopus 로고
    • RNA processing and its regulation: global insights into biological networks
    • Licatalosi D.D., Darnell R.B. RNA processing and its regulation: global insights into biological networks. Nat. Rev. Genet. 2010, 11:75-87.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 75-87
    • Licatalosi, D.D.1    Darnell, R.B.2
  • 23
    • 0028025647 scopus 로고
    • The 64-kilodalton subunit of the CstF polyadenylation factor binds to pre-mRNAs downstream of the cleavage site and influences cleavage site location
    • MacDonald C.C., Wilusz J., Shenk T. The 64-kilodalton subunit of the CstF polyadenylation factor binds to pre-mRNAs downstream of the cleavage site and influences cleavage site location. Mol. Cell. Biol. 1994, 14:6647-6654.
    • (1994) Mol. Cell. Biol. , vol.14 , pp. 6647-6654
    • MacDonald, C.C.1    Wilusz, J.2    Shenk, T.3
  • 25
    • 68749113985 scopus 로고    scopus 로고
    • Widespread shortening of 3'UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells
    • Mayr C., Bartel D.P. Widespread shortening of 3'UTRs 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
  • 26
    • 8844253301 scopus 로고    scopus 로고
    • The translational repressor Pumilio regulates presynaptic morphology and controls postsynaptic accumulation of translation factor eIF-4E
    • Menon K.P., Sanyal S., Habara Y., Sanchez R., Wharton R.P., Ramaswami M., Zinn K. The translational repressor Pumilio regulates presynaptic morphology and controls postsynaptic accumulation of translation factor eIF-4E. Neuron 2004, 44:663-676.
    • (2004) Neuron , vol.44 , pp. 663-676
    • Menon, K.P.1    Sanyal, S.2    Habara, Y.3    Sanchez, R.4    Wharton, R.P.5    Ramaswami, M.6    Zinn, K.7
  • 28
    • 78650331647 scopus 로고    scopus 로고
    • modENCODE Identification of functional elements and regulatory circuits by Drosophila modENCODE
    • modENCODE Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science 2010, 330:1787-1797.
    • (2010) Science , vol.330 , pp. 1787-1797
  • 29
    • 78649910014 scopus 로고    scopus 로고
    • Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation
    • Ozsolak F., Kapranov P., Foissac S., Kim S.W., Fishilevich E., Monaghan A.P., John B., Milos P.M. 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
  • 30
    • 0035224579 scopus 로고    scopus 로고
    • An algorithm for finding signals of unknown length in DNA sequences
    • Pavesi G., Mauri G., Pesole G. An algorithm for finding signals of unknown length in DNA sequences. Bioinformatics 2001, 17(Suppl 1):S207-S214.
    • (2001) Bioinformatics , vol.17 , Issue.SUPPL. 1
    • Pavesi, G.1    Mauri, G.2    Pesole, G.3
  • 32
    • 70149123708 scopus 로고    scopus 로고
    • Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain
    • Ponjavic J., Oliver P.L., Lunter G., Ponting C.P. Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain. PLoS Genet. 2009, 5:e1000617.
    • (2009) PLoS Genet. , vol.5
    • Ponjavic, J.1    Oliver, P.L.2    Lunter, G.3    Ponting, C.P.4
  • 33
    • 33749038931 scopus 로고    scopus 로고
    • Similarities and differences of polyadenylation signals in human and fly
    • Retelska D., Iseli C., Bucher P., Jongeneel C.V., Naef F. Similarities and differences of polyadenylation signals in human and fly. BMC Genomics 2006, 7:176.
    • (2006) BMC Genomics , vol.7 , pp. 176
    • Retelska, D.1    Iseli, C.2    Bucher, P.3    Jongeneel, C.V.4    Naef, F.5
  • 34
    • 38149071979 scopus 로고    scopus 로고
    • 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
  • 35
    • 46249092601 scopus 로고    scopus 로고
    • Proliferating cells express mRNAs with shortened 3' untranslated regions and fewer microRNA target sites
    • Sandberg R., Neilson J.R., Sarma A., Sharp P.A., Burge C.B. Proliferating cells express mRNAs with shortened 3' 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
  • 36
    • 79953014914 scopus 로고    scopus 로고
    • Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq
    • Shepard P.J., Choi E.A., Lu J., Flanagan L.A., Hertel K.J., 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
  • 37
    • 0142027935 scopus 로고    scopus 로고
    • ELAV inhibits 3'-end processing to promote neural splicing of ewg pre-mRNA
    • Soller M., White K. ELAV inhibits 3'-end processing to promote neural splicing of ewg pre-mRNA. Genes Dev. 2003, 17:2526-2538.
    • (2003) Genes Dev. , vol.17 , pp. 2526-2538
    • Soller, M.1    White, K.2
  • 38
    • 18344371641 scopus 로고    scopus 로고
    • Moving messages: the intracellular localization of mRNAs
    • St Johnston D. Moving messages: the intracellular localization of mRNAs. Nat. Rev. Mol. Cell Biol. 2005, 6:363-375.
    • (2005) Nat. Rev. Mol. Cell Biol. , vol.6 , pp. 363-375
    • St Johnston, D.1
  • 39
    • 28944439309 scopus 로고    scopus 로고
    • Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution
    • Stark A., Brennecke J., Bushati N., Russell R.B., Cohen S.M. Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution. Cell 2005, 123:1133-1146.
    • (2005) Cell , vol.123 , pp. 1133-1146
    • Stark, A.1    Brennecke, J.2    Bushati, N.3    Russell, R.B.4    Cohen, S.M.5
  • 40
    • 13744254695 scopus 로고    scopus 로고
    • A large-scale analysis of mRNA polyadenylation of human and mouse genes
    • Tian B., Hu J., Zhang H., Lutz C.S. 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
  • 42
    • 15244358503 scopus 로고    scopus 로고
    • Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals
    • Xie X., Lu J., Kulbokas E.J., Golub T.R., Mootha V., Lindblad-Toh K., Lander E.S., Kellis M. Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals. Nature 2005, 434:338-345.
    • (2005) Nature , vol.434 , pp. 338-345
    • Xie, X.1    Lu, J.2    Kulbokas, E.J.3    Golub, T.R.4    Mootha, V.5    Lindblad-Toh, K.6    Lander, E.S.7    Kellis, M.8
  • 43
    • 33646950851 scopus 로고    scopus 로고
    • Biased alternative polyadenylation in human tissues
    • Zhang H., Lee J.Y., 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


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.