Research © 2015 by The American Society for Biochemistry and Molecular Biology, Inc. This paper is available on line at http://www.mcponline.org
In-depth Proteomic Analysis of Six Types of Exudative Pleural Effusions for Nonsmall Cell Lung Cancer Biomarker Discovery*□ S
Pei-Jun Liu‡, Chi-De Chen‡**储储, Chih-Liang Wang§‡‡储储, Yi-Cheng Wu§§, Chia-Wei Hsu‡**, Chien-Wei Lee‡, Lien-Hung Huang‡, Jau-Song Yu‡¶**, Yu-Sun Chang‡**, Chih-Ching Wu**¶¶, and Chia-Jung Yu‡¶ ¶¶ Pleural effusion (PE), a tumor-proximal body fluid, may be a promising source for biomarker discovery in human cancers. Because a variety of pathological conditions can lead to PE, characterization of the relative PE proteomic profiles from different types of PEs would accelerate discovery of potential PE biomarkers specifically used to diagnose pulmonary disorders. Using quantitative proteomic approaches, we identified 772 nonredundant proteins from six types of exudative PEs, including three malignant PEs (MPE, from lung, breast, and gastric cancers), one lung cancer paramalignant PE, and two benign diseases (tuberculosis and pneumonia). Spectral counting was utilized to semiquantify PE protein levels. Principal component analysis, hierarchical clustering, and Gene Ontology of cellular process analyses revealed differential levels and functional profiling of proteins in each type of PE. We identified 30 candidate proteins with twofold higher levels (q
In-depth Proteomic Analysis of Six Types of Exudative Pleural Effusions for Nonsmall Cell Lung Cancer Biomarker Discovery*□ S
Pei-Jun Liu‡, Chi-De Chen‡**储储, Chih-Liang Wang§‡‡储储, Yi-Cheng Wu§§, Chia-Wei Hsu‡**, Chien-Wei Lee‡, Lien-Hung Huang‡, Jau-Song Yu‡¶**, Yu-Sun Chang‡**, Chih-Ching Wu**¶¶, and Chia-Jung Yu‡¶ ¶¶ Pleural effusion (PE), a tumor-proximal body fluid, may be a promising source for biomarker discovery in human cancers. Because a variety of pathological conditions can lead to PE, characterization of the relative PE proteomic profiles from different types of PEs would accelerate discovery of potential PE biomarkers specifically used to diagnose pulmonary disorders. Using quantitative proteomic approaches, we identified 772 nonredundant proteins from six types of exudative PEs, including three malignant PEs (MPE, from lung, breast, and gastric cancers), one lung cancer paramalignant PE, and two benign diseases (tuberculosis and pneumonia). Spectral counting was utilized to semiquantify PE protein levels. Principal component analysis, hierarchical clustering, and Gene Ontology of cellular process analyses revealed differential levels and functional profiling of proteins in each type of PE. We identified 30 candidate proteins with twofold higher levels (q
