This paper will provide some examples of misleading annotations with regard to …

• Abstract
• Introduction
• Proteins rich in particular amino acids
• Proteins having several biological activities
• Proteins containing several functional domains
• Conclusion
• Acknowledgements
• References

Biology Articles » Bioinformatics » Bioinformatics as a critical prerequisite to transcriptome and proteome studies » Conclusion

Conclusion

- Bioinformatics as a critical prerequisite to transcriptome and proteome studies

All the above-mentioned misleading annotations originate from the misinterpretation of sequence comparisons or domain searches. A careful and critical bioinformatic analysis of DNA and/or protein sequences therefore appears to be an absolute requirement before starting a transcriptome analysis or discussing the results from a proteomic analysis. The importance of comparing results obtained with different bioinformatic softwares has been clearly shown in the Aramemnon database which was especially designed to collect integral membrane proteins (http://aramemnon.botanik.uni-koeln.de/) (Schwacke et al., 2003). It integrates data from 11 trans-membrane predictions and 8 signal peptide predictions and illustrates the type of discrepancies that may be observed between the results. Moreover, the relevance of bioinformatic predictions to biological data should be checked whenever possible to prevent mistakes. Biological data have been proved to be essential for the improvement of the quality of genome annotations, as recently shown by the systematic sequencing of full-length cDNAs (Haas et al., 2002), the use of oligonucleotide tilling arrays (Yamada et al., 2003), and proteomics (Choudhary et al., 2001; Borderies et al., 2003).