GENIO/frame
Frameshift Analysis and Sequencing Error Detection
GENIO/frame detects frameshifts in human coding sequences with high accuracy.  The frameshift analysis is based on G+C content dependent interleaved 6-tupel (hexamer) entropy of coding/non coding sequences. The system is extensible to other organism specific word entropies. Our results have shown that GENIO/frame reports single and dual frameshifts with good accuracy below  +/- 10 nucleotides (in most cases) and high specificity. Sensitivity/specificity is nearly independent from G+C content. The minimum sequence length for reliable frameshift detection should be about 150nt. GENIO/frame results have been evaluated with 301 non-redundant coding sequences of multi-exon human genes. As you can see, some sequences contain sequence errors (i.e. HUMCYP2DG, Acc. M33189).The results are shown in the GENIO/frame test set. I'm grateful for your comments and suggestions.

History:
December 3rd, 1998 - Bug fix: reverse strand frame shift calculation bug fixed
February 10, 1999 - GENIO/frame SSL (Secure Socket Layer) version added

 
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GENIO/frame  via secure connection, SSL (Secure Socket Layer) 

 
 

German German Conference on Bioinformatics GCB 98, Cologne University October 7-10, 1998

  • GCB-98 Poster (small GIF-File), (large GIF-File), (Postscript, zipped)

    • GENIO services:

    GENIO/seq  - A Non-Redundant Eukaryotic Gene Database of Annotated Sites and Sequences
    GENIO/scan - EST/STS Guided Identification of Genes in Human Genomic DNA
    GENIO/cover  - GENIO/scan EST Coverage Analysis of Currently Known Eukaryotic Coding Sequences
    GENIO/logo  - Nucleic and Amino Acid Sequence Logos
    GENIO/splice - Splice Site and Exon Prediction in Human Genomic DNA
    GENIO/frame - Frame Shift Analysis and Sequencing Error Detection

    Important information: Due to security and privacy requirements your data sent as well as the data generated during GENIO request(s) will be erased automatically 15 minutes after your request. Please download your data files within 15 minutes. Thank you!
    If your data requires privacy, please use the SSL version.

    Problems, suggestions, remarks?
    Send email to Niels Mache (mache at struktur dot de)  My home page is here.