10.1021/pr5006789.s010 Veneta Qendro Veneta Qendro Deborah H. Lundgren Deborah H. Lundgren Karim Rezaul Karim Rezaul Forrest Mahony Forrest Mahony Nicholas Ferrell Nicholas Ferrell Andrew Bi Andrew Bi Ardian Latifi Ardian Latifi Daniyal Chowdhury Daniyal Chowdhury Steven Gygi Steven Gygi Wilhelm Haas Wilhelm Haas Lori Wilson Lori Wilson Michael Murphy Michael Murphy David K. Han David K. Han Large-Scale Proteomic Characterization of Melanoma Expressed Proteins Reveals Nestin and Vimentin as Biomarkers That Can Potentially Distinguish Melanoma Subtypes American Chemical Society 2014 literature mining tandem mass spectrometry protein biomarkers melanoma cell lines research community melanoma subtypes metastatic melanoma tumor skin cancer cases melanoma aggressiveness 40 melanoma samples histone H 2A Validation skin cancer deaths melanoma biomarkers skin cancer Distinguish Melanoma SubtypesMelanoma Correlating protein expression IV melanoma cell line protein expression 2014-11-07 00:00:00 Dataset https://acs.figshare.com/articles/dataset/Large_Scale_Proteomic_Characterization_of_Melanoma_Expressed_Proteins_Reveals_Nestin_and_Vimentin_as_Biomarkers_That_Can_Potentially_Distinguish_Melanoma_Subtypes/2238583 Melanoma is an aggressive type of skin cancer, which accounts for only 4% of skin cancer cases but causes around 75% of skin cancer deaths. Currently, there is a limited set of protein biomarkers that can distinguish melanoma subtypes and provide an accurate prognosis of melanoma. Thus, we have selected and profiled the proteomes of five different melanoma cell lines from different stages of progression in comparison with a normal melanocytes using tandem mass spectrometry. We also profiled the proteome of a solid metastatic melanoma tumor. This resulted in the identification of 4758 unique proteins, among which ∼200–300 differentially expressed proteins from each set were found by quantitative proteomics. Correlating protein expression with aggressiveness of each melanoma cell line and literature mining resulted in the final selection of six proteins: vimentin, nestin, fibronectin, annexin A1, dipeptidyl peptidase IV, and histone H2A1B. Validation of nestin and vimentin using 40 melanoma samples revealed pattern of protein expression can help predict melanoma aggressiveness in different subgroups of melanoma. These results, together with the combined list of 4758 expressed proteins, provide a valuable resource for selecting melanoma biomarkers in the future for the clinical and research community.