In this paper, we introduce the concept of Single Channel Independent Component Analysis (SCICA) for fast extraction of protein profiles from the mass spectra data. Subsequently we propose one offset-correction scheme on the basis of the statistical data analysis of the SCICA-based estimated protein profiles to ensure robustness of the proposed algorithm. The proposed method is also validated rigorously against the simulated data. Such concept, to the best of our knowledge is proposed for the first time in this context of protein profiling and we envisage that the proposed concept will find potential applications in bio-marker discovery especially for cancers.