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RNA (2009)
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Ali Ebrahimi et al.
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On the physical basis of the amino acid polar requirement
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Martin C. Stumpe et al.
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Jason E. Donald et al.
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Lesley R. Rutledge et al.
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WR Atchley et al.
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AANT: the Amino Acid-Nucleotide Interaction Database
MM Hoffman et al.
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C Oostenbrink et al.
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Cavity formation and preferential interactions in urea solutions: Dependence on urea aggregation
S Weerasinghe et al.
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C Biot et al.
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Statistical analysis of atomic contacts at RNA-protein interfaces
M Treger et al.
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Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level
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