What's New
Recent papers:
Daniel S Standage, Tim Lai & Volker P Brendel (2022)
iLoci: Robust evaluation of genome content and organization for provisional and mature genome assemblies.
Nucleic Acids Research Genomics and Bioinformatics
4, Issue 1, March 2022, lqac013, https://doi.org/10.1093/nargab/lqac013
[PubMed ID: 35211671]
[online article]
[PDF]
Morandin, C., Brendel, V.P., Sundström, L.; Helanterä, H. & Mikheyev, A. (2019)
Changes in gene DNA methylation and expression networks accompany caste specialization and age-related physiological changes in a social insect methylation.
Molecular Ecology,
28, 1975-1993.
[PubMed ID: 30809873]
[online article]
[PDF]
The future of computational genomics:
Brendel, V.P. (2018)
From small RNA discoveries to a new paradigm in computational genomics?
New Phytol.
220, 659-660.
[PubMed ID: 30324739]
[online article]
[PDF]
Check out our github site!
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Bioinformatics2go
SAPS, SSPA
Description: SAPS stands for Statistical Analysis of Protein Sequences, and SSPA is an acronym for Significant Segment Pair Alignment. These programs are rather old (see citations), but still in use. I am making the old code available as is for now, hoping for some time soon to update the code. In the meantime, give me feedback and suggestions!
Volker Brendel, December 16, 2008.
Citations: SAPS - Brendel, V., Bucher, P., Nourbakhsh, I.R., Blaisdell, B.E. & Karlin, S. (1992)
Methods and algorithms for statistical analysis of protein sequences. Proc. Natl. Acad. Sci. USA 89, 2002-2006. [
PubMed ID: 1549558] [
PDF]; SSPA - Karlin, S., Weinstock, G. & Brendel, V. (1995)
Bacterial classifications derived from RecA protein sequence comparisons. J. Bacteriol. 177, 6881-6893. [
PubMed ID: 7592482]
Web Implementations:
SAPS @ EBI;
SAPS @ Mobyle
Download:
Download SAPS-SSPA
