Gerstein Lab Publications

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2007 snippet describing some of the lab's work in analyzing functional genomics and proteomics data [html] [doc]


PARE: a tool for comparing protein abundance and mRNA expression data.
EZ Yu, AE Burba, M Gerstein (2007). BMC Bioinformatics 8:309.
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Predicting essential genes in fungal genomes.
M Seringhaus, A Paccanaro, A Borneman, M Snyder, M Gerstein (2006). Genome Res 16:1126-35.
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YeastHub: a semantic web use case for integrating data in the life sciences domain.
KH Cheung, KY Yip, A Smith, R Deknikker, A Masiar, M Gerstein (2005). Bioinformatics 21 Suppl 1:i85-96.
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An XML-Based Approach to Integrating Heterogeneous Yeast Genome Data
KH Cheung, D Pan, A Smith, M Seringhaus, SM Douglas, M Gerstein (2004). International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS); pp 236-242
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Comparing protein abundance and mRNA expression levels on a genomic scale.
D Greenbaum, C Colangelo, K Williams, M Gerstein (2003). Genome Biol 4:117.
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Revisiting the codon adaptation index from a whole-genome perspective: analyzing the relationship between gene expression and codon occurrence in yeast using a variety of models.
R Jansen, HJ Bussemaker, M Gerstein (2003). Nucleic Acids Res 31:2242-51.
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Spectral biclustering of microarray data: coclustering genes and conditions.
Y Kluger, R Basri, JT Chang, M Gerstein (2003). Genome Res 13:703-16.
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Analysis of mRNA expression and protein abundance data: an approach for the comparison of the enrichment of features in the cellular population of proteins and transcripts.
D Greenbaum, R Jansen, M Gerstein (2002). Bioinformatics 18:585-96.
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Beyond synexpression relationships: local clustering of time-shifted and inverted gene expression profiles identifies new, biologically relevant interactions.
J Qian, M Dolled-Filhart, J Lin, H Yu, M Gerstein (2001). J Mol Biol 314:1053-66.
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Genome-wide analysis relating expression level with protein subcellular localization.
A Drawid, R Jansen, M Gerstein (2000). Trends Genet 16:426-30.
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Analysis of the yeast transcriptome with structural and functional categories: characterizing highly expressed proteins.
R Jansen, M Gerstein (2000). Nucleic Acids Res 28:1481-8.
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