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EpoDB: An erythropoiesis gene expression database in progress

  • Biological Database Technology
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Book cover Bioinformatics (GCB 1996)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 1278))

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Abstract

EpoDB is a database intended for the study of gene expression during differentiation and development of vertebrate erythropoietic lineages. It currently contains 1442 Genbank entries (663 are globin and 779 non-globin) which have been augmented manually and computationally. Each entry was analyzed by an expert system that corrects errors in GenBank features and generates a uniformly annotated set of features. Gene names and gene, family names were manually added. Beyond the standard database queries, the functionality of EpoDB includes the ability to extract features and subsequences (e.g. retrieve −500 to +20 region relative to the start of transcription for all β-globins), display graphically transcription unit features and sequences using Java applets, and direct export of sequences to TESS, a transcription element search program. Information on gene regulatory sites and gene expression levels is being added.

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Author information

Authors and Affiliations

  1. Department of Genetics, U. of Pennsylvania School of Medicine, Room 475, Clinical Research Building, 422 Curie Boulevard, 19104-6145, Philadelphia, PA, USA

    Fidel Salas, Juergen Haas & G. Christian Overton

  2. Division of Hematology, The Children's Hospital of Philadelphia, Abramson Center, 34th and Civic Center Blvd., 19104-4318, Philadelphia, PA, USA

    Christian J. Stoeckert Jr

Authors
  1. Fidel Salas
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  2. Juergen Haas
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  3. Christian J. Stoeckert Jr
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  4. G. Christian Overton
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Editor information

Ralf Hofestädt Thomas Lengauer Markus Löffler Dietmar Schomburg

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© 1997 Springer-Verlag Berlin Heidelberg

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Salas, F., Haas, J., Stoeckert, C.J., Overton, G.C. (1997). EpoDB: An erythropoiesis gene expression database in progress. In: Hofestädt, R., Lengauer, T., Löffler, M., Schomburg, D. (eds) Bioinformatics. GCB 1996. Lecture Notes in Computer Science, vol 1278. Springer, Berlin, Heidelberg. https://doi.org/10.1007/BFb0033203

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  • DOI: https://doi.org/10.1007/BFb0033203

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-63370-9

  • Online ISBN: 978-3-540-69524-0

  • eBook Packages: Springer Book Archive

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