Access the full text.
Sign up today, get DeepDyve free for 14 days.
Loading next page...
/lp/springer-journals/overlapping-transcripts-double-stranded-rna-and-antisense-regulation-a-fQmjgjgjjv
References (210)
-
M. Bartolomei, S. Tilghman (1997)
Genomic imprinting in mammals.Annual review of genetics, 31
-
K. Militello, V. Patel, Anne-Danielle Chessler, J. Fisher, J. Kasper, A. Gunasekera, D. Wirth (2005)
RNA polymerase II synthesizes antisense RNA in Plasmodium falciparum.RNA, 11 4
-
F. Costa (2005)
Non-coding RNAs: new players in eukaryotic biology.Gene, 357 2
-
M. Moore (2005)
From Birth to Death: The Complex Lives of Eukaryotic mRNAsScience, 309
-
Jianjun Chen, Miao Sun, L. Hurst, G. Carmichael, J. Rowley (2005)
Human antisense genes have unusually short introns: evidence for selection for rapid transcription.Trends in genetics : TIG, 21 4
-
Thomas Volpe, C. Kidner, Ira Hall, G. Teng, S. Grewal, R. Martienssen (2002)
Regulation of Heterochromatic Silencing and Histone H3 Lysine-9 Methylation by RNAiScience, 297
-
Youdong Wang, K. Joh, S. Masuko, H. Yatsuki, H. Soejima, A. Nabetani, C. Beechey, S. Okinami, T. Mukai (2004)
The Mouse Murr1 Gene Is Imprinted in the Adult Brain, Presumably Due to Transcriptional Interference by the Antisense-Oriented U2af1-rs1 GeneMolecular and Cellular Biology, 24
-
S. Luikenhuis, A. Wutz, R. Jaenisch (2001)
Antisense Transcription through theXist Locus Mediates Tsix Function in Embryonic Stem CellsMolecular and Cellular Biology, 21
-
W. Wünsche, G. Sczakiel (2005)
The activity of siRNA in mammalian cells is related to the kinetics of siRNA-target recognition in vitro: mechanistic implications.Journal of molecular biology, 345 2
-
D. Kampa, Jill Cheng, P. Kapranov, M. Yamanaka, Shane Brubaker, S. Cawley, J. Drenkow, A. Piccolboni, S. Bekiranov, G. Helt, H. Tammana, T. Gingeras (2004)
Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.Genome research, 14 3
-
Shinwa Shibata, Jeannie Lee (2003)
Characterization and quantitation of differential Tsix transcripts: implications for Tsix function.Human molecular genetics, 12 2
-
Jill Cheng, P. Kapranov, J. Drenkow, S. Dike, Shane Brubaker, Sandeep Patel, J. Long, D. Stern, H. Tammana, G. Helt, V. Sementchenko, A. Piccolboni, S. Bekiranov, D. Bailey, M. Ganesh, Srinka Ghosh, I. Bell, D. Gerhard, T. Gingeras (2008)
Transcriptional Maps of 10 Human Chromosomes at -
Moshe Havilio, E. Levanon, Galia Lerman, M. Kupiec, E. Eisenberg (2005)
Evidence for abundant transcription of non-coding regions in the Saccharomyces cerevisiae genomeBMC Genomics, 6
-
J. Shapiro, R. Sternberg (2005)
Why repetitive DNA is essential to genome functionBiological Reviews, 80
-
C. Tufarelli, J. Stanley, D. Garrick, J. Sharpe, H. Ayyub, W. Wood, D. Higgs (2003)
Transcription of antisense RNA leading to gene silencing and methylation as a novel cause of human genetic diseaseNature Genetics, 34
-
V. Veeramachaneni, W. Makałowski, M. Galdzicki, R. Sood, I. Makałowska (2004)
Mammalian overlapping genes: the comparative perspective.Genome research, 14 2
-
Y. Ogawa, J. Lee (2003)
Antisense regulation in X inactivation and autosomal imprintingCytogenetic and Genome Research, 99
-
Preben Olsen, V. Ambros (1999)
The lin-4 regulatory RNA controls developmental timing in Caenorhabditis elegans by blocking LIN-14 protein synthesis after the initiation of translation.Developmental biology, 216 2
-
G. Carmichael (2003)
Antisense starts making more senseNature Biotechnology, 21
-
P. Navarro, Sylvain Pichard, C. Ciaudo, P. Avner, C. Rougeulle (2005)
Tsix transcription across the Xist gene alters chromatin conformation without affecting Xist transcription: implications for X-chromosome inactivation.Genes & development, 19 12
-
S. Cawley, S. Bekiranov, H. Ng, P. Kapranov, E. Sekinger, D. Kampa, A. Piccolboni, V. Sementchenko, Jill Cheng, A. Williams, R. Wheeler, Brant Wong, J. Drenkow, M. Yamanaka, Sandeep Patel, Shane Brubaker, H. Tammana, G. Helt, K. Struhl, T. Gingeras (2004)
Unbiased Mapping of Transcription Factor Binding Sites along Human Chromosomes 21 and 22 Points to Widespread Regulation of Noncoding RNAsCell, 116
-
T. Sado, Zhenjuan Wang, Hiroyuki Sasaki, En Li (2001)
Regulation of imprinted X-chromosome inactivation in mice by Tsix.Development, 128 8
-
Rosalind Lee, V. Ambros (2001)
An Extensive Class of Small RNAs in Caenorhabditis elegansScience, 294
-
J. Chow, Ziny Yen, Sonia Ziesche, Carolyn Brown (2005)
Silencing of the mammalian X chromosome.Annual review of genomics and human genetics, 6
-
Rosalind Lee, Rhonda Feinbaum, V. Ambros (1993)
The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14Cell, 75
-
J. Claverie (2005)
Fewer Genes, More Noncoding RNAScience, 309
-
Marianne Hammarsund, Mikael Lerner, Chaoyong Zhu, M. Merup, M. Jansson, G. Gahrton, H. Kluin-Nelemans, S. Einhorn, D. Grandér, O. Sangfelt, M. Corcoran (2004)
Disruption of a novel ectodermal neural cortex 1 antisense gene, ENC-1AS and identification of ENC-1 overexpression in hairy cell leukemia.Human molecular genetics, 13 23
-
T. Fukagawa, M. Nogami, Mitsuko Yoshikawa, M. Ikeno, T. Okazaki, Y. Takami, T. Nakayama, M. Oshimura (2004)
Dicer is essential for formation of the heterochromatin structure in vertebrate cellsNature Cell Biology, 6
-
N. Stavropoulos, Nai-sheng Lu, Jeannie Lee (2001)
A functional role for Tsix transcription in blocking Xist RNA accumulation but not in X-chromosome choiceProceedings of the National Academy of Sciences of the United States of America, 98
-
S. Crosthwaite (2004)
Circadian clocks and natural antisense RNAFEBS Letters, 567
