Disease genes and intracellular protein networks

Physiological Genomics

Volumn 15, Issue , 2004, Pages 223-227

  Bortoluzzi, S ^a   Romualdi, C ^a   Bisognin, A ^a   Danieli, G A ^a  

^a UNIVERSITY OF PADOVA   (Italy)

Author keywords

Gene expression; Mendelian disease; Protein network

Indexed keywords

CELL PROTEIN;

ADULT; ARTICLE; DNA LIBRARY; GENE ACTIVITY; GENE EXPRESSION; GENE LOCATION; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; GENOME; HUMAN; HUMAN TISSUE; PRIORITY JOURNAL; PROTEIN LOCALIZATION; PROTEIN STABILITY;

EID: 0345871420     PISSN: 15312267     EISSN: None     Source Type: Journal    
DOI: 10.1152/physiolgenomics.00095.2003     Document Type: Article

References (27)

1. Albert R, Jeong H, and Barabasi AL. Error and attack tolerance of complex networks. Nature 406: 378-382, 2000.
2. Boguski MS and Schuler GD. ESTablishing a human transcript map. Nat Genet 10: 369-371, 1995.
3. Bortoluzzi S, d'Alessi F, and Danieli GA. A computational reconstruction of the adult human heart transcriptional profile. J Mol Cell Cardiol 32: 1931-1938, 2000.
4. Bortoluzzi S, d'Alessi F, and Danieli GA. A novel resource for the study of genes expressed in the adult human retina. Invest Ophthalmol Vis Sci 41: 3305-3308, 2000.
5. Bortoluzzi S, d'Alessi F, Romualdi C, and Danieli GA. The human adult skeletal muscle transcriptional profile reconstructed by a novel computational approach. Genome Res 10: 344-349, 2000.
6. Eisenberg D, Marcotte EM, Xenarios I, and Yeates TO. Protein function in the post-genomic era. Nature 405: 823-826, 2000.
7. Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, Bauer A, Schultz J, Rick JM, Michon AM, Cruciat CM, Remor M, Hofert C, Schelder M, Brajenovic M, Ruffner H, Merino A, Klein K, Hudak M, Dickson D, Rudi T, Gnau V, Bauch A, Bastuck S, Huhse B, Leutwein C, Heurtier MA, Copley RR, Edelmann A, Querfurth E, Rybin V, Drewes G, Raida M, Bouwmeester T, Bork P, Seraphin B, Kuster B, Neubauer G, and Superti-Furga G. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415: 141-147, 2002.
8. Ge H, Liu Z, Church GM, and Vidal M. Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. Nat Genet 29: 482-486, 2001.
9. Gonzalez-Gaitan M, Rothe M, Wimmer EA, Taubert H, and Jackle H. Redundant functions of the genes knirps and knirps-related for the establishment of anterior Drosophila head structures. Proc Natl Acad Sci USA 91: 8567-8571, 1994.
10. Grigoriev A. A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae. Nucleic Acids Res 29: 3513-3519, 2001.
11. Gygi SP, Rochon Y, Franza BR, and Aebersold R. Correlation between protein and mRNA abundance in yeast. Mol Cell Biol 19: 1720-1730, 1999.
12. Hartwell LH, Hopfield JJ, Leibler S, and Murray AW. From molecular to modular cell biology. Nature Suppl 402: C47-C52, 1999.
13. Ho Y, Gruhler A, Heilbut A, Bader GD, Moore L, Adams SL, Millar A, Taylor P, Bennett K, Boutilier Yang L, Wolting C, Donaldson I, Schandorff S, Shewnarane J, Vo M, Taggart J, Goudreault M, Muskat B, Alfarano C, Dewar D, Lin Z, Michalickova K, Willems AR, Sassi H, Nielsen PA, Rasmussen KJ, Andersen JR, Johansen LE, Hansen LH, Jespersen H, Podtelejnikov A, Nielsen E, Crawford J, Poulsen V, Sorensen BD, Matthiesen J, Hendrickson RC, Gleeson F, Pawson T, Moran MF, Durocher D, Mann M, Hogue CW, Figeys D, and Tyers M. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415: 180-183, 2002.
14. Hsiao LL, Dangond F, Yoshida T, Hong R, Jensen RV, Misra J, Dillon W, Lee KF, Clark KE, Haverty P, Weng Z, Mutter GL, Frosch MP, Macdonald ME, Milford EL, Crum CP, Bueno R, Pratt RE, Mahadevappa M, Warrington JA, Stephanopoulos G, Stephanopoulos G, and Gullans SR. A compendium of gene expression in normal human tissues. Physiol Genomics 7: 97-104, 2001. First published October 2, 2001; 10.1152/physiolgenomics.00040.2001.
15. Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, and Sakaki Y. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci USA 98: 4569-4574, 2001.
16. Jeong H, Mason SP, Parabasi AL, and Oltvai ZN. Lethality and centrality in protein networks. Nature 411: 41-42, 2001.
17. Jeong H, Tombor B, Albert R, Oltvai ZN, and Barabasi AL. The large-scale organization of metabolic networks. Nature 407: 651-654, 2000.
18. Liang S, Fuhrman S, and Somogyi R. Reveal, a general reverse engineering algorithm for inference of genetic network architectures. Pac Symp Biocomput 3: 18-29, 1998.
19. Pruitt KD and Maglott DR. RefSeq and LocusLink: NCBI gene-centered resources. Nucleic Acids Res 29: 137-140, 2001.
20. Romualdi C, Bortoluzzi S, and Danieli GA. Detecting differentially expressed genes in multiple tag sampling experiments: comparative evaluation of statistical tests. Hum Mol Genet 10: 2133-2141, 2001.
21. Romualdi C, Bortoluzzi S, d'Alessi F, and Danieli GA. IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments. Physiol Genomics 12: 159-162, 2003. First published November 12, 2002; 10.1152/physiolgenomics.00096.2002.
22. Rung J, Schlitt T, Brazma A, Freivalds K, and Vilo J. Building and analysing genome-wide gene disruption networks. Bioinformatics Suppl 2: S202-S210, 2002.
23. Saga Y, Yagi T, Ikawa Y, Sakakura T, and Aizawa S. Mice develop normally without tenascin. Genes Dev 6: 1821-1831, 1992.
24. Szallasi Z. Genetic network analysis in light of massively parallel biological data acquisition. Pac Symp Biocomput 4: 5-16, 1999.
25. Tong AH, Drees B, Nardelli G, Bader GD, Brannetti B, Castagnoli L, Evangelista M, Ferracuti S, Nelson B, Paoluzi S, Quondam M, Zucconi A, Hogue CW, Fields S, Boone C, and Cesareni G. A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules. Science 295: 321-324, 2002.
26. Wagner A. Robustness against mutations in genetic networks of yeast. Nat Genet 24: 355-361, 2000.
27. Wang YK, Schnegelsberg PNJ, Dausman J, and Jaenisch R. Functional redundancy of the muscle-specific transcription factors myf5 and myogenin. Nature 379: 823-825, 1996.