Resource Library



Research Using LabKey


Cha S, Imielinski MB, Rejtar T, et al. In Situ proteomic analysis of human breast cancer epithelial cells using laser capture microdissection (LCM)-LC/MS: Annotation by protein set enrichment analysis (PSEA) and gene ontology (GO). Molecular & Cellular Proteomics. 2010.

Gano JJ, Simon JA. A Proteomic Investigation of Ligand-dependent HSP90 Complexes Reveals CHORDC1 as a Novel ADP-dependent HSP90-interacting Protein. Molecular & Cellular Proteomics. 2010;9(2):255-270.

Goodridge JP, Burian A, Lee N, Geraghty DE. HLA-F Complex without Peptide Binds to MHC Class I Protein in the Open Conformer Form. J Immunol. 2010;184(11):6199-6208.

Kullolli M, Hancock WS, Hincapie M. Automated Platform for Fractionation of Human Plasma Glycoproteome in Clinical Proteomics. Analytical Chemistry. 2010;82(1):115-120.

Li J, Hosseini Moghaddam SH, Chen X, Chen M, Zhong B. Shotgun strategy-based proteome profiling analysis on the head of silkworm Bombyx mori. Amino Acids. 2010;39(3):751-761.

Yu W, Taylor JA, Davis MT, et al. Maximizing the sensitivity and reliability of peptide identification in large-scale proteomic experiments by harnessing multiple search engines. Proteomics. 2010;10(6):1172-1189.

Zeng Z, Hincapie M, Haab BB, et al. The development of an integrated platform to identify breast cancer glycoproteome changes in human serum. Journal of Chromatography A. 2010;1217(19):3307-3315.

Zornetzer GA, Frieman MB, Rosenzweig E, et al. Transcriptomic analysis reveals a mechanism for a pre-fibrotic phenotype in STAT1 knockout mice during SARS-Coronavirus infection. J Virol. 2010.


Fornek JL, Gillim-Ross L, Santos C, et al. A Single-Amino-Acid Substitution in a Polymerase Protein of an H5N1 Influenza Virus Is Associated with Systemic Infection and Impaired T-Cell Activation in Mice. J. Virol. 2009;83(21):11102-11115.

Katayama H, Paczesny S, Prentice R, et al. Application of serum proteomics to the Women’s Health Initiative conjugated equine estrogens trial reveals a multitude of effects relevant to clinical findings. Genome Med. 2009;1(4):47.

Kollmann TR, Crabtree J, Rein-Weston A, et al. Neonatal Innate TLR-Mediated Responses Are Distinct from Those of Adults. J Immunol. 2009;183(11):7150-7160.

Lazarev AV, Rejtar T, Dai S, Karger BL. Centrifugal methods and devices for rapid in-gel digestion of proteins. Electrophoresis. 2009;30(6):966-973.

Li J, Chen X, Fan W, et al. Proteomic and Bioinformatic Analysis on Endocrine Organs of Domesticated Silkworm, Bombyx mori L. for a Comprehensive Understanding of Their Roles and Relations. Journal of Proteome Research. 2009;8(6):2620-2632.

Pitteri SJ, Hanash SM, Aragaki A, et al. Postmenopausal estrogen and progestin effects on the serum proteome. Genome Med. 1(12):121-121. 2009.

Wang H, Wong C, Chin A, et al. Quantitative Serum Proteomics Using Dual Stable Isotope Coding and nano LC-MS/MSMS. Journal of Proteome Research. 2009;8(12):5412-5422.


Alldridge L, Metodieva G, Greenwood C, et al. Proteome Profiling of Breast Tumors by Gel Electrophoresis and Nanoscale Electrospray Ionization Mass Spectrometry. Journal of Proteome Research. 2008;7(4):1458-1469.

Faça VM, Ventura AP, Fitzgibbon MP, et al. Proteomic Analysis of Ovarian Cancer Cells Reveals Dynamic Processes of Protein Secretion and Shedding of Extra-Cellular Domains. PLoS ONE. 3(6).

Faca VM, Song KS, Wang H, et al. A Mouse to Human Search for Plasma Proteome Changes Associated with Pancreatic Tumor Development. PLoS Med. 2008;5(6):e123.

Fang Q, Strand A, Law W, et al. Brain-specific Proteins Decline in the Cerebrospinal Fluid of Humans with Huntington’s Disease. Molecular & Cellular Proteomics. 2009;8(3):451 -466.

Jansen K, Blimkie D, Furlong J, et al. Polychromatic flow cytometric high-throughput assay to analyze the innate immune response to Toll-like receptor stimulation. Journal of Immunological Methods. 2008;336(2):183-192.

Krasnoselsky AL, Faca VM, Pitteri SJ, Zhang Q, Hanash SM. Isoform Analysis of LC−MS/MS Data from Multidimensional Fractionation of the Serum Proteome. Journal of Proteome Research. 2008;7(6):2546-2552.

McElrath MJ, De Rosa SC, Moodie Z, et al. HIV-1 vaccine-induced immunity in the test-of-concept Step Study: a case–cohort analysis. The Lancet. 2008;372(9653):1894-1905.

Nelson WD, Viele K, Lynn BC. An integrated approach for automating validation of extracted ion chromatographic peaks. Bioinformatics. 2008;24(18):2103 -2104.

Ramos-Fernández A, Paradela A, Navajas R, Albar JP. Generalized Method for Probability-based Peptide and Protein Identification from Tandem Mass Spectrometry Data and Sequence Database Searching. 2008;7(9):1748-1754.

Zhang Q, Menon R, Deutsch EW, et al. A mouse plasma peptide atlas as a resource for disease proteomics. Genome Biol. 2008;9(6):R93.


Mato JM, He F, Beretta L. The 2006 Human Liver Proteome Project (HLPP) Workshops . Prot. Clin. Appl. 2007;1(5):442-445.

May D, Fitzgibbon M, Liu Y, et al. A Platform for Accurate Mass and Time Analyses of Mass Spectrometry Data. 2007;6(7):2685-2694.

Pereira-Faca SR, Kuick R, Puravs E, et al. Identification of 14-3-3(theta)as an Antigen that Induces a Humoral Response in Lung Cancer. Cancer Research. 2007;67(24):12000 -12006.

Whiteaker JR, Zhang H, Zhao L, et al. Integrated Pipeline for Mass Spectrometry-Based Discovery and Confirmation of Biomarkers Demonstrated in a Mouse Model of Breast Cancer. Journal of Proteome Research. 2007;6(10):3962-3975.


Cottingham K. Proteomics Projects: HUPO HLPP takes on a herculean task. Journal of Proteome Research. 2006;5(9):2077.

Faca V, Coram M, Phanstiel D, et al. Quantitative Analysis of Acrylamide Labeled Serum Proteins by LC−MS/MS. Journal of Proteome Research. 2006;5(8):2009-2018.