-
S. Crooke (2000)
Progress in antisense technology: the end of the beginning.Methods in enzymology, 313
-
S. Hirotsune, Noriyuki Yoshida, Amy Chen, L. Garrett, F. Sugiyama, Satoru Takahashi, K. Yagami, A. Wynshaw-Boris, A. Yoshiki (2003)
An expressed pseudogene regulates the messenger-RNA stability of its homologous coding geneNature, 423
-
A. Nepveu, K. Marcu (1986)
Intragenic pausing and anti‐sense transcription within the murine c‐myc locus.The EMBO Journal, 5
-
K. Wassarman (2004)
RNA regulators of transcriptionNature Structural &Molecular Biology, 11
-
M. Lagos‐Quintana, R. Rauhut, Winfried Lendeckel, T. Tuschl (2001)
Identification of Novel Genes Coding for Small Expressed RNAsScience, 294
-
J. Shendure, G. Church (2002)
Computational discovery of sense-antisense transcription in the human and mouse genomesGenome Biology, 3
-
Y. Tsao, Hai-Young Wu, Leroy Liu (1989)
Transcription-driven supercoiling of DNA: Direct biochemical evidence from in vitro studiesCell, 56
-
H. Elmendorf, Steven Singer, Theodore Nash (2001)
The abundance of sterile transcripts in Giardia lamblia.Nucleic acids research, 29 22
-
Jill Cheng, P. Kapranov, J. Drenkow, S. Dike, Shane Brubaker, Sandeep Patel, J. Long, D. Stern, H. Tammana, G. Helt, V. Sementchenko, A. Piccolboni, S. Bekiranov, D. Bailey, M. Ganesh, Srinka Ghosh, I. Bell, D. Gerhard, T. Gingeras (2005)
Transcriptional Maps of 10 Human Chromosomes at 5-Nucleotide ResolutionScience, 308
-
H. Okano, J. Aruga, T. Nakagawa, Chiyo Shiota, K. Mikoshiba (1991)
Myelin Basic Protein Gene and the Function of Antisense RNA in Its Repression in Myelin‐Deficient Mutant MouseJournal of Neurochemistry, 56
-
H. Kiyosawa, N. Mise, S. Iwase, Y. Hayashizaki, K. Abe (2005)
Disclosing hidden transcripts: mouse natural sense-antisense transcripts tend to be poly(A) negative and nuclear localized.Genome research, 15 4
-
A. Kornblihtt, M. Mata, J. Fededa, M. Muñoz, G. Nogués (2004)
Multiple links between transcription and splicing.RNA, 10 10
-
M. Wickens, K. Takayama (1994)
Deviants — or emissariesNature, 367
-
Cheng Lu, Shivakundan Tej, Shujun Luo, C. Haudenschild, B. Meyers, P. Green (2005)
Elucidation of the Small RNA Component of the TranscriptomeScience, 309
-
T. Itoh, J. Tomizawa (1980)
Formation of an RNA primer for initiation of replication of ColE1 DNA by ribonuclease H.Proceedings of the National Academy of Sciences of the United States of America, 77 5
-
I. Santisteban, F. Arredondo-Vega, S. Kelly, M. Loubser, N. Meydan, C. Roifman, P. Howell, T. Bowen, K. Weinberg, M. Schroeder (1995)
Three new adenosine deaminase mutations that define a splicing enhancer and cause severe and partial phenotypes: implications for evolution of a CpG hotspot and expression of a transduced ADA cDNA.Human molecular genetics, 4 11
-
G. Hutvagner, P. Zamore (2002)
A microRNA in a Multiple-Turnover RNAi Enzyme ComplexScience, 297
-
J. Mattick (2004)
RNA regulation: a new genetics?Nature Reviews Genetics, 5
-
Zuo Zhang, G. Carmichael (2001)
The Fate of dsRNA in the Nucleus A p54nrb-Containing Complex Mediates the Nuclear Retention of Promiscuously A-to-I Edited RNAsCell, 106
-
B. Williams (1999)
PKR; a sentinel kinase for cellular stressOncogene, 18
-
F. Pauler, S. Stricker, Katarzyna Warczok, D. Barlow (2005)
Long-range DNase I hypersensitivity mapping reveals the imprinted Igf2r and Air promoters share cis-regulatory elements.Genome research, 15 10
-
E. Reis, Rodrigo Louro, H. Nakaya, S. Verjovski-Almeida (2005)
As antisense RNA gets intronic.Omics : a journal of integrative biology, 9 1
-
M. Tošić, Arthur Roach, Jean-Christophe Rivaz, Michel Dolivo, Jean-Marie Matthieu (1990)
Post‐transcriptional events are responsible for low expression of myelin basic protein in myelin deficient mice: role of natural antisense RNA.The EMBO Journal, 9
-
G. Alfano, C. Vitiello, C. Caccioppoli, Tiziana Caramico, A. Carola, M. Szego, R. Mcinnes, A. Auricchio, S. Banfi (2005)
Natural antisense transcripts associated with genes involved in eye development.Human molecular genetics, 14 7
-
The Team (2002)
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAsNature, 420
-
S. Grewal, D. Moazed (2003)
Heterochromatin and Epigenetic Control of Gene ExpressionScience, 301
-
Martina Paulsen, Shuji Takada, Neil Youngson, Mehdi Benchaib, C. Charlier, Karin Segers, Michel Georges, A. Ferguson-Smith (2001)
Comparative sequence analysis of the imprinted Dlk1-Gtl2 locus in three mammalian species reveals highly conserved genomic elements and refines comparison with the Igf2-H19 region.Genome research, 11 12
-
S. Korneev, Ji-Ho Park, M. O’Shea (1999)
Neuronal Expression of Neural Nitric Oxide Synthase (nNOS) Protein Is Suppressed by an Antisense RNA Transcribed from an NOS PseudogeneThe Journal of Neuroscience, 19
-
S. Wang, B. Dolnick (1993)
Quantitative evaluation of intracellular sense: antisense RNA hybrid duplexes.Nucleic acids research, 21 18
-
Shinwa Shibata, Jeannie Lee (2004)
Tsix Transcription- versus RNA-Based Mechanisms in Xist Repression and Epigenetic ChoiceCurrent Biology, 14
-
G. Krystal, Barbara Armstrong, J. Battey (1990)
N-myc mRNA forms an RNA-RNA duplex with endogenous antisense transcriptsMolecular and Cellular Biology, 10
-
L. Lipovich, M. King (2003)
Novel transcriptional units and unconventional gene pairs in the human genome: toward a sequence-level basis for primate-specific phenotypes?Cold Spring Harbor symposia on quantitative biology, 68
-
Qingde Wang, M. Miyakoda, Weidong. Yang, J. Khillan, D. Stachura, M. Weiss, K. Nishikura (2004)
