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  Annotating regulatory DNA based on man-mouse genomic comparison

Dieterich, C., Cusack, B., Wang, H., Rateitschak, K., Krause, A., & Vingron, M. (2002). Annotating regulatory DNA based on man-mouse genomic comparison. Proceedings of the European Conference on Computational Biology (ECCB 2002), S84-S90.

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Datensatz-Permalink: https://hdl.handle.net/11858/00-001M-0000-0010-8BE4-8 Versions-Permalink: https://hdl.handle.net/11858/00-001M-0000-0010-8BE5-6
Genre: Zeitschriftenartikel

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 Urheber:
Dieterich, Christoph1, Autor
Cusack, Brian2, Autor           
Wang, Haiyan1, Autor
Rateitschak, Katja1, Autor
Krause, Antje1, Autor
Vingron, Martin3, Autor           
Affiliations:
1Max Planck Society, ou_persistent13              
2Evolutionary Genomics (Peter Arndt), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479638              
3Gene regulation (Martin Vingron), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479639              

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Schlagwörter: -
 Zusammenfassung: Non-coding DNA segments that are conserved between the human and mouse genomic sequence are good indicators of possible regulatory sequences. Here we report on a systematic approach to delineate such conserved elements from upstream regions of orthologous gene pairs from man and mouse. We focus on orthologous genes in order to maximize our chances to find functionally similar regulatory elements. The identification of conserved elements is effected using the Waterman–Eggert local suboptimal alignment algorithm. We have modified an implementation of this algorithm such that it integrates the determination of statistical significance for the local suboptimal alignments. This has the effect of outputting a dynamically determined number of suboptimal alignments that are deemed statistically significant. Comparison with experimentally determined annotation shows a striking enrichement of regulatory sites among the conserved regions. Furthermore, the conserved regions tend to cover the promotor region described in the EPD database.

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Sprache(n): eng - English
 Datum: 2002-06-15
 Publikationsstatus: Erschienen
 Seiten: -
 Ort, Verlag, Ausgabe: -
 Inhaltsverzeichnis: -
 Art der Begutachtung: -
 Identifikatoren: eDoc: 27804
 Art des Abschluß: -

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Titel: Proceedings of the European Conference on Computational Biology (ECCB 2002)
Genre der Quelle: Heft
 Urheber:
Affiliations:
Ort, Verlag, Ausgabe: -
Seiten: - Band / Heft: - Artikelnummer: - Start- / Endseite: S84 - S90 Identifikator: -

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Titel: Bioinformatics
Genre der Quelle: Zeitschrift
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Ort, Verlag, Ausgabe: -
Seiten: - Band / Heft: Supplement 2 Artikelnummer: - Start- / Endseite: - Identifikator: -