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Nature Genetics (297)
References
38
Referenced
92
-
Birney, E. et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447, 799–816 (2007).
(
10.1038/nature05874
) / Nature by E Birney (2007) -
Okazaki, Y. et al. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature 420, 563–573 (2002).
(
10.1038/nature01266
) / Nature by Y Okazaki (2002) -
David, L. et al. A high-resolution map of transcription in the yeast genome. Proc. Natl. Acad. Sci. USA 103, 5320–5325 (2006).
(
10.1073/pnas.0601091103
) / Proc. Natl. Acad. Sci. USA by L David (2006) -
Washietl, S., Hofacker, I.L., Lukasser, M., Huttenhofer, A. & Stadler, P.F. Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome. Nat. Biotechnol. 23, 1383–1390 (2005).
(
10.1038/nbt1144
) / Nat. Biotechnol. by S Washietl (2005) -
Kampa, D. et al. Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Res. 14, 331–342 (2004).
(
10.1101/gr.2094104
) / Genome Res. by D Kampa (2004) -
Steigele, S., Huber, W., Stocsits, C., Stadler, P.F. & Nieselt, K. Comparative analysis of structured RNAs in S. cerevisiae indicates a multitude of different functions. BMC Biol. 5, 25 (2007).
(
10.1186/1741-7007-5-25
) / BMC Biol. by S Steigele (2007) -
Struhl, K. Transcriptional noise and the fidelity of initiation by RNA polymerase II. Nat. Struct. Mol. Biol. 14, 103–105 (2007).
(
10.1038/nsmb0207-103
) / Nat. Struct. Mol. Biol. by K Struhl (2007) -
Perocchi, F., Xu, Z., Clauder-Munster, S. & Steinmetz, L.M. Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. Nucleic Acids Res. 35, e128 (2007).
(
10.1093/nar/gkm683
) / Nucleic Acids Res. by F Perocchi (2007) -
Hu, Z., Zhang, A., Storz, G., Gottesman, S. & Leppla, S.H. An antibody-based microarray assay for small RNA detection. Nucleic Acids Res. 34, e52 (2006).
(
10.1093/nar/gkl142
) / Nucleic Acids Res. by Z Hu (2006) -
Boguslawski, S.J. et al. Characterization of monoclonal antibody to DNA.RNA and its application to immunodetection of hybrids. J. Immunol. Methods 89, 123–130 (1986).
(
10.1016/0022-1759(86)90040-2
) / J. Immunol. Methods by SJ Boguslawski (1986) -
Kapranov, P., Willingham, A.T. & Gingeras, T.R. Genome-wide transcription and the implications for genomic organization. Nat. Rev. Genet. 8, 413–423 (2007).
(
10.1038/nrg2083
) / Nat. Rev. Genet. by P Kapranov (2007) -
Kapranov, P. et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science 316, 1484–1488 (2007).
(
10.1126/science.1138341
) / Science by P Kapranov (2007) -
Wood, V. et al. The genome sequence of Schizosaccharomyces pombe. Nature 415, 871–880 (2002).
(
10.1038/nature724
) / Nature by V Wood (2002) -
Leonardi, J., Box, J.A., Bunch, J.T. & Baumann, P. TER1, the RNA subunit of fission yeast telomerase. Nat. Struct. Mol. Biol. 15, 26–33 (2008).
(
10.1038/nsmb1343
) / Nat. Struct. Mol. Biol. by J Leonardi (2008) -
Webb, C.J. & Zakian, V.A. Identification and characterization of the Schizosaccharomyces pombe TER1 telomerase RNA. Nat. Struct. Mol. Biol. 15, 34–42 (2008).
(
10.1038/nsmb1354
) / Nat. Struct. Mol. Biol. by CJ Webb (2008) -
Gordon, M. et al. Genome-wide dynamics of SAPHIRE, an essential complex for gene activation and chromatin boundaries. Mol. Cell. Biol. 27, 4058–4069 (2007).
(
10.1128/MCB.02044-06
) / Mol. Cell. Biol. by M Gordon (2007) -
Chen, D. et al. Global transcriptional responses of fission yeast to environmental stress. Mol. Biol. Cell 14, 214–229 (2003).
(
10.1091/mbc.e02-08-0499
) / Mol. Biol. Cell by D Chen (2003) -
Katayama, S. et al. Antisense transcription in the mammalian transcriptome. Science 309, 1564–1566 (2005).
(
10.1126/science.1112009
) / Science by S Katayama (2005) -
Nicolas, E. et al. Distinct roles of HDAC complexes in promoter silencing, antisense suppression and DNA damage protection. Nat. Struct. Mol. Biol. 14, 372–380 (2007).
(
10.1038/nsmb1239
) / Nat. Struct. Mol. Biol. by E Nicolas (2007) -
Wiren, M. et al. Genomewide analysis of nucleosome density histone acetylation and HDAC function in fission yeast. EMBO J. 24, 2906–2918 (2005).
(
10.1038/sj.emboj.7600758
) / EMBO J. by M Wiren (2005) -
Noma, K., Cam, H.P., Maraia, R.J. & Grewal, S.I. A role for TFIIIC transcription factor complex in genome organization. Cell 125, 859–872 (2006).
(
10.1016/j.cell.2006.04.028
) / Cell by K Noma (2006) -
Volpe, T.A. et al. Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science 297, 1833–1837 (2002).
(
10.1126/science.1074973
) / Science by TA Volpe (2002) -
Allshire, R.C., Javerzat, J.P., Redhead, N.J. & Cranston, G. Position effect variegation at fission yeast centromeres. Cell 76, 157–169 (1994).
