Download e-book for kindle: Cap-Analysis Gene Expression (CAGE): The Science of Decoding by Piero Carninci

By Piero Carninci

The output of eukaryotic genomes is way extra complicated than anticipated. Genes produce assorted variations of RNAs from a number of promoters. one of many final objectives of organic research is to set up a dating among the messenger RNAs which are transcribed from the genome and the genomic areas that regulate their expression (the promoters) as a way to decipher the networks that keep an eye on gene expression and the transcription elements that act as grasp regulators of transcriptional control.

Novel applied sciences have lately seemed that permit the decoding of transcriptional community, in response to the id of the beginning web site of gene transcription, with the simultaneous dimension of expression point and identity of the promoter parts. those tagging applied sciences (including cap-analysis gene expression [CAGE] and others) are additional boosted from the improvement of the unconventional iteration of sequencing tools, which enable transcriptional profiling via sequencing on the fee of microarray experiments.

This ebook is a advisor for clients of latest applied sciences, because it comprises appropriately confirmed protocols, permitting readers to organize their samples for experiments. also, it's a consultant for the bioinformatics instruments which are to be had for the research of the bought tags, together with the layout of the software program, the assets and the internet. eventually, the ebook presents examples of the appliance of those applied sciences to spot promoters, annotate genomes, establish new RNAs and reconstruct versions of transcriptional keep an eye on. even though examples customarily hindrance mammalians, the dialogue expands to different teams of eukaryotes, the place those ways are complementing genome sequencing.

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Additional info for Cap-Analysis Gene Expression (CAGE): The Science of Decoding Genes Transcription

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Proc. Natl. Acad. Sci. USA. 100, 1577–1581 (2003). [13] R. Kodzius et al. CAGE: Cap analysis of gene expression. Nat. Methods. 3, 211–222 (2006). [14] P. Carninci et al. Thermostabilization and thermoactivation of thermolabile enzymes by trehalose and its application for the synthesis of full length cDNA. Proc. Natl. Acad. Sci. USA 95, 520–524 (1998). 19 September 4, 2009 20 10:22 RPS: Pan Stanford Publishing Book - 6in x 9in References [15] P. Carninci, T. Shiraki, Y. Mizuno, M. Muramatsu & Y.

Kapranov, et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science 316, 1484–1488 (2007). [3] J. Cheng et al. Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science 308, 1149–1154 (2005). [4] Carninci, P. et al. The transcriptional landscape of the mammalian genome. Science 309, 1559–1563 (2005). [5] S. Katayama et al. Antisense transcription in the mammalian transcriptome. Science 309, 1564–1566 (2005). [6] P. Carninci, J. Yasuda & Y.

5] S. Katayama et al. Antisense transcription in the mammalian transcriptome. Science 309, 1564–1566 (2005). [6] P. Carninci, J. Yasuda & Y. Hayashizaki. Multifaceted mammalian transcriptome. Curr. Opin. Cell. Biol. 20, 274–280 (2008). [7] A. Sandelin et al. Mammalian RNA polymerase II core promoters: insights from genome-wide studies. Nat. Rev. Genet. 8, 424–436 (2007). [8] Y. Suzuki et al. Identification and characterization of the potential promoter regions of 1031 kinds of human genes. Genome Res.

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