Gerstein Lab Publications

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Relating protein conformational changes to packing efficiency and disorder.
N Bhardwaj, M Gerstein (2009). Protein Sci 18: 1230-40.
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Helix Interaction Tool (HIT): a web-based tool for analysis of helix-helix interactions in proteins.
AE Burba, U Lehnert, EZ Yu, M Gerstein (2006). Bioinformatics 22: 2735-8.
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The geometry of the ribosomal polypeptide exit tunnel.
NR Voss, M Gerstein, TA Steitz, PB Moore (2006). J Mol Biol 360: 893-906.
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Calculation of standard atomic volumes for RNA and comparison with proteins: RNA is packed more tightly.
NR Voss, M Gerstein (2005). J Mol Biol 346: 477-92.
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Selection and characterization of small random transmembrane proteins that bind and activate the platelet-derived growth factor beta receptor.
LL Freeman-Cook, AM Dixon, JB Frank, Y Xia, L Ely, M Gerstein, DM Engelman, D DiMaio (2004). J Mol Biol 338: 907-20.
 
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Calculations of protein volumes: sensitivity analysis and parameter database.
J Tsai, M Gerstein (2002). Bioinformatics 18: 985-95.
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Determining the minimum number of types necessary to represent the sizes of protein atoms.
J Tsai, N Voss, M Gerstein (2001). Bioinformatics 17: 949-56.
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Protein Geometry: Distances, Areas, and Volumes
M Gerstein, F M Richards (2001). International Tables for Crystallography (Volume F, Chapter 22.1.1, pages 531-539; M Rossmann & E Arnold, editors; Dordrecht: Kluwer)
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The packing density in proteins: standard radii and volumes.
J Tsai, R Taylor, C Chothia, M Gerstein (1999). J Mol Biol 290: 253-66.
 
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Protein folding: the endgame.
M Levitt, M Gerstein, E Huang, S Subbiah, J Tsai (1997). Annu Rev Biochem 66: 549-79.
 
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Packing at the protein-water interface.
M Gerstein, C Chothia (1996). Proc Natl Acad Sci U S A 93: 10167-72.
 
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The volume of atoms on the protein surface: calculated from simulation, using Voronoi polyhedra.
M Gerstein, J Tsai, M Levitt (1995). J Mol Biol 249: 955-66.
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Volume changes on protein folding.
Y Harpaz, M Gerstein, C Chothia (1994). Structure 2: 641-9.
 
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Volume changes in protein evolution.
M Gerstein, EL Sonnhammer, C Chothia (1994). J Mol Biol 236: 1067-78.
 
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What is the natural boundary of a protein in solution?
M Gerstein, RM Lynden-Bell (1993). J Mol Biol 230: 641-50.
 
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