Protein topology recognition from secondary structure sequences: application of the hidden Markov models to the alpha class proteins.

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Published in J Mol Biol on March 28, 1997

Authors

V Di Francesco1, J Garnier, P J Munson

Author Affiliations

1: Laboratory of Structural Biology, Division of Computer Research and Technology, National Institutes of Health, Bethesda, MD 20892-5626, USA. valedf@helix.nih.gov

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Towards understanding the glycoprotein hormone receptors. Biochimie (1991) 0.82

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Denominator definition by the utilization correction factor method. Fam Pract (1986) 0.79

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