Mining “junk” DNA to find hidden transcriptional gems

Author

Glusman, Gustavo

Author_Institution

Inst. for Syst. Biol., Seattle, WA, USA

fYear

2009

fDate

17-21 May 2009

Firstpage

1

Lastpage

4

Abstract

The genome is rich in information, posing analysis and visualization challenges, while offering enticing opportunities to discover functional structures. Interestingly, half the human genome is routinely discarded from most analyses as ldquojunkrdquo DNA, when interspersed repeats are masked. The GESTALT Workbench is an online tool for large-scale genomic sequence analysis and visualization, emphasizing the interpretation of interspersed repeats. Using GESTALT´s new modular structure, author implemented dynamic and automated analysis pipelines, including the FEAST suite of algorithms. FEAST quantifies ldquotranscriptional footprintsrdquo leading to the computational identification of large numbers of transcripts lacking exon conservation and apparently not coding for proteins.

Keywords

DNA; bioinformatics; data mining; data visualisation; genomics; proteins; FEAST; GESTALT Workbench; data visualization; dynamic analysis; exon conservation; functional structures; hidden transcriptional genes; junk DNA mining; online large-scale genomic sequence analysis; proteins; Algorithm design and analysis; Bioinformatics; DNA; Genomics; Humans; Information analysis; Large-scale systems; Pipelines; Sequences; Visualization;

fLanguage

English

Publisher

ieee

Conference_Titel

Genomic Signal Processing and Statistics, 2009. GENSIPS 2009. IEEE International Workshop on

Conference_Location

Minneapolis, MN

Print_ISBN

978-1-4244-4761-9

Electronic_ISBN

978-1-4244-4762-6

Type

conf

DOI

10.1109/GENSIPS.2009.5174348

Filename

5174348