Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Novel endogenous antisense transcripts (data for the mouse normal tissues)

ABSTRACT: Recent transcriptomic analyses have uncovered widespread occurrence of natural antisense transcripts (NATs), which are transcribed from the opposite strand of another discrete transcribed region. We describe a novel probe-design technique for DNA microarray analysis that specifically targets the complementary strand of annotated genes, and show that this technique can successfully identify novel NAT expression in normal and tumor samples. Northern and in situ hybridization analyses of selected examples (Acaa1, Aard, and Thbd) confirmed their transcription and dynamic expression in a tissue- and cell-type-specific manner. Our data highlight the importance of NAT expression in the regulation of cellular processes and in oncogenesis. The fundamental basis of the technology described in this paper is applicable to all genes and sample types for the identification of NAT expression that is not possible by conventional cDNA/EST/CAGE information. Total RNA for the mouse (C57BL/6J) microarray experiments was isolated from SL10 cells (fibroblast cell line), brain, heart, intestine, kidney, liver, lung, placenta (d.p.c. 10.5 and 13.5), spleen, stomach, testis, and thymus. Testis was from C57BL/6J males (8 to 10 weeks), placenta was from pregnant mice, and the other tissue was from both male and female mice. Unpublished data has been masked in the supplementary feature extraction files.

ORGANISM(S): Mus musculus

SUBMITTER: Rintaro Saito

PROVIDER: E-GEOD-14372 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes.

Numata Koji K Osada Yuko Y Okada Yuki Y Saito Rintaro R Hiraiwa Noriko N Nakaoka Hajime H Yamamoto Naoyuki N Watanabe Kazufumi K Okubo Kazue K Kohama Chihiro C Kanai Akio A Abe Kuniya K Kiyosawa Hidenori H

BMC genomics 20090822

<h4>Background</h4>Recent transcriptomic analyses in mammals have uncovered the widespread occurrence of endogenous antisense transcripts, termed natural antisense transcripts (NATs). NATs are transcribed from the opposite strand of the gene locus and are thought to control sense gene expression, but the mechanism of such regulation is as yet unknown. Although several thousand potential sense-antisense pairs have been identified in mammals, examples of functionally characterized NATs remain limi ...[more]

PMID: 19698135

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Dataset Information

Novel endogenous antisense transcripts (data for the mouse normal tissues)

Publications

Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes.

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