Stress-induced Apoptosis Associated with Null Mutation of ADAR1 RNA Editing Deaminase Gene*Journal of Biological Chemistry, 279
-
Noopur Thakur, V. Tiwari, H. Thomassin, R. Pandey, M. Kanduri, A. Göndör, T. Grange, R. Ohlsson, C. Kanduri (2004)
An Antisense RNA Regulates the Bidirectional Silencing Property of the Kcnq1 Imprinting Control RegionMolecular and Cellular Biology, 24
-
Erica Davis, C. Jensen, H. Schrøder, F. Farnir, Tracy Shay-Hadfield, A. Kliem, N. Cockett, M. Georges, C. Charlier (2004)
Ectopic Expression of DLK1 Protein in Skeletal Muscle of Padumnal Heterozygotes Causes the Callipyge PhenotypeCurrent Biology, 14
-
S. Impey, S. McCorkle, H. Cha-Molstad, J. Dwyer, G. Yochum, J. Boss, S. McWeeney, J. Dunn, G. Mandel, R. Goodman (2004)
Defining the CREB Regulon A Genome-Wide Analysis of Transcription Factor Regulatory RegionsCell, 119
-
Frank Sleutels, Ronald Zwart, Denise Barlow (2002)
The non-coding Air RNA is required for silencing autosomal imprinted genesNature, 415
-
J. Kawai, A. Shinagawa, K. Shibata, M. Yoshino, M. Itoh, Y. Ishii, T. Arakawa, A. Hara, Y. Fukunishi, H. Konno, J. Adachi, S. Fukuda, K. Aizawa, M. Izawa, K. Nishi, H. Kiyosawa, S. Kondo, I. Yamanaka, T. Saito, Y. Okazaki, T. Gojobori, H. Bono, T. Kasukawa, R. Saito, K. Kadota, H. Matsuda, M. Ashburner, S. Batalov, T. Casavant, W. Fleischmann, T. Gaasterland, C. Gissi, B. King, H. Kochiwa, P. Kuehl, S. Lewis, Y. Matsuo, I. Nikaido, G. Pesole, John Quackenbush, L. Schriml, F. Staubli, R. Suzuki, M. Tomita, L. Wagner, T. Washio, K. Sakai, T. Okido, M. Furuno, H. Aono, R. Baldarelli, G. Barsh, J. Blake, D. Boffelli, N. Bojunga, Piero Carninci, M. Bonaldo, M. Brownstein, C. Bult, C. Fletcher, M. Fujita, M. Gariboldi, S. Gustincich, D. Hill, M. Hofmann, D. Hume, M. Kamiya, N. Lee, P. Lyons, L. Marchionni, J. Mashima, J. Mazzarelli, P. Mombaerts, P. Nordone, B. Ring, M. Ringwald, I. Rodriguez, N. Sakamoto, H. Sasaki, K. Sato, C. Schönbach, T. Seya, Y. Shibata, Kai-Florian Storch, H. Suzuki, K. Toyo-oka, K. Wang, C. Weitz, C. Whittaker, L. Wilming, A. Wynshaw-Boris, K. Yoshida, Y. Hasegawa, H. Kawaji, S. Kohtsuki, Y. Hayashizaki (2001)
Functional annotation of a full-length mouse cDNA collectionNature, 409
-
Carol Sledz, B. Williams (2004)
RNA interference and double-stranded-RNA-activated pathways.Biochemical Society transactions, 32 Pt 6
-
D. Mccormick (1986)
Sequence the Human GenomeBio/Technology, 4
-
O. Røsok, M. Sioud (2005)
Systematic search for natural antisense transcripts in eukaryotes (review).International journal of molecular medicine, 15 2
-
G. Hutvagner, Juanita Mclachlan, A. Pasquinelli, E. Balint, T. Tuschl, P. Zamore (2001)
A Cellular Function for the RNA-Interference Enzyme Dicer in the Maturation of the let-7 Small Temporal RNAScience, 293
-
Ricardo Almeida, R. Allshire (2005)
RNA silencing and genome regulation.Trends in cell biology, 15 5
-
D. Humphreys, B. Westman, David Martin, T. Preiss (2005)
MicroRNAs control translation initiation by inhibiting eukaryotic initiation factor 4E/cap and poly(A) tail function.Proceedings of the National Academy of Sciences of the United States of America, 102 47
-
Sanggyu Lee, J. Bao, Guolin Zhou, J. Shapiro, Jinhua Xu, R. Shi, Xuemei Lu, T. Clark, Deborah Johnson, Yeong Kim, C. Wing, C. Tseng, Mingfei Sun, Wei Lin, Jun Wang, Huanming Yang, J. Wang, W. Du, Chung-I Wu, Xiuqing Zhang, S. Wang (2005)
Detecting novel low-abundant transcripts in Drosophila.RNA, 11 6
-
S. Maas, A. Rich, K. Nishikura (2003)
A-to-I RNA Editing: Recent News and Residual Mysteries*The Journal of Biological Chemistry, 278
-
M. Rhoades, B. Reinhart, Lee Lim, C. Burge, B. Bartel, D. Bartel (2002)
Prediction of Plant MicroRNA TargetsCell, 110
-
Ben Lehner, Gary Williams, R.Duncan Campbell, Christopher Sanderson (2002)
Antisense transcripts in the human genome.Trends in genetics : TIG, 18 2
-
E. Bernstein, C. Allis (2005)
RNA meets chromatin.Genes & development, 19 14
-
R. Verona, M. Bartolomei (2004)
Role of H19 3' sequences in controlling H19 and Igf2 imprinting and expression.Genomics, 84 1
-
Anuj Kumar, P. Harrison, K. Cheung, N. Lan, N. Echols, Paul Bertone, P. Miller, M. Gerstein, M. Snyder (2002)
An integrated approach for finding overlooked genes in yeastNature Biotechnology, 20
-
R. Yelin, Dvir Dahary, R. Sorek, E. Levanon, Orly Goldstein, Avi Shoshan, Alex Diber, S. Biton, Yael Tamir, R. Khosravi, S. Nemzer, E. Pinner, Shira Walach, Jeanne Bernstein, K. Savitsky, G. Rotman (2003)
Widespread occurrence of antisense transcription in the human genomeNature Biotechnology, 21
-
M. Lercher, Araxi Urrutia, L. Hurst (2002)
Clustering of housekeeping genes provides a unified model of gene order in the human genomeNature Genetics, 31
-
Alexandre Teixeira, A. Tahiri‐Alaoui, Steven West, B. Thomas, A. Ramadass, Igor Martianov, M. Dye, W. James, N. Proudfoot, A. Akoulitchev (2004)
Autocatalytic RNA cleavage in the human β-globin pre-mRNA promotes transcription terminationNature, 432
-
S. Katayama, Y. Tomaru, T. Kasukawa, K. Waki, M. Nakanishi, M. Nakamura, H. Nishida, C. Yap, M. Suzuki, J. Kawai, H. Suzuki, Piero Carninci, Y. Hayashizaki, C. Wells, M. Frith, T. Ravasi, K. Pang, J. Hallinan, J. Mattick, D. Hume, L. Lipovich, S. Batalov, P. Engström, Y. Mizuno, M. Faghihi, A. Sandelin, A. Chalk, S. Mottagui‐Tabar, Z. Liang, B. Lenhard, C. Wahlestedt (2005)
Antisense Transcription in the Mammalian TranscriptomeScience, 309
-
A. Aguilera (2005)
Cotranscriptional mRNP assembly: from the DNA to the nuclear pore.Current opinion in cell biology, 17 3
-
Jason Johnson, Steve Edwards, D. Shoemaker, E. Schadt (2005)
Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments.Trends in genetics : TIG, 21 2
-
A. Wutz, T. Rasmussen, R. Jaenisch (2002)
Chromosomal silencing and localization are mediated by different domains of Xist RNANature Genetics, 30
-
K. Pang, M. Frith, J. Mattick (2006)
Rapid evolution of noncoding RNAs: lack of conservation does not mean lack of function.Trends in genetics : TIG, 22 1
-
Olivier Cordin, J. Banroques, N. Tanner, P. Linder (2006)
The DEAD-box protein family of RNA helicases.Gene, 367
-
Miao Sun, L. Hurst, G. Carmichael, Jianjun Chen (2005)
Evidence for a preferential targeting of 3′-UTRs by cis-encoded natural antisense transcriptsNucleic Acids Research, 33
-
International Consortium (2001)
Initial sequencing and analysis of the human genomeNature, 409
-
E. Levanon, E. Eisenberg, R. Yelin, S. Nemzer, Martina Hallegger, R. Shemesh, Zipora Fligelman, Avi Shoshan, S. Pollock, Dan Sztybel, M. Olshansky, G. Rechavi, M. Jantsch (2004)
Systematic identification of abundant A-to-I editing sites in the human transcriptomeNature Biotechnology, 22
-
P. Spellman, G. Rubin (2002)
Evidence for large domains of similarly expressed genes in the Drosophila genomeJournal of Biology, 1
-
H. Caron, B. Schaik, M. Mee, F. Baas, G. Riggins, P. Sluis, M. Hermus, R. Asperen, K. Boon, P. Voute, S. Heisterkamp, A. Kampen, R. Versteeg (2001)
The Human Transcriptome Map: Clustering of Highly Expressed Genes in Chromosomal DomainsScience, 291
-
S. Khochbin, M. Brocard, D. Grunwald, J. Lawrence (1992)
Antisense RNA and p53 Regulation in Induced Murine Cell DifferentiationAnnals of the New York Academy of Sciences, 660
-
M. Smit, K. Segers, L. Carrascosa, T. Shay, F. Baraldi, G. Gyapay, G. Snowder, M. Georges, N. Cockett, C. Charlier (2003)
Mosaicism of Solid Gold supports the causality of a noncoding A-to-G transition in the determinism of the callipyge phenotype.Genetics, 163 1
-
A. Pasquinelli, Shaun Hunter, J. Bracht (2005)
MicroRNAs: a developing story.Current opinion in genetics & development, 15 2
-
Paul Bertone, V. Štolc, Thomas Royce, J. Rozowsky, A. Urban, Xiaowei Zhu, J. Rinn, W. Tongprasit, M. Samanta, S. Weissman, M. Gerstein, M. Snyder (2004)
Global Identification of Human Transcribed Sequences with Genome Tiling ArraysScience, 306
-
J. Nemes, K. Benzow, M. Moseley, L. Ranum, M. Koob (2000)
The SCA8 transcript is an antisense RNA to a brain-specific transcript encoding a novel actin-binding protein (KLHL1).Human molecular genetics, 9 10
-
M. Bastepe, L. Fröhlich, A. Linglart, H. Abuzahra, K. Tojo, L. Ward, H. Jüppner (2005)
Deletion of the NESP55 differentially methylated region causes loss of maternal GNAS imprints and pseudohypoparathyroidism type IbNature Genetics, 37
-
L. Valente, K. Nishikura (2005)
ADAR gene family and A-to-I RNA editing: diverse roles in posttranscriptional gene regulation.Progress in nucleic acid research and molecular biology, 79
-
Alan Herbert (2003)
The four Rs of RNA-directed evolutionNature Genetics, 36
-
L. Aravind, Hidemi Watanabe, D. Lipman, E. Koonin (2000)
Lineage-specific loss and divergence of functionally linked genes in eukaryotes.Proceedings of the National Academy of Sciences of the United States of America, 97 21
-
S. Eddy (2001)
Non–coding RNA genes and the modern RNA worldNature Reviews Genetics, 2
-
B. Wightman, I. Ha, G. Ruvkun (1993)
Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegansCell, 75
-
H. Kiyosawa, I. Yamanaka, N. Osato, S. Kondo, Y. Hayashizaki (2003)
Antisense transcripts with FANTOM2 clone set and their implications for gene regulation.Genome research, 13 6B
-
D. Herschlag (1995)
RNA Chaperones and the RNA Folding Problem (*)The Journal of Biological Chemistry, 270
-
E. Sontheimer (2005)
Assembly and function of RNA silencing complexesNature Reviews Molecular Cell Biology, 6
-
G. Lavorgna, Dvir Dahary, Ben Lehner, R. Sorek, C. Sanderson, G. Casari (2004)
In search of antisense.Trends in biochemical sciences, 29 2
-
Erica Davis, F. Caiment, X. Tordoir, J. Cavaille, A. Ferguson-Smith, N. Cockett, M. Georges, C. Charlier (2005)
RNAi-Mediated Allelic trans-Interaction at the Imprinted Rtl1/Peg11 LocusCurrent Biology, 15
-
P. Zamore (2002)
Ancient Pathways Programmed by Small RNAsScience, 296
-
A. Li, P. Murphy (2000)
Expression of alternatively spliced FGF-2 antisense RNA transcripts in the central nervous system: regulation of FGF-2 mRNA translationMolecular and Cellular Endocrinology, 162
-
Yossef Neeman, Dvir Dahary, E. Levanon, R. Sorek, E. Eisenberg (2005)
Is there any sense in antisense editing?Trends in genetics : TIG, 21 10
-
L. Lipovich, Ravi Vanisri, S. Kong, Chin-Yo Lin, E. Liu (2005)
Primate-Specific Endogenous Cis-Antisense Transcription in the Human 5q31 Protocadherin Gene ClusterJournal of Molecular Evolution, 62
-
G. Cristofari, J. Darlix (2002)
The ubiquitous nature of RNA chaperone proteins.Progress in nucleic acid research and molecular biology, 72
-
I. Morison, J. Ramsay, H. Spencer (2005)
A census of mammalian imprinting.Trends in genetics : TIG, 21 8
-
I. Makałowska, Chiao-Feng Lin, W. Makałowski (2005)
Overlapping genes in vertebrate genomesComputational biology and chemistry, 29 1
-
Mitchell Lazar, R. Hodin, G. Cardona, W. Chin (1990)
Gene expression from the c-erbA alpha/Rev-ErbA alpha genomic locus. Potential regulation of alternative splicing by opposite strand transcription.The Journal of biological chemistry, 265 22
-
R. Lacatena, G. Cesareni (1981)
Base pairing of RNA I with its complementary sequence in the primer precursor inhibits ColE1 replicationNature, 294
