Publications

Found 18 results
Filters: Author is Pu, Shuye  [Clear All Filters]
2015
Marcon, E., Jain H., Bhattacharya A., Guo H., Phanse S., Pu S., Byram G., Collins B. C., Dowdell E., Fenner M., et al., "Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation.", Nat Methods, vol. 12, issue 8, pp. 725-31, 2015 Aug.
Pu, S., Vlasblom J., Turinsky A., Marcon E., Phanse S., Trimble S. Smiley, Olsen J., Greenblatt J., Emili A., and Wodak S. J., "Extracting high confidence protein interactions from affinity purification data: at the crossroads.", J Proteomics, vol. 118, pp. 63-80, 2015 Apr 06.
2014
Marcon, E., Ni Z., Pu S., Turinsky A. L., Trimble S. Smiley, Olsen J. B., Silverman-Gavrila R., Silverman-Gavrila L., Phanse S., Guo H., et al., "Human-chromatin-related protein interactions identify a demethylase complex required for chromosome segregation.", Cell Rep, vol. 8, issue 1, pp. 297-310, 2014 Jul 10.
2013
Jiang, J-X., Aitken K. J., Sotiropoulos C., Sotiropolous C., Kirwan T., Panchal T., Zhang N., Pu S., Wodak S. J., Tolg C., et al., "Phenotypic switching induced by damaged matrix is associated with DNA methyltransferase 3A (DNMT3A) activity and nuclear localization in smooth muscle cells (SMC).", PLoS One, vol. 8, issue 8, pp. e69089, 2013.
Wodak, S. J., Vlasblom J., Turinsky A. L., and Pu S., "Protein-protein interaction networks: the puzzling riches.", Curr Opin Struct Biol, vol. 23, issue 6, pp. 941-53, 2013 Dec.
2012
Babu, M., Vlasblom J., Pu S., Guo X., Graham C., Bean B. D. M., Burston H. E., Vizeacoumar F. J., Snider J., Phanse S., et al., "Interaction landscape of membrane-protein complexes in Saccharomyces cerevisiae.", Nature, vol. 489, issue 7417, pp. 585-9, 2012 Sep 27.
2011
Rajendram, R., Ferreira J. Carlos, Grafodatskaya D., Choufani S., Chiang T., Pu S., Butcher D. T., Wodak S. J., and Weksberg R., "Assessment of methylation level prediction accuracy in methyl-DNA immunoprecipitation and sodium bisulfite based microarray platforms.", Epigenetics, vol. 6, issue 4, pp. 410-5, 2011 Apr.
Turinsky, A. L., Turner B., Borja R. C., Gleeson J. A., Heath M., Pu S., Switzer T., Dong D., Gong Y., On T., et al., "DAnCER: disease-annotated chromatin epigenetics resource.", Nucleic Acids Res, vol. 39, issue Database issue, pp. D889-94, 2011 Jan.
Wodak, S. J., Vlasblom J., and Pu S., "High-throughput analyses and curation of protein interactions in yeast.", Methods Mol Biol, vol. 759, pp. 381-406, 2011.
Hao, Y., Merkoulovitch A., Vlasblom J., Pu S., Turinsky A. L., Roudeva D., Turner B., Greenblatt J., and Wodak S. J., "OrthoNets: simultaneous visual analysis of orthologs and their interaction neighborhoods across different organisms.", Bioinformatics, vol. 27, issue 6, pp. 883-4, 2011 Mar 15.
2010
On, T., Xiong X., Pu S., Turinsky A., Gong Y., Emili A., Zhang Z., Greenblatt J., Wodak S. J., and Parkinson J., "The evolutionary landscape of the chromatin modification machinery reveals lineage specific gains, expansions, and losses.", Proteins, vol. 78, issue 9, pp. 2075-89, 2010 Jul.
Pu, S., Turinsky A. L., Vlasblom J., On T., Xiong X., Emili A., Zhang Z., Greenblatt J., Parkinson J., and Wodak S. J., "Expanding the landscape of chromatin modification (CM)-related functional domains and genes in human.", PLoS One, vol. 5, issue 11, pp. e14122, 2010.
2009
Wodak, S. J., Pu S., Vlasblom J., and Séraphin B., "Challenges and rewards of interaction proteomics.", Mol Cell Proteomics, vol. 8, issue 1, pp. 3-18, 2009 Jan.
Pu, S., Wong J., Turner B., Cho E., and Wodak S. J., "Up-to-date catalogues of yeast protein complexes.", Nucleic Acids Res, vol. 37, issue 3, pp. 825-31, 2009 Feb.
2008
Pu, S., Ronen K., Vlasblom J., Greenblatt J., and Wodak S. J., "Local coherence in genetic interaction patterns reveals prevalent functional versatility.", Bioinformatics, vol. 24, issue 20, pp. 2376-83, 2008 Oct 15.
2007
Pu, S., Vlasblom J., Emili A., Greenblatt J., and Wodak S. J., "Identifying functional modules in the physical interactome of Saccharomyces cerevisiae.", Proteomics, vol. 7, issue 6, pp. 944-60, 2007 Mar.
2006
Vlasblom, J., Wu S., Pu S., Superina M., Liu G., Orsi C., and Wodak S. J., "GenePro: a Cytoscape plug-in for advanced visualization and analysis of interaction networks.", Bioinformatics, vol. 22, issue 17, pp. 2178-9, 2006 Sep 1.
Krogan, N. J., Cagney G., Yu H., Zhong G., Guo X., Ignatchenko A., Li J., Pu S., Datta N., Tikuisis A. P., et al., "Global landscape of protein complexes in the yeast Saccharomyces cerevisiae.", Nature, vol. 440, issue 7084, pp. 637-43, 2006 Mar 30.