Proteomics - Biomedical Informatics in Translational Research - page 109

[64] Feng, S., et al., “Immobilized Zirconium Ion Affinity Chromatography for Specific Enrich-

ment of Phosphopeptides in Phosphoproteome Analysis,” Mol. Cell Proteomics , Vol. 6,
2007, pp. 1656-1665.

[65] Nuhse, T., Yu, K., and Salomon, A., “Isolation of Phosphopeptides by Immobilized Metal

Ion Affinity Chromatography,” Curr. Protoc. Mol. Biol., Chapter 18, 2007, Unit 18.13.

[66] Cantin, G. T., et al., “Optimizing TiO2-Based Phosphopeptide Enrichment for Automated

Multidimensional Liquid Chromatography Coupled to Tandem Mass Spectrometry,”
Anal. Chem. , Vol. 79, 2007, pp. 4666-4673.

[67] Mikesh, L. M., et al., “The Utility of ETD Mass Spectrometry in Proteomic Analysis,”

Biochim. Biophys. Acta , Vol. 1764, 2006, pp. 1811-1822.

[68] Zhang, H., et al., “Identification and Quantification of N-linked Glycoproteins Using

Hydrazide Chemistry, Stable Isotope Labeling and Mass Spectrometry,” Nat. Biotechnol. ,
Vol. 21, 2003, pp. 660-666.

[69] Kaji, H., et al., “Mass Spectrometric Identification of N-linked Glycopeptides Using

Lectin-Mediated Affinity Capture and Glycosylation Site-Specific Stable Isotope Tagging,”
Nat. Protoc. , Vol. 1, 2006, pp. 3019-3027.

[70] Carlson, D. M., “Structures and Immunochemical Properties of Oligosaccharides Isolated

from Pig Submaxillary Mucins,” J. Biol. Chem., Vol. 243, 1968, pp. 616-626.

[71] Kaji, H., et al., “Lectin Affinity Capture, Isotope-Coded Tagging and Mass Spectrometry to

Identify N-Linked Glycoproteins,” Nat. Biotechnol. , Vol. 21, 2003, pp. 667-672.

[72] Wuhrer, M., et al., “Glycoproteomics Based on Tandem Mass Spectrometry of

Glycopeptides,” J. Chromatogr. B Analyt. Technol. Biomed. Life Sci. , Vol. 849, 2007,
pp. 115-128.

[73] Uhlen, M., and Ponten, F., “Antibody-Based Proteomics for Human Tissue Profiling,” Mol.

Cell Proteomics , Vol. 4, 2005, pp. 384-393.

[74] Cretich, M., et al., “Protein and Peptide Arrays: Recent Trends and New Directions,”

Biomol. Eng. , Vol. 23, 2006, pp. 77-88.

[75] Sanchez-Carbayo, M., “Antibody Arrays: Technical Considerations and Clinical Applica-

tions in Cancer,” Clin. Chem. , Vol. 52, 2006, pp. 1651-1659.

[76] Gorelik, E., et al., “Multiplexed Immunobead-Based Cytokine Profiling for Early Detection

of Ovarian Cancer,” Cancer Epidemiol. Biomarkers Prev. , Vol. 14, 2005, pp. 981-987.

[77] Zeh, H. J., et al., “Multianalyte Profiling of Serum Cytokines for Detection of Pancreatic

Cancer,” Cancer Biomark. , Vol. 1, 2005, pp. 259-269.

[78] Ray, S., et al., “Classification and Prediction of Clinical Alzheimer's Diagnosis Based on

Plasma Signaling Proteins,” Nat. Med. , Vol. 13, 2007, pp. 1359-1362.

[79] Casiano, C. A., Mediavilla-Varela, M., and Tan, E. M., “Tumor-Associated Antigen Arrays

for the Serological Diagnosis of Cancer,” Mol. Cell Proteomics , Vol. 5, 2006,

pp. 1745-1759.

[80] Zhang, W., and Chait, B. T., “ProFound: An Expert System for Protein Identification Using

Mass Spectrometric Peptide Mapping Information,” Anal. Chem. , Vol. 72, 2000,

pp. 2482-2489.

[81] Perkins, D. N., et al., “Probability-Based Protein Identification by Searching Sequence

Databases Using Mass Spectrometry Data,” Electrophoresis , Vol. 20, 1999,

pp. 3551-3567.

[82] Hauskrecht, M., et al., “Feature Selection for Classification of SELDI-TOF-MS Proteomic

Profiles,” Appl. Bioinformatics , Vol. 4, 2005, pp. 227-246.

[83] Bellew, M., et al., “A Suite of Algorithms for the Comprehensive Analysis of Complex Pro-

tein

Mixtures Using High-Resolution LC-MS,” Bioinformatics , Vol. 22, 2006,

pp. 1902-1909.

[84] Li, X. J., et al., “A Software Suite for the Generation and Comparison of Peptide Arrays

from Sets of Data Collected by Liquid Chromatography-Mass Spectrometry,” Mol. Cell
Proteomics , Vol. 4, 2005, pp. 1328-1340.