-
Jeannie Lee, Naifang Lu (1999)
Targeted Mutagenesis of Tsix Leads to Nonrandom X InactivationCell, 99
-
N. Lau, Lee Lim, E. Weinstein, D. Bartel (2001)
An Abundant Class of Tiny RNAs with Probable Regulatory Roles in Caenorhabditis elegansScience, 294
-
Mihaela Ștefan, T. Portis, R. Longnecker, R. Nicholls (2005)
A nonimprinted Prader-Willi Syndrome (PWS)-region gene regulates a different chromosomal domain in trans but the imprinted pws loci do not alter genome-wide mRNA levels.Genomics, 85 5
-
J. Beggs, D. Tollervey (2005)
Crosstalk between RNA metabolic pathways: an RNOMICS approachNature Reviews Molecular Cell Biology, 6
-
Jidong Liu, M. Carmell, M. Carmell, Fabiola Rivas, C. Marsden, J. Thomson, Ji-Joon Song, S. Hammond, L. Joshua-Tor, G. Hannon (2004)
Argonaute2 Is the Catalytic Engine of Mammalian RNAiScience, 305
-
A. Pasquinelli, B. Reinhart, F. Slack, M. Martindale, M. Kuroda, Betsy Maller, D. Hayward, E. Ball, B. Degnan, P. Müller, J. Spring, Ashok Srinivasan, M. Fishman, J. Finnerty, J. Corbo, M. Levine, P. Leahy, E. Davidson, G. Ruvkun (2000)
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNANature, 408
-
S. Munroe, X. Dong (1992)
Heterogeneous nuclear ribonucleoprotein A1 catalyzes RNA.RNA annealing.Proceedings of the National Academy of Sciences of the United States of America, 89
-
P. Kapranov, S. Cawley, J. Drenkow, S. Bekiranov, R. Strausberg, S. Fodor, T. Gingeras (2002)
Large-Scale Transcriptional Activity in Chromosomes 21 and 22Science, 296
-
Marie Fahey, Thomas Moore, Desmond Higgins (2002)
Overlapping Antisense Transcription in the Human GenomeComparative and Functional Genomics, 3
-
A. Gunasekera, S. Patankar, J. Schug, G. Eisen, J. Kissinger, D. Roos, D. Wirth (2004)
Widespread distribution of antisense transcripts in the Plasmodium falciparum genome.Molecular and biochemical parasitology, 136 1
-
M. O’Neill (2005)
The influence of non-coding RNAs on allele-specific gene expression in mammals.Human molecular genetics, 14 Spec No 1
-
R. Pillai, S. Bhattacharyya, C. Artus, Tabea Zoller, Nicolas Cougot, E. Basyuk, E. Bertrand, W. Filipowicz (2005)
Inhibition of Translational Initiation by Let-7 MicroRNA in Human CellsScience, 309
-
Qiaoqiao Wang, Zuo Zhang, K. Blackwell, G. Carmichael (2005)
Vigilins Bind to Promiscuously A-to-I-Edited RNAs and Are Involved in the Formation of HeterochromatinCurrent Biology, 15
-
C. Kidner, R. Martienssen (2005)
The developmental role of microRNA in plants.Current opinion in plant biology, 8 1
-
W. Spiegelman, L. Reichardt, M. Yaniv, S. Heinemann, A. Kaiser, H. Eisen (1972)
Bidirectional Transcription and the Regulation of Phage λ Repressor SynthesisProceedings of the National Academy of Sciences of the United States of America, 69
-
G. Storz, S. Altuvia, K. Wassarman (2005)
An abundance of RNA regulators.Annual review of biochemistry, 74
-
E. Murchison, G. Hannon (2004)
miRNAs on the move: miRNA biogenesis and the RNAi machinery.Current opinion in cell biology, 16 3
-
Xiu-Jie Wang, T. Gaasterland, N. Chua (2005)
Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thalianaGenome Biology, 6
-
Weidong. Yang, T. Chendrimada, Qingde Wang, M. Higuchi, P. Seeburg, R. Shiekhattar, K. Nishikura (2006)
Modulation of microRNA processing and expression through RNA editing by ADAR deaminasesNature Structural &Molecular Biology, 13
-
P. Zamore, T. Tuschl, P. Sharp, D. Bartel (2000)
RNAi Double-Stranded RNA Directs the ATP-Dependent Cleavage of mRNA at 21 to 23 Nucleotide IntervalsCell, 101
-
Jianjun Chen, Miao Sun, W. Kent, Xiaoqiu Huang, Hanqing Xie, Wenquan Wang, Guolin Zhou, R. Shi, J. Rowley (2004)
Over 20% of human transcripts might form sense-antisense pairs.Nucleic acids research, 32 16
-
Stefan Washietl, I. Hofacker, Melanie Lukasser, A. Hüttenhofer, P. Stadler (2005)
Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genomeNature Biotechnology, 23
-
E. Sontheimer, R. Carthew (2005)
Silence from within: Endogenous siRNAs and miRNAsCell, 122
-
Joshua DeCerbo, G. Carmichael (2005)
Retention and repression: fates of hyperedited RNAs in the nucleus.Current opinion in cell biology, 17 3
-
C. Vanhée-Brossollet, C. Vaquero (1998)
Do natural antisense transcripts make sense in eukaryotes?Gene, 211 1
-
Kayoko Yamada, Jun-Man Lim, Joseph Dale, Huaming Chen, P. Shinn, C. Palm, Audrey Southwick, Hank Wu, Christopher Kim, M. Nguyen, Paul Pham, Rosa Cheuk, George Karlin-Newmann, Shirley Liu, Bao Lam, H. Sakano, Troy Wu, Guixia Yu, Molly Miranda, H. Quach, M. Tripp, Charlie Chang, J. Lee, Mitsue Toriumi, Marie Chan, C. Tang, C. Onodera, Justine Deng, Kenji Akiyama, Yasser Ansari, T. Arakawa, Jenny Banh, Fumika Banno, Leah Bowser, Shelise Brooks, Piero Carninci, Qimin Chao, Nathan Choy, A. Enju, A. Goldsmith, M. Gurjal, Nancy Hansen, Y. Hayashizaki, Chanda Johnson-Hopson, Vickie Hsuan, K. Iida, Meagan Karnes, Shehnaz Khan, Eric Koesema, Junko Ishida, P. Jiang, Ted Jones, J. Kawai, Asako Kamiya, Cristina Meyers, Maiko Nakajima, M. Narusaka, M. Seki, Tetsuya Sakurai, Masakazu Satou, R. Tamse, M. Vaysberg, Erika Wallender, Cecilia Wong, Y. Yamamura, Shiaulou Yuan, K. Shinozaki, Ronald Davis, A. Theologis, J. Ecker (2003)
Empirical Analysis of Transcriptional Activity in the Arabidopsis GenomeScience, 302
-
P. Celano, C. Berchtold, D. Kizer, A. Weeraratna, B. Nelkin, S. Baylin, R. Casero (1992)
Characterization of an endogenous RNA transcript with homology to the antisense strand of the human c-myc gene.The Journal of biological chemistry, 267 21
-
L. Chakalova, E. Debrand, Jennifer Mitchell, Cameron Osborne, P. Fraser (2005)
