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Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan

4 Issues per year


CiteScore 2016: 0.93

SCImago Journal Rank (SJR) 2016: 0.416

Open Access
Online
ISSN
1613-4516
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Volume 4, Issue 1

Issues

Integration of Transcriptome and Proteome Data from Human-Pathogenic Fungi by Using a Data Warehouse

Daniela Albrecht
  • Corresponding author
  • Leibniz-Institute for Natural Product Research and Infection Biology - Hans-Knoell-Institute (HKI), Beutenbergstrasse 11a, 07745 Jena, Germany
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  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Olaf Kniemeyer
  • Leibniz-Institute for Natural Product Research and Infection Biology - Hans-Knoell-Institute (HKI), Beutenbergstrasse 11a, 07745 Jena, Germany
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Axel A. Brakhage
  • Leibniz-Institute for Natural Product Research and Infection Biology - Hans-Knoell-Institute (HKI), Beutenbergstrasse 11a, 07745 Jena, Germany
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Matthias Berth / Reinhard Guthke
  • Leibniz-Institute for Natural Product Research and Infection Biology - Hans-Knoell-Institute (HKI), Beutenbergstrasse 11a, 07745 Jena, Germany
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2007-52

Summary

A data warehouse for the integrated storage and visualisation of genome and experimental transcriptome and proteome data of human-pathogenic fungi was established. It provides tools for uploading images and corresponding data from microarray experiments, two-dimensional (2D) gel experiments and mass spectrometry (MS) analyses. All data are cross-linked. A user can find out, on which gels in the database an interesting protein was detected. Additionally, he can see on which microarrays the corresponding mRNA had been spotted and whether these spots show interesting intensity values. So the data warehouse enables an integrated analysis of both transcriptome and proteome data.

Some of the uploaded data were transcriptome and proteome time series data of temperature shift experiments obtained from Aspergillus fumigatus. Several proteins were differentially regulated at different times after the temperature shift. For a couple of them also the respective transcripts were found to be differentially expressed. For even more of those proteins the transcripts did not show differential regulation and vice versa. So both kinds of data clearly complement each other and should be analysed together.

About the article

Published Online: 2016-10-18

Published in Print: 2007-03-01


Citation Information: Journal of Integrative Bioinformatics, Volume 4, Issue 1, Pages 51–63, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2007-52.

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© 2007 The Author(s). Published by Journal of Integrative Bioinformatics.. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

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