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Title: "VIRTUAL2D" - A web accessible predictive database for proteomic analysis | P104 |
Medjahed, Djamel; Smythers, Gary; Powel,l Douglas; Lemkin, Peter; Munroe, David medjahed@ncifcrf.gov NCI, Frederick Cancer Research and Development Center |
| The available archive of sequence databases compiled from whole genome projects and budding proteomics efforts have enabled us to develop VIRTUAL2D, an interactive system for the assembly of virtual protein expression maps (PEM) computed on the basis of theoretical isoelectric focusing point, molecular weight, tissue specificity and relative abundance for any set of proteins currently catalogued. This tool will assist in the preliminary, albeit putative, prediction of the identity and location of unknown and/or low-abundance proteins in experimentally derived two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) maps. |
| [1] O'Farrell, P.H. 1975, J. Biol. Chem, 1975 250: 4007. [2] O'Farrell, P.Z., Goodman, H.M., O'Farrell, P.H., Cell, 1977,12: 1133. [3] Aebersold, R., Rist, B., Gygi, S.P., Ann N Y Acad Sci 2000, 919:33-47. [4] Bussow, K., Trends Biotechnol, 2001 Sep;19(9):328-329. [5] Fivaz, M., Vilbois F., Pasquali, C., van der Goot, F.G., Electrophoresis, 2000 21(16):3351-3356. [6] Kriegel, K., Seefeldt, I., Hoffmann, F., Schultz, C., Wenk, C., Regitz-Zagrosek, V., Oswald, H., Fleck, E., Electrophoresis, 2000 13, 2637-2640. [7] Dihazi, H., Kessler, R., Eschrich, K., Anal Biochem, 2001, 299(2), 260-263. [8] Angelis, F.D., Tullio, A.D., Spano, L., Tucci, A. J., Mass Spectrom, 2001, 36(11), 1241-1248. [9] Weiller, G.F., Djordjevic, M.J., Caraux, G., Chen, H., Weinman, J.J., Proteomics, 2001, 12, 1489-1494. [10] Wulfkuhle, J.D., McLean, K.C., Paweletz, C.P., Sgroi, D.C., Trock, B.J., Steeg, P.S., Petricoin, E.F. 3rd., Proteomics 2000, 10, 1205-1215. [11] WORLD-2DPAGE. Index to 2-D PAGE databases and services http://www.expasy.ch/ ch2d/2d-index.htm. [12] A typical case can be found at http://www.expasy.ch/cgibin/map2/def?HEPG2_HUMAN. [13] Gorg, A., Obermaier, C., Boguth, G., Harder, A., Scheibe, B., Wildruber, R., Weiss, W., Electrophoresis, 2000, 6, 1037-1053. [14] Bjellqvist, B., Sanchez,.J.C, Pasquali, C., Ravier, F., Paquet, N., Frutiger, S., Hughes, G.J, Hoschstrasser, D.F., Electrophoresis 1993, 14, 1375-1378. [15] Information about SRS can be found at http://www.lionbioscience.com/solutions/srs . [16] Bairoch, A., Apweiler, R., Nucleic Acids Res, 2000, 28, 45-48. [17] PI/MW is part of EXPASY's proteomics tools and can be accessed at http://www.expasy.ch/ tools/pi_tool.html. [18] NCBI's Unigene database can be accessed at http://www.ncbi.nlm.nih.gov/UniGene. [19] VanBogelen, A.R., Abshire, Z.A., Moldover, B., Olson, R.E., Neidhardt, C.F., Electrophoresis 1997, 18, 1243-1251. [20] Bairoch, A., in: Wilkins, M.R., Williams, K.L., Appel, R.D., Hochstrasser, D.F. (Eds.), Proteome Research: New Frontiers in Functional Genomics, Springer-Verlag Berlin Heidelberg, pp. 93-148. [21] Information on SPSS (Statistical Package for the Social Sciences) can be accessed at http://www.spss.com/. [22] Lemkin, P.F., Thornwall, G., Walton, K., Hennighausen, L,. Nucleic Acids Research, 2000, 22, 4452-4459. http://www-lecb.ncifcrf.gov/MAExplorer/ [23] Ptplot is a 2D data plotter and histogram tool implemented in Java that can be accessed at http://ptolemy.eecs.berkeley.edu/java/ptplot/ [24] Information on Melanie (Geneva Bioinformatics) can be found at http://www.expasy.ch/melanie/. [25] Information about Z3 is available at http://www.2dgels.com/ [26] Information on Delta2D from Decodon, Germany can be obtained by accessing their web site located at http://www.decodon.com/ [27] Reymond M.A., Sanchez J.-C., Hughes G.J., Riese J., Tortola S., Peinado M.A., Kirchner T., Hohenberger W., Hochstrasser D.F., Kockerling F., Electrophoresis 1997, 18, 2842-2848. [28] Anderson, L., Seilhamer,J. Electrophoresis 1997, 18, 533-537, 111853-11861 [29] Schuler, G.D. J Mol Med 1997, 75(10),694-698. [30] Boguski, M.S., Schuler, G.D., Nat Genetics 1995, 10, 369-371. [31] An extensive body of information about the origin, statistics and current research methodologies in most commonly diagnosed types of cancers can be found at http://nci.nih.gov [32] Strausberg, R.L., Dahl, C.A., Klausner, R.D. 1997, Nat Genetics, Apr;15 Spec No:415-416. |