detection and diagnosis of diseases and neurological disorders, such as amyotrophic lateral sclerosis (ALS) and Alzheimer's. SELDI-TOF-MS can also be used in biological applications to detect post-translationally modified proteins and to study phosphorylation states of proteins. Advantages A major advantage of the SELDI process is the chromatographic separation step. While liquid chromatography-mass spectrometry (LC-MS) is based on the elution of analytes in the separated sample, separation in SELDI is based on retention. Any sample components that interfere with analytical measurements, such as salts, detergents, and buffers, are washed away before analysis with mass spectrometry. Only the analytes that are bound to the surface are analyzed, reducing the overall complexity of the sample. As a result, there is an increased probability of detecting analytes that are present in lower concentrations. Because of the initial separation step, protein profiles can be obtained from samples of as few as 25-50 cells. In biological applications, SELDI-TOF-MS has a major advantage in that the technique does not require the use of radioactive isotopes. Furthermore, an assay can be sampled at multiple time points during an experiment. Additionally, in proteomics, the biomarker discovery, identification, and validation steps can all be done on the SELDI surface. Limitations SELDI is often criticized for its reproducibility due to differences in the mass spectra obtained when using different batches of chip surfaces. While the method has been successful with analyzing low molecular weight proteins, consistent results have not been obtained when analyzing high molecular weight proteins. There also exists a potential for sample bias, as nonspecific absorption matrices favor the binding of analytes with higher abundances in the sample at the expense of less abundant analytes. While SELDI-TOF-MS has detection limits in the femtomolar range, the baseline signal in the spectra varies and noise due to the matrix is maximal below 2000 Da, with Ciphergen Biosystems suggesting to ignore spectral peaks below 2000 Da. See also Soft laser desorption List of mass spectrometry software References Proteomics Biochemistry methods Proteins Ion source