Gerstein Lab Publications

Main  •  By Subject  •  Queries  •  Code  •  Other Writings

Robotic cloning and Protein Production Platform of the Northeast Structural Genomics Consortium.
TB Acton, KC Gunsalus, R Xiao, LC Ma, J Aramini, MC Baran, YW Chiang, T Climent, B Cooper, NG Denissova, SM Douglas, JK Everett, CK Ho, D Macapagal, PK Rajan, R Shastry, LY Shih, GV Swapna, M Wilson, M Wu, M Gerstein, M Inouye, JF Hunt, GT Montelione (2005). Methods Enzymol 394:210-43.
website
preprint
medline

Computational analysis of membrane proteins: genomic occurrence, structure prediction and helix interactions.
U Lehnert, Y Xia, TE Royce, CS Goh, Y Liu, A Senes, H Yu, ZL Zhang, DM Engelman, M Gerstein (2005). Q Rev Biophys 37:121-46.
 
preprint
medline

The protein target list of the Northeast Structural Genomics Consortium.
Z Wunderlich, TB Acton, J Liu, G Kornhaber, J Everett, P Carter, N Lan, N Echols, M Gerstein, B Rost, GT Montelione (2004). Proteins 56:181-7.
website
preprint
medline

A method using active-site sequence conservation to find functional shifts in protein families: application to the enzymes of central metabolism, leading to the identification of an anomalous isocitrate dehydrogenase in pathogens.
R Das, M Gerstein (2004). Proteins 55:455-63.
 
preprint
medline

Transmembrane protein domains rarely use covalent domain recombination as an evolutionary mechanism.
Y Liu, M Gerstein, DM Engelman (2004). Proc Natl Acad Sci U S A 101:3495-7.
 
preprint
medline

Mining the structural genomics pipeline: identification of protein properties that affect high-throughput experimental analysis.
CS Goh, N Lan, SM Douglas, B Wu, N Echols, A Smith, D Milburn, GT Montelione, H Zhao, M Gerstein (2004). J Mol Biol 336:115-30.
website
preprint
medline

Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures.
V Alexandrov, M Gerstein (2004). BMC Bioinformatics 5:2.
website
preprint
medline

Data mining crystallization databases: knowledge-based approaches to optimize protein crystal screens.
MS Kimber, F Vallee, S Houston, A Necakov, T Skarina, E Evdokimova, S Beasley, D Christendat, A Savchenko, CH Arrowsmith, M Vedadi, M Gerstein, AM Edwards (2003). Proteins 51:562-8.
 
preprint
medline

SPINE 2: a system for collaborative structural proteomics within a federated database framework.
CS Goh, N Lan, N Echols, SM Douglas, D Milburn, P Bertone, R Xiao, LC Ma, D Zheng, Z Wunderlich, T Acton, GT Montelione, M Gerstein (2003). Nucleic Acids Res 31:2833-8.
website
preprint
medline

Structural genomics: current progress.
M Gerstein, A Edwards, CH Arrowsmith, GT Montelione (2003). Science 299:1663.
 
preprint
medline

Strategies for structural proteomics of prokaryotes: Quantifying the advantages of studying orthologous proteins and of using both NMR and X-ray crystallography approaches.
A Savchenko, A Yee, A Khachatryan, T Skarina, E Evdokimova, M Pavlova, A Semesi, J Northey, S Beasley, N Lan, R Das, M Gerstein, CH Arrowmith, AM Edwards (2003). Proteins 50:392-9.
 
preprint
medline

Structural genomics analysis: characteristics of atypical, common, and horizontally transferred folds.
H Hegyi, J Lin, D Greenbaum, M Gerstein (2002). Proteins 47:126-41.
website
preprint
medline

Genomic analysis of membrane protein families: abundance and conserved motifs.
Y Liu, DM Engelman, M Gerstein (2002). Genome Biol 3:research0054.
website
preprint
medline

The dominance of the population by a selected few: power-law behaviour applies to a wide variety of genomic properties.
NM Luscombe, J Qian, Z Zhang, T Johnson, M Gerstein (2002). Genome Biol 3:RESEARCH0040.
website
preprint
medline

Structural genomics: a new era for pharmaceutical research.
Y Liu, NM Luscombe, V Alexandrov, P Bertone, P Harrison, Z Zhang, M Gerstein (2002). Genome Biol 3:REPORTS4004.
 
preprint
medline

Protein family and fold occurrence in genomes: power-law behaviour and evolutionary model.
J Qian, NM Luscombe, M Gerstein (2001). J Mol Biol 313:673-81.
website
preprint
medline

Global perspectives on proteins: comparing genomes in terms of folds, pathways and beyond.
R Das, J Junker, D Greenbaum, MB Gerstein (2002). Pharmacogenomics J 1:115-25.
 
preprint
medline

SPINE: an integrated tracking database and data mining approach for identifying feasible targets in high-throughput structural proteomics.
P Bertone, Y Kluger, N Lan, D Zheng, D Christendat, A Yee, AM Edwards, CH Arrowsmith, GT Montelione, M Gerstein (2001). Nucleic Acids Res 29:2884-98.
website
preprint
medline

Integrative database analysis in structural genomics.
M Gerstein (2000). Nat Struct Biol 7 Suppl:960-3.
website
preprint
medline

Structural proteomics of an archaeon.
D Christendat, A Yee, A Dharamsi, Y Kluger, A Savchenko, JR Cort, V Booth, CD Mackereth, V Saridakis, I Ekiel, G Kozlov, KL Maxwell, N Wu, LP McIntosh, K Gehring, MA Kennedy, AR Davidson, EF Pai, M Gerstein, AM Edwards, CH Arrowsmith (2000). Nat Struct Biol 7:903-9.
website
preprint
medline

Advances in structural genomics.
SA Teichmann, C Chothia, M Gerstein (1999). Curr Opin Struct Biol 9:390-9.
website
preprint
medline

The relationship between protein structure and function: a comprehensive survey with application to the yeast genome.
H Hegyi, M Gerstein (1999). J Mol Biol 288:147-64.
website
preprint
medline

Comparing genomes in terms of protein structure: surveys of a finite parts list.
M Gerstein, H Hegyi (1999). FEMS Microbiol Rev 22:277-304.
 
preprint
medline

Patterns of protein-fold usage in eight microbial genomes: a comprehensive structural census.
M Gerstein (1999). Proteins 33:518-34.
website
preprint
medline


Return to front page