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5 results on '"Bajic Vladimir B"'

1. Multi-Organ Expression Profiling Uncovers a Gene Module in Coronary Artery Disease Involving Transendothelial Migration of Leukocytes and LIM Domain Binding 2: The Stockholm Atherosclerosis Gene Expression (STAGE) Study

Author

Hägg, Sara, primary, Skogsberg, Josefin, additional, Lundström, Jesper, additional, Noori, Peri, additional, Nilsson, Roland, additional, Zhong, Hua, additional, Maleki, Shohreh, additional, Shang, Ming-Mei, additional, Brinne, Björn, additional, Bradshaw, Maria, additional, Bajic, Vladimir B., additional, Samnegård, Ann, additional, Silveira, Angela, additional, Kaplan, Lee M., additional, Gigante, Bruna, additional, Leander, Karin, additional, de Faire, Ulf, additional, Rosfors, Stefan, additional, Lockowandt, Ulf, additional, Liska, Jan, additional, Konrad, Peter, additional, Takolander, Rabbe, additional, Franco-Cereceda, Anders, additional, Schadt, Eric E., additional, Ivert, Torbjörn, additional, Hamsten, Anders, additional, Tegnér, Jesper, additional, and Björkegren, Johan, additional

Published
2009
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2. Mice and Men: Their Promoter Properties

Author

Bajic, Vladimir B, primary, Tan, Sin Lam, additional, Christoffels, Alan, additional, Schönbach, Christian, additional, Lipovich, Leonard, additional, Yang, Liang, additional, Hofmann, Oliver, additional, Kruger, Adele, additional, Hide, Winston, additional, Kai, Chikatoshi, additional, Kawai, Jun, additional, Hume, David A, additional, Carninci, Piero, additional, and Hayashizaki, Yoshihide, additional

Published
2006
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3. Pseudo–Messenger RNA: Phantoms of the Transcriptome

Author

Frith, Martin C, primary, Wilming, Laurens G, additional, Forrest, Alistair, additional, Kawaji, Hideya, additional, Tan, Sin Lam, additional, Wahlestedt, Claes, additional, Bajic, Vladimir B, additional, Kai, Chikatoshi, additional, Kawai, Jun, additional, Carninci, Piero, additional, Hayashizaki, Yoshihide, additional, Bailey, Timothy L, additional, and Huminiecki, Lukasz, additional

Published
2006
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4. Complex Loci in Human and Mouse Genomes

Author

Engström, Pär G, primary, Suzuki, Harukazu, additional, Ninomiya, Noriko, additional, Akalin, Altuna, additional, Sessa, Luca, additional, Lavorgna, Giovanni, additional, Brozzi, Alessandro, additional, Luzi, Lucilla, additional, Tan, Sin Lam, additional, Yang, Liang, additional, Kunarso, Galih, additional, Ng, Edwin Lian-Chong, additional, Batalov, Serge, additional, Wahlestedt, Claes, additional, Kai, Chikatoshi, additional, Kawai, Jun, additional, Carninci, Piero, additional, Hayashizaki, Yoshihide, additional, Wells, Christine, additional, Bajic, Vladimir B, additional, Orlando, Valerio, additional, Reid, James F, additional, Lenhard, Boris, additional, and Lipovich, Leonard, additional

Published
2006
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5. Pseudo-Messenger RNA: Phantoms of the Transcriptome.

Author

Frith, Martin C., Wilming, Laurens G., Forrest, Alistair, Kawaji, Hideya, Sin Lam Tan, Wahlestedt, Claes, Bajic, Vladimir B., Kai, Chikatoshi, Kawai, Jun, Carninci, Piero, Hayashizaki, Yoshihide, Bailey, Timothy L., and Huminiecki, Lukasz

Subjects
MESSENGER RNA, GENETIC code, PROTEINS, NUCLEOTIDE sequence, CIRCULAR DNA, GENETIC transcription, TRANSPOSONS, GENOMES
Abstract

The mammalian transcriptome harbours shadowy entities that resist classification and analysis. In analogy with pseudogenes, we define pseudo-messenger RNA to be RNA molecules that resemble protein-coding mRNA, but cannot encode full-length proteins owing to disruptions of the reading frame. Using a rigorous computational pipeline, which rules out sequencing errors, we identify 10,679 pseudo-messenger RNAs (approximately half of which are transposon-associated) among the 102,801 FANTOM3 mouse cDNAs: just over 10% of the FANTOM3 transcriptome. These comprise not only transcribed pseudogenes, but also disrupted splice variants of otherwise protein-coding genes. Some may encode truncated proteins, only a minority of which appear subject to nonsense-mediated decay. The presence of an excess of transcripts whose only disruptions are opal stop codons suggests that there are more selenoproteins than currently estimated. We also describe compensatory frameshifts, where a segment of the gene has changed frame but remains translatable. In summary, we survey a large class of non-standard but potentially functional transcripts that are likely to encode genetic information and effect biological processes in novel ways. Many of these transcripts do not correspond cleanly to any identifiable object in the genome, implying fundamental limits to the goal of annotating all functional elements at the genome sequence level. [ABSTRACT FROM AUTHOR]

Published
2006
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