Bioinformatics2go

What's New

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Jon Duvick interviewed by HPCwire!

Recent publications:

Rauch, H.B., Patrick, T.L., Klusman, K.M., Battistuzzi, F.U., Mei, W,. Brendel, V.P. & Lal, S.K. (2013) Discovery and Expression Analysis of Alternative Splicing Events Conserved among Plant SR Proteins. Mol. Biol. Evol.,doi: 10.1093/molbev/mst238 First published online: December 19, 2013. [PubMed ID: 24356560] [online article (corrected proof)] [PDF (Advance Access)]

Yi, G., Brendel, V.P., Shu, C., Li, P., Palanathan, S. & Kao, C.C. (2013) Single Nucleotide Polymorphisms of Human STING Can Affect Innate Immune Response to Cyclic Dinucleotides. PLoS One 8, e77846. [PubMed ID: 24204993] [online article] [PDF]

PlantGDB News:

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