Proteomics large scale

Wilkins MR et al (1996) From proteins to proteomes large scale protein identification by two-dimensional electrophoresis and amino acid analysis. BioTechnol 14 61-65... 

Wolters, D.A., Washburn, M.P, Yates, J.R., 3rd, Wolters, D. (2001). An automated multidimensional protein identification technology for shotgun proteomics. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Anal. Chem. 73, 5683-5690. 

Wilkins MR, Pasquali C, Appel RD, Ou K, Golaz O, Sanchez JC, Yan JX, Gooley AA, Hughes G, Humphery-Smith I, Williams KL, Hochstrasser DF. 1996. From proteins to proteomes Large scale protein identification by two-dimensional electrophoresis and amino acid analysis. Biotechnology (NY) 14 61-65. 

From proteins to proteomes - large-scale protein identification by 2-dimensional electrophoresis and amino-add-analysis. Bio-Technology 14, 61-65. 

Concerning function integration, for example, micro-flow membrane reactors can exhibit similar process intensification, as shown already for their large-scale counterparts [75]. Separation columns for proteomics, immobilizing enzymes, utilize the large surface-to-volume ratios. Surface tension differences can guide and transport liquids selectively. 

Gu, S Du, Y Chen, J., Liu, Z Bradbury, E.M., Hu, C.A., Chen, X. (2004). Large-scale quantitative proteomic study of PUMA-induced apoptosis using two-dimensional liquid chromatography—mass spectrometry coupled with amino acid-coded mass tagging. J. Proteome Res. 3, 1191 1200. 

Kislinger, T., Rahman, K., Radulovic, D., Cox, B., Rossant, J., Emili, A. (2003). PRISM, a generic large scale proteomic investigation strategy for mammals. Mol. Cell. Proteomics 2, 96-106. 

Mawuenyega, K.G., Kaji, H., Yamuchi, Y., Shinkawa, T., Saito, H., Taoka, M., Takahashi, N., Isobe, T. (2003). Large-scale identification of Caenorhabditis elegans proteins by multidimensional liquid chromatography—tandem mass spectrometry. J. Proteome Res. 2, 23-35. 

Peng, J., Elias, J.E., Thoreen, C.C., Licklider, L.J., Gygi, S.P. (2003). Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC—MS/MS) for large-scale protein analysis the yeast proteome. J. Proteome Res. 2, 43-50. 

Von Haller, P.D., Yi, E., Donohoe, S., Vaughn, K., Keller, A., Nesvizhskii, A.I., Eng, J., Li, X.J., Goodlett, D.R., Aebersold, R., Watts, J.D. (2003). The Application of New Software Tools to Quantitative Protein Profiling Via Isotope-coded Affinity Tag (ICAT) and Tandem Mass Spectrometry II. Evaluation of Tandem Mass Spectrometry Methodologies for Large-Scale Protein Analysis, and the Application of Statistical Tools for Data Analysis and Interpretation. Mol. Cell. Proteomics 2, 428 -42. 

Although classic two-dimensional gel electrophoresis provides exquisite peak capacity, it suffers from several limitations. First, the technology is labor-intensive and difficult to automate, which hampers applications to large-scale proteomics analyses (Hanash, 2000). 

Goo YA, Li Z, Pajkovic N, Shaffer S, Taylor G, Chen J, Campbell D, Arnstein L, Goodlett DR and van Breemen R. 2007. Systematic investigation of lycopene effects in LNCaP cells by use of novel large-scale proteomic analysis software. Proteomics Clin Appl 1 513-523. 

Related to the discipline of proteomics is that of structural genomics. The latter focuses upon the large-scale systematic study of gene product structure. While this embraces rRNA and tRNA,... 

The sample materials from which proteins for proteomics studies may be extracted include fresh or snap-frozen cells from varied sources such as biological fluids, (serum, urine, plasma) and solid tissues such as biopsy specimens. Moreover, proteins isolated from ethanol-fixed paraffin-embedded tissues can be utilized for MS analysis.2 Protocols for the identification of proteins from formalin-fixed paraffin-embedded (FFPE) tissues have been recently developed.3 4 FFPE materials are the most common forms of biopsy archives utilized worldwide, and represent an important advancement for the large-scale interrogation of proteins in archival patient-derived materials. Finally, laser capture microdissected tissues have been successfully used for MS analysis.45... 

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