Replication and transcription: Shaping the landscape of the genomeNature Reviews Genetics, 6
-
G. Wong, D. Passey, J. Yu (2001)
Most of the human genome is transcribed.Genome research, 11 12
-
Patrice Vitali, E. Basyuk, E. Meur, E. Bertrand, F. Muscatelli, J. Cavaille, A. Huttenhofer (2005)
ADAR2-mediated editing of RNA substrates in the nucleolus is inhibited by C/D small nucleolar RNAsThe Journal of Cell Biology, 169
-
E. Gerhart, H. Wagner, R. Simons (1994)
Antisense RNA control in bacteria, phages, and plasmids.Annual review of microbiology, 48
-
Qing Jing, Shuang Huang, S. Guth, Tyler Zarubin, A. Motoyama, Jianming Chen, F. Padova, Sheng-Cai Lin, H. Gram, Jiahuai Han (2005)
Involvement of MicroRNA in AU-Rich Element-Mediated mRNA InstabilityCell, 120
-
Madhur Kumar, G. Carmichael (1997)
Nuclear antisense RNA induces extensive adenosine modifications and nuclear retention of target transcripts.Proceedings of the National Academy of Sciences of the United States of America, 94 8
-
S. Rocak, P. Linder (2004)
DEAD-box proteins: the driving forces behind RNA metabolismNature Reviews Molecular Cell Biology, 5
-
J. Bonfield, J. Galagan (2004)
Finishing the euchromatic sequence of the human genomeNature, 431
-
P. Sharp (1999)
RNAi and double-strand RNA.Genes & development, 13 2
-
S. Heywood (1986)
tcRNA as a naturally occurring antisense RNA in eukaryotes.Nucleic acids research, 14 16
-
S. Tommasi, G. Pfeifer (1999)
In Vivo Structure of Two Divergent Promoters at the Human PCNA LocusThe Journal of Biological Chemistry, 274
-
Madhur Kumar, G. Carmichael (1998)
Antisense RNA: Function and Fate of Duplex RNA in Cells of Higher EukaryotesMicrobiology and Molecular Biology Reviews, 62
-
M. Saceda, C. Knabbe, R. Dickson, M. Lippman, D. Bronzert, R. Lindsey, M. Gottardis, M. Martin (1991)
Post-transcriptional destabilization of estrogen receptor mRNA in MCF-7 cells by 12-O-tetradecanoylphorbol-13-acetate.The Journal of biological chemistry, 266 27
-
G. Soldà, S. Boi, S. Duga, D. Fornasari, R. Benfante, M. Malcovati, M. Tenchini (2005)
In vivo RNA-RNA duplexes from human alpha3 and alpha5 nicotinic receptor subunit mRNAs.Gene, 345 2
-
P. Kapranov, J. Drenkow, Jill Cheng, J. Long, G. Helt, S. Dike, T. Gingeras (2005)
Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays.Genome research, 15 7
-
O. Borsani, Jianhua Zhu, P. Verslues, R. Sunkar, Jian‐Kang Zhu (2005)
Endogenous siRNAs Derived from a Pair of Natural cis-Antisense Transcripts Regulate Salt Tolerance in ArabidopsisCell, 123
-
Galina Fitzpatrick, P. Soloway, M. Higgins (2002)
Regional loss of imprinting and growth deficiency in mice with a targeted deletion of KvDMR1Nature Genetics, 32
-
Timothy Ravasi, Harukazu Suzuki, Ken Pang, Shintaro Katayama, Masaaki Furuno, Rie Okunishi, S. Fukuda, Kelin Ru, M. Frith, Milena Gongora, Sean Grimmond, David Hume, Y. Hayashizaki, J. Mattick (2005)
Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome.Genome research, 16 1
-
Dvir Dahary, O. Elroy-Stein, R. Sorek (2005)
Naturally occurring antisense: transcriptional leakage or real overlap?Genome research, 15 3
-
M. Carmell, Zhenyu Xuan, Michael Zhang, G. Hannon (2002)
The Argonaute family: tentacles that reach into RNAi, developmental control, stem cell maintenance, and tumorigenesis.Genes & development, 16 21
-
Jianjun Chen, Miao Sun, J. Rowley, L. Hurst (2005)
The Small Introns of Antisense Genes Are Better Explained by Selection for Rapid Transcription Than by “Genomic Design”Genetics, 171
-
N. Trinklein, S. Aldred, S. Hartman, D. Schroeder, Robert Otillar, R. Myers (2003)
An abundance of bidirectional promoters in the human genome.Genome research, 14 1
-
S. Capaccioli, A. Quattrone, N. Schiavone, A. Calastretti, E. Copreni, A. Bevilacqua, G. Canti, L. Gong, S. Morelli, A. Nicolin (1996)
A bcl-2/IgH antisense transcript deregulates bcl-2 gene expression in human follicular lymphoma t(14;18) cell lines.Oncogene, 13 1
-
J. Venter, M. Adams, E. Myers, Peter Li, R. Mural, G. Sutton, Hamilton Smith, M. Yandell, C. Evans, R. Holt, J. Gocayne, P. Amanatides, R. Ballew, D. Huson, J. Wortman, Qing Zhang, C. Kodira, Xiangqun Zheng, Lin Chen, M. Skupski, G. Subramanian, P. Thomas, Jinghui Zhang, George Miklos, C. Nelson, S. Broder, A. Clark, Joe Nadeau, V. McKusick, N. Zinder, A. Levine, R. Roberts, M. Simon, C. Slayman, M. Hunkapiller, Randall Bolanos, A. Delcher, I. Dew, D. Fasulo, M. Flanigan, L. Florea, A. Halpern, S. Hannenhalli, S. Kravitz, S. Levy, C. Mobarry, K. Reinert, K. Remington, J. Abu-Threideh, E. Beasley, Kendra Biddick, Vivien Bonazzi, R. Brandon, M. Cargill, Ishwar Chandramouliswaran, R. Charlab, Kabir Chaturvedi, Z. Deng, V. Francesco, P. Dunn, K. Eilbeck, C. Evangelista, A. Gabrielian, W. Gan, Wangmao Ge, F. Gong, Z. Gu, P. Guan, T. Heiman, Maureen Higgins, Rui-Ru Ji, Zhaoxi Ke, K. Ketchum, Z. Lai, Yi-Ting Lei, Zhenya Li, Jiayin Li, Yong Liang, Xiaoying Lin, Fu Lu, G. Merkulov, N. Milshina, Helen Moore, Ashwinikumar Naik, Vaibhav Narayan, Beena Neelam, D. Nusskern, D. Rusch, S. Salzberg, Wei Shao, B. Shue, Jingtao Sun, Zhen Wang, Aihui Wang, Xin Wang, Jian Wang, M. Wei, R. Wides, Chunlin Xiao, Chunhua Yan, Alison Yao, J. Ye, M. Zhan, Weiqing Zhang, Hongyu Zhang, Q. Zhao, Lian-rong Zheng, F. Zhong, W. Zhong, Shiaoping Zhu, Shaying Zhao, Dennis Gilbert, Suzanna Baumhueter, G. Spier, Christine Carter, A. Cravchik, T. Woodage, Feroze Ali, H. An, A. Awe, D. Baldwin, H. Baden, Mary Barnstead, I. Barrow, K. Beeson, D. Busam, Amy Carver, A. Center, Ming-Ming Cheng, Liz Curry, S. Danaher, L. Davenport, Raymond