(
10.1016/0092-8674(94)90180-5
) / Cell by RC Allshire (1994) -
Takahashi, K. et al. A low copy number central sequence with strict symmetry and unusual chromatin structure in fission yeast centromere. Mol. Biol. Cell 3, 819–835 (1992).
(
10.1091/mbc.3.7.819
) / Mol. Biol. Cell by K Takahashi (1992) -
Scott, K.C., White, C.V. & Willard, H.F. An RNA polymerase III-dependent heterochromatin barrier at fission yeast centromere 1. PLoS ONE 2, e1099 (2007).
(
10.1371/journal.pone.0001099
) / PLoS ONE by KC Scott (2007) -
Baum, M., Ngan, V.K. & Clarke, L. The centromeric K-type repeat and the central core are together sufficient to establish a functional Schizosaccharomyces pombe centromere. Mol. Biol. Cell 5, 747–761 (1994).
(
10.1091/mbc.5.7.747
) / Mol. Biol. Cell by M Baum (1994) -
Partridge, J.F., Scott, K.S., Bannister, A.J., Kouzarides, T. & Allshire, R.C. cis-acting DNA from fission yeast centromeres mediates histone H3 methylation and recruitment of silencing factors and cohesin to an ectopic site. Curr. Biol. 12, 1652–1660 (2002).
(
10.1016/S0960-9822(02)01177-6
) / Curr. Biol. by JF Partridge (2002) -
Steiner, N.C., Hahnenberger, K.M. & Clarke, L. Centromeres of the fission yeast Schizosaccharomyces pombe are highly variable genetic loci. Mol. Cell. Biol. 13, 4578–4587 (1993).
(
10.1128/MCB.13.8.4578
) / Mol. Cell. Biol. by NC Steiner (1993) -
Clarke, L., Amstutz, H., Fishel, B. & Carbon, J. Analysis of centromeric DNA in the fission yeast Schizosaccharomyces pombe. Proc. Natl. Acad. Sci. USA 83, 8253–8257 (1986).
(
10.1073/pnas.83.21.8253
) / Proc. Natl. Acad. Sci. USA by L Clarke (1986) -
Nakaseko, Y., Kinoshita, N. & Yanagida, M. A novel sequence common to the centromere regions of Schizosaccharomyces pombe chromosomes. Nucleic Acids Res. 15, 4705–4715 (1987).
(
10.1093/nar/15.12.4705
) / Nucleic Acids Res. by Y Nakaseko (1987) -
Nakaseko, Y., Adachi, Y., Funahashi, S., Niwa, O. & Yanagida, M. Chromosome walking shows a highly homologous repetitive sequence present in all the centromere regions of fission yeast. EMBO J. 5, 1011–1021 (1986).
(
10.1002/j.1460-2075.1986.tb04316.x
) / EMBO J. by Y Nakaseko (1986) -
Motamedi, M.R. et al. Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell 119, 789–802 (2004).
(
10.1016/j.cell.2004.11.034
) / Cell by MR Motamedi (2004) -
Lindsey-Boltz, L.A. & Sancar, A. RNA polymerase: the most specific damage recognition protein in cellular responses to DNA damage? Proc. Natl. Acad. Sci. USA 104, 13213–13214 (2007).
(
10.1073/pnas.0706316104
) / Proc. Natl. Acad. Sci. USA by LA Lindsey-Boltz (2007) -
Cam, H.P. et al. Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome. Nat. Genet. 37, 809–819 (2005).
(
10.1038/ng1602
) / Nat. Genet. by HP Cam (2005) -
Verdel, A. et al. RNAi-mediated targeting of heterochromatin by the RITS complex. Science 303, 672–676 (2004).
(
10.1126/science.1093686
) / Science by A Verdel (2004) -
Reinhart, B.J. & Bartel, D.P. Small RNAs correspond to centromere heterochromatic repeats. Science 297, 1831 (2002).
(
10.1126/science.1077183
) / Science by BJ Reinhart (2002) -
Kato, H. et al. RNA polymerase II is required for RNAi-dependent heterochromatin assembly. Science 309, 467–469 (2005).
(
10.1126/science.1114955
) / Science by H Kato (2005) -
Bolstad, B.M., Irizarry, R.A., Astrand, M. & Speed, T.P. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 19, 185–193 (2003).
(
10.1093/bioinformatics/19.2.185
) / Bioinformatics by BM Bolstad (2003)
Dates
Type | When |
---|---|
Created | 17 years, 1 month ago (July 20, 2008, 2:56 p.m.) |
Deposited | 2 years, 3 months ago (May 18, 2023, 4:45 p.m.) |
Indexed | 1 month ago (July 23, 2025, 8:33 a.m.) |
Issued | 17 years, 1 month ago (July 20, 2008) |
Published | 17 years, 1 month ago (July 20, 2008) |
Published Online | 17 years, 1 month ago (July 20, 2008) |
Published Print | 17 years ago (Aug. 1, 2008) |
@article{Dutrow_2008, title={Dynamic transcriptome of Schizosaccharomyces pombe shown by RNA-DNA hybrid mapping}, volume={40}, ISSN={1546-1718}, url={http://dx.doi.org/10.1038/ng.196}, DOI={10.1038/ng.196}, number={8}, journal={Nature Genetics}, publisher={Springer Science and Business Media LLC}, author={Dutrow, Natalie and Nix, David A and Holt, Derick and Milash, Brett and Dalley, Brian and Westbroek, Erick and Parnell, Timothy J and Cairns, Bradley R}, year={2008}, month=jul, pages={977–986} }