Enabling proteomics discovery through visual analysis

IEEE Engineering in Medicine and Biology Magazine

Volumn 24, Issue 3, 2005, Pages 50-57

  Havre, Susan L ^a,b   Singhal, Mudita ^c   Payne, Deborah A ^d   Lipton, Mary S Weir ^a,e   Webb Robertson, Bobbie Jo M ^a  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^b ASSOCIATION FOR COMPUTING MACHINERY   (United States)

^c Scientific Computing and Engineering Group at PNNL

^d Visual Analytics Group at PNNL

^e Protein Society   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELLULAR PROCESSES; DATA VALIDATION; PROTEOMICS; SYSTEMS BIOLOGY; VISUAL ANALYSIS;

CELLS; DATA MINING; DATA REDUCTION; MEDICAL IMAGING; QUALITY CONTROL; VISUAL COMMUNICATION;

PROTEINS;

PEPTIDE; PROTEIN; PROTEOME;

AMINO ACID SEQUENCE; GENE SEQUENCE; GENETIC ANALYSIS; GENOMICS; HUMAN GENOME; MASS SPECTROMETRY; PEPTIDE ANALYSIS; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEOMICS; REVIEW; STRUCTURE ANALYSIS;

ALGORITHMS; COMPUTER GRAPHICS; GENE EXPRESSION PROFILING; MASS SPECTROMETRY; PEPTIDES; PROTEINS; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN; SOFTWARE; SYSTEMS BIOLOGY; USER-COMPUTER INTERFACE;

EID: 20644461252     PISSN: 07395175     EISSN: None     Source Type: Journal    
DOI: 10.1109/MEMB.2005.1436460     Document Type: Review

References (8)

1. D.W. Speicher. "Proteomics: An infinite problem with infinite potential," Scientist, vol. 16, no. 8, p. 12, 2002.
2. J.R. Yates, J.K. Eng, A.L. McCormack, and D. Schieltz, "Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database," Anal. Chem., vol. 67, no. 8, pp. 1426-1436, 1995.
3. P.A. Pevzner, Z. Mulyukov, V, Dancik, and C.L. Tang, "Efficiency of database search for identification of mutated and modified proteins via mass spectrometry," Genome Res., vol. 11, no. 2, pp. 290-299, 2001.
4. S.K. Card, J.D. Mackinlay, and B. Shneiderman, Readings in Information Visualization: Using Vision to Think. San Francisco: Morgan Kaufmann, 1999.
5. C. Ware, Information Visualization: Perception for Design. San Francisco: Morgan Kaufmann, 2000.
6. K. Rutherford, J. Parkhill, J. Crook, T. Horsnell, P. Rice, M.A. Rajandream, and B. Barrell, "Artemis: Sequence visualization and annotation," Bioinform., vol. 16, no. 10. pp. 944-945, 2000.
7. J.D. Jaffe, H.C. Berg, and G.M. Church, "Proteogenomic mapping as a complementary method to perform genome annotation," Proteomics, vol. 4, no. 1, pp. 59-77, 2004.
8. K.S. Deshpande, H.C. Harsha, and A. Pandey, "Microarrays and mass spectrometry - The future of proteomics," Current Genomics, vol. 4, no. 7, pp. 605-613, 2003.