Desilets, S. Dietz, K. Dodson, L. Doup, S. Ferriera, Neha Garg, Andres Gluecksmann, Britney Hart, Jason Haynes, C. Haynes, C. Heiner, S. Hladun, D. Hostin, J. Houck, T. Howland, C. Ibegwam, Jeffery Johnson, F. Kalush, Lesley Kline, Shashi Koduru, Amy Love, Felecia Mann, D. May, Steven McCawley, T. McIntosh, Ivy McMullen, M. Moy, Linda Moy, B. Murphy, K. Nelson, C. Pfannkoch, Eric Pratts, V. Puri, Hina-Ur-Razaq Qureshi, Matt Reardon, Robert Rodriguez, Y. Rogers, Deanna Romblad, Bob Ruhfel, Richard Scott, Cynthia Sitter, Michelle Smallwood, Erin Stewart, R. Strong, Ellen Suh, R. Thomas, Ni Tint, S. Tse, C. Vech, Gary Wang, J. Wetter, Sherita Williams, Monica Williams, Sandra Windsor, E. Winn-Deen, Keriellen Wolfe, J. Zaveri, K. Zaveri, J. Abril, R. Guigó, M. Campbell, K. Sjolander, Brian Karlak, A. Kejariwal, H. Mi, B. Lazareva, Thomas Hatton, A. Narechania, Karen Diemer, A. Muruganujan, Nan Guo, Shinji Sato, V. Bafna, S. Istrail, R. Lippert, R. Schwartz, B. Walenz, Shibu Yooseph, D. Allen, A. Basu, J. Baxendale, L. Blick, Marcelo Caminha, John Carnes-Stine, Parris Caulk, Yen-Hui Chiang, My Coyne, C. Dahlke, A. Mays, M. Dombroski, Michael Donnelly, Dale Ely, Shiva Esparham, C. Fosler, Harold Gire, S. Glanowski, K. Glasser, A. Glodek, M. Gorokhov, K. Graham, Barry Gropman, M. Harris, Jeremy Heil, Scott Henderson, Jeffrey Hoover, D. Jennings, Catherine Jordan, J. Jordan, John Kasha, Leonid Kagan, C. Kraft, A. Levitsky, Mark Lewis, Xiangjun Liu, John Lopez, Daniel Ma, W. Majoros, J. McDaniel, Sean Murphy, Matthew Newman, Trung Nguyen, N. Nguyen, Marc Nodell, S. Pan, Jim Peck, Marshall Peterson, William Rowe, Robert Sanders, J. Scott, M. Simpson, Thomas Smith, A. Sprague, Timothy Stockwell, Russell Turner, E. Venter, Mei Wang, M. Wen, David Wu, Mitchell Wu, Ashley Xia, A. Zandieh, Xiaohong Zhu (2001)
The Sequence of the Human GenomeScience, 291
-
J. Jurka (2004)
Evolutionary impact of human Alu repetitive elements.Current opinion in genetics & development, 14 6
-
M. Hastings, Hema Ingle, M. Lazar, S. Munroe (2000)
Post-transcriptional Regulation of Thyroid Hormone Receptor Expression by cis-Acting Sequences and a Naturally Occurring Antisense RNA*The Journal of Biological Chemistry, 275
-
K. Shearwin, B. Callen, J. Egan (2005)
Transcriptional interference--a crash course.Trends in genetics : TIG, 21 6
-
Jianjun Chen, Miao Sun, L. Hurst, G. Carmichael, J. Rowley (2005)
Genome-wide analysis of coordinate expression and evolution of human cis-encoded sense-antisense transcripts.Trends in genetics : TIG, 21 6
-
T. Kiss (2002)
Small Nucleolar RNAs An Abundant Group of Noncoding RNAs with Diverse Cellular FunctionsCell, 109
-
Piero Carninci, T. Kasukawa, S. Katayama, J. Gough, M. Frith, N. Maeda, R. Oyama, T. Ravasi, B. Lenhard, C. Wells, R. Kodzius, K. Shimokawa, V. Bajic, S. Brenner, S. Batalov, A. Forrest, M. Zavolan, M. Davis, L. Wilming, V. Aidinis, J. Allen, A. Ambesi-Impiombato, R. Apweiler, R. Aturaliya, T. Bailey, M. Bansal, L. Baxter, K. Beisel, T. Bersano, H. Bono, A. Chalk, K. Chiu, V. Choudhary, A. Christoffels, D. Clutterbuck, M. Crowe, E. Dalla, B. Dalrymple, B. Bono, G. Gatta, D. Bernardo, T. Down, P. Engstrom, M. Fagiolini, G. Faulkner, C. Fletcher, T. Fukushima, M. Furuno, S. Futaki, M. Gariboldi, P. Georgii‐Hemming, T. Gingeras, T. Gojobori, R. Green, S. Gustincich, M. Harbers, Y. Hayashi, T. Hensch, N. Hirokawa, D. Hill, L. Huminiecki, M. Iacono, K. Ikeo, A. Iwama, T. Ishikawa, M. Jakt, Alexander Kanapin, M. Katoh, Y. Kawasawa, J. Kelso, H. Kitamura, H. Kitano, G. Kollias, S. Krishnan, A. Kruger, S. Kummerfeld, I. Kurochkin, L. Lareau, D. Lazarević, L. Lipovich, J. Liu, S. Liuni, S. McWilliam, M. Babu, M. Madera, L. Marchionni, H. Matsuda, S. Matsuzawa, H. Miki, F. Mignone, S. Miyake, K. Morris, S. Mottagui‐Tabar, N. Mulder, N. Nakano, H. Nakauchi, P. Ng, R. Nilsson, S. Nishiguchi, S. Nishikawa, F. Nori, O. Ohara, Y. Okazaki, V. Orlando, K. Pang, W. Pavan, G. Pavesi, G. Pesole, N. Petrovsky, S. Piazza, J. Reed, J. Reid, B. Ring, M. Ringwald, B. Rost, Y. Ruan, S. Salzberg, A. Sandelin, C. Schneider, C. Schönbach, K. Sekiguchi, C. Semple, S. Seno, L. Sessa, Y. Sheng, Y. Shibata, H. Shimada, K. Shimada, D. Silva, B. Sinclair, S. Sperling, E. Stupka, K. Sugiura, R. Sultana, Y. Takenaka, K. Taki, K. Tammoja, S. Tan, S. Tang, M. Taylor, J. Tegnér, S. Teichmann, H. Ueda, E. Nimwegen, R. Verardo, C. Wei, K. Yagi, H. Yamanishi, E. Zabarovsky, S. Zhu, A. Zimmer, Winston Hide, C. Bult, S. Grimmond, R. Teasdale, E. Liu, V. Brusic, John Quackenbush, C. Wahlestedt, J. Mattick, D. Hume, C. Kai, D. Sasaki, Y. Tomaru, S. Fukuda, M. Kanamori-Katayama, M. Suzuki, J. Aoki, T. Arakawa, J. Iida, K. Imamura, M. Itoh, T. Kato, H. Kawaji, N. Kawagashira, T. Kawashima, M. Kojima, S. Kondo, H. Konno, K. Nakano, N. Ninomiya, T. Nishio, M. Okada, C. Plessy, K. Shibata, T. Shiraki, S. Suzuki, M. Tagami, K. Waki, A. Watahiki, Y. Okamura-Oho, H. Suzuki, J. Kawai, Y. Hayashizaki (2005)
The Transcriptional Landscape of the Mammalian GenomeScience, 309
-
D. Bartel (2004)
MicroRNAs Genomics, Biogenesis, Mechanism, and FunctionCell, 116
-
Jeffrey Han, J. Boeke (2005)
LINE‐1 retrotransposons: Modulators of quantity and quality of mammalian gene expression?BioEssays, 27
-
Stephan Steigele, K. Nieselt (2005)
Open reading frames provide a rich pool of potential natural antisense transcripts in fungal genomesNucleic Acids Research, 33
-
H. Luther (2004)
Role of endogenous antisense RNA in cardiac gene regulationJournal of Molecular Medicine, 83
-
B. Bass (2002)
RNA editing by adenosine deaminases that act on RNA.Annual review of biochemistry, 71
-
S. Elgin, S. Grewal (2003)
Heterochromatin: silence is goldenCurrent Biology, 13
-
S. Knight, B. Bass (2002)
The role of RNA editing by ADARs in RNAi.Molecular cell, 10 4
-
Christian Petersen, Marie-Ève Bordeleau, J. Pelletier, P. Sharp (2006)
Short RNAs repress translation after initiation in mammalian cells.Molecular cell, 21 4
-
A. Lewis, K. Mitsuya, D. Umlauf, PaulR Smith, W. Dean, J. Walter, M. Higgins, R. Feil, W. Reik (2004)
Imprinting on distal chromosome 7 in the placenta involves repressive histone methylation independent of DNA methylationNature Genetics, 36
-
P. Cook (2003)
Nongenic transcription, gene regulation and action at a distanceJournal of Cell Science, 116
-
A. Werner, A. Berdal (2005)
Natural antisense transcripts: sound or silence?Physiological genomics, 23 2
-
J. Shapiro (2005)
A 21st century view of evolution: genome system architecture, repetitive DNA, and natural genetic engineering.Gene, 345 1
-
V. Kim (2005)
MicroRNA biogenesis: coordinated cropping and dicingNature Reviews Molecular Cell Biology, 6
-
Robert Nicholls, Shinji Saitoh, B. Horsthemke (1998)
Imprinting in Prader-Willi and Angelman syndromes.Trends in genetics : TIG, 14 5
-
W. Spiegelman, L. Reichardt, M. Yaniv, S. Heinemann, A. Kaiser, H. Eisen (1972)
Bidirectional transcription and the regulation of Phage lambda repressor synthesis.Proceedings of the National Academy of Sciences of the United States of America, 69 11
-
E. Wagner, S. Altuvia, P. Romby (2002)
Antisense RNAs in bacteria and their genetic elements.Advances in genetics, 46
-
L. Scherer, J. Rossi (2003)
Approaches for the sequence-specific knockdown of mRNANature Biotechnology, 21
-
P. Meltzer (2005)
Cancer genomics: Small RNAs with big impactsNature, 435
-
S. Podlowski, P. Bramlage, G. Baumann, I. Morano, H. Luther (2002)
Cardiac troponin I sense‐antisense RNA duplexes in the myocardiumJournal of Cellular Biochemistry, 85
-
G. Soldà, S. Boi, S. Duga, D. Fornasari, R. Benfante, M. Malcovati, M. Tenchini (2005)
In vivo RNA–RNA duplexes from human α3 and α5 nicotinic receptor subunit mRNAsGene, 345
-
(1961)
Genetic regulatory mechanism in the synhesis of proteins -
Philippe Luedi, A. Hartemink, R. Jirtle (2005)
Genome-wide prediction of imprinted murine genes.Genome research, 15 6
-
E. Davidson, R. Britten (1979)
Regulation of gene expression: possible role of repetitive sequences.Science, 204 4397
-
Cas Kramer, J. Loros, J. Dunlap, S. Crosthwaite (2003)
Role for antisense RNA in regulating circadian clock function in Neurospora crassaNature, 421
-
Jeffrey Han, Suzanne Szak, J. Boeke (2004)
Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomesNature, 429
-
Quansheng Yang, E. Jankowsky (2005)
ATP- and ADP-dependent modulation of RNA unwinding and strand annealing activities by the DEAD-box protein DED1.Biochemistry, 44 41
-
E. Prescott, N. Proudfoot (2002)
Transcriptional collision between convergent genes in budding yeastProceedings of the National Academy of Sciences of the United States of America, 99
-
N. Osato, H. Yamada, Kouji Satoh, H. Ooka, Makoto Yamamoto, Kohji Suzuki, J. Kawai, Piero Carninci, Yasuhiro Ohtomo, K. Murakami, K. Matsubara, S. Kikuchi, Y. Hayashizaki (2003)
Antisense transcripts with rice full-length cDNAsGenome Biology, 5
-
S. Munroe (2004)
Diversity of antisense regulation in eukaryotes: Multiple mechanisms, emerging patternsJournal of Cellular Biochemistry, 93
-
R. Reed, Hong Cheng (2005)
TREX, SR proteins and export of mRNA.Current opinion in cell biology, 17 3
-
Qiaoqiao Wang, G. Carmichael (2004)
Effects of Length and Location on the Cellular Response to Double-Stranded RNAMicrobiology and Molecular Biology Reviews, 68
-
B. Lewis, I. Shih, M. Jones-Rhoades, D. Bartel, C. Burge (2003)
Prediction of Mammalian MicroRNA TargetsCell, 115
-
S. Korneev, M. O’Shea (2002)
Evolution of nitric oxide synthase regulatory genes by DNA inversion.Molecular biology and evolution, 19 8
- Publisher
- Springer Journals
- Copyright
- Copyright © 2006 by Birkhäuser Verlag, Basel
- Subject
- Life Sciences; Biomedicine general; Life Sciences, general; Biochemistry, general; Cell Biology
- ISSN
- 1420-682X
- eISSN
- 1420-9071
- DOI
- 10.1007/s00018-006-6070-2
- pmid
- 16847578
- Publisher site
- See Article on Publisher Site
Abstract
Bioinformatic analysis of the transcriptomes of diverse eukaryotes has demonstrated the ubiquity and structural diversity of complementary antisense RNAs. These include both trans-encoded microRNAs and a large population of cis-encoded antisense RNAs that encompasses both coding and non-coding RNAs. Antisense regulation has previously been characterized primarily as a post-transcriptional response affecting RNA stability, nuclear processing, export, or translation. However, the formation of double-stranded (ds) RNAs by base-pairing between complementary RNAs may elicit regulatory responses at the transcriptional level as well. Analysis of antisense transcription at several imprinted loci has suggested a number of other mechanisms that may not require formation of dsRNA. Understanding the integration of transcriptional and post-transcriptional regulatory mechanisms represents a major challenge for understanding antisense regulation in eukaryotes. Such insight is also essential for understanding general principles of genetic regulation within the complex genomes characteristic of mouse and man as well as those of other eukaryotes.
Journal
Cellular and Molecular Life Sciences – Springer Journals
Published: Jul 17, 2006