[1] Soyer O.S. and Bonhoeffer S., “Evolution of complexity in signaling pathways”, PNAS
USA, 103, 44, 16337-16342, 2006.
[2] Dickson R.C., Sumanasekera C. and Lester R.L., “Functions and metabolism of
sphingolipids in Saccharomyces cerevisiae”, Progress in Lipid Research, 45, 447–465,
2006.
[3] Cowart L. Ashley and Obeid L.M., “Yeast Sphingolipids: Recent developments in
understanding biosynthesis, regulation, and function”, Biochim Biophys Acta, 1771, 3,
421-431, 2007.
[4] Merrill A.H., Jr., Sullards M.C., Allegood J.C., Kelly S. and Wang E.,
“Sphingolipidomics: High-throughput, structure-specific, and quantitative analysis of
sphingolipids by liquid chromatography tandem mass spectrometry”, Methods, 36, 235–
245, 2005.
[5] Obeid L.M., Okamoto Y. and Mao C., “Yeast sphingolipids: metabolism and biology”,
Biochimica et Biophysica Acta, 1585, 163-171, 2002.
[6] Kihara A. and Igarashi Y., “FVT-1 Is a Mammalian 3-Ketodihydrosphingosine Reductase
with an Active Site That Faces the Cytosolic Side of the Endoplasmic Reticulum
Membrane”, Journal of Biological Chemistry, 279, 49243-49250, 2004.
[7] Colombaionia L. and Garcia-Gil M., “Sphingolipid metabolites in neural signalling and
function”, Brain Research Reviews, 46, 328–355, 2004.
[8] Breitkreutz B.J., Stark C. and Tyers M., “The GRID: The General Repository for
Interaction Datasets”, Genome Biol, 4: R23, 2003.
[9] Güldener U., Munsterkotter M., Kastenmuller G., Strack N., van Helden J., Lemer C.,
Richellse J., Wodak S.J., Garcia-Martinez J., Perez-Ortin J.E., Michael H., Kaps A., Talla
E., Dujon B., Andre B., Souciet J.L., De Montigny J., Bon E., Gaillardin C. and Mewes
H.W., “CYGD: The comprehensive Yeast Genome Database”, Nucleic Acids Res, 33,
364-368, 2005.
[10] Cherry J.M., Ball C., Weng S., Juvik G., R., Adler C., Dunn B., Dwight S., Riles L.,
Mortimer R.K., and Botstein D., “Genetic and physical maps of Saccharomyces
cerevisiae”, Nature, 387, 67-73, 1997.
[11] Salwinski L., Miller C.S., Smith A.J., Pettit F.K., Bowie J.U., and Eisenberg D., “The
Database of Interacting Proteins: 2004 update”, Nucleic Acids Res, 32, 449-451, 2004.
[12] von Mering C., Jensen L.J., Snel B., Hooper S.D., Krupp M., Foglierini M., Jouffre N.,
Huynen M.A., and Bork P., “STRING: known and predicted protein-protein associations,
integrated and transferred across organisms”, Nucleic Acids Res, 33, 433-437, 2005.
[13] Ashburner M.,. Ball C.A, Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P.,
Dolinski K., Dwight S.S., Eppig J.T., Harris M.A., Hill D.P., Issel-Traver L., Kasarskis
A., Lewis S., Matese J.C., Richardson J.E., Ringwald M., Rubin G.M., and Sherlock G.,
“Gene Ontology: tool for the unification of biology”, Nat. Genet., 25, 25-29, 2000.
[14] Arga K.Y, Önsan Z.İ., Kırdar B., Ülgen K.Ö., and Nielsen J., “Understanding signaling in
yeast: Insights from network analysis”, Biotechnology and Bioengineering, 97, 1246-
1258, 2007.
[15] Breitkreutz B., Stark C. and Tyers M., “The GRID: the general repository for interaction
datasets”, Genome Biol., Vol. 4, pp. R23, 2003.
[16] Liu Y. and Zhao H., “A computational approach for ordering signal transduction pathway
components from genomics and proteomics data”, BMC Bioinformatics, 5, 158-163,
2004.
[17] Marcotte E.M., Pellegrini M., Thompson M.J., Yeates T.O. and Eisenberg D., “A
combined algorithm for genome-wide prediction of protein function”, Nature, 402, 83-86,
1999.
[18] Troyanskaya O.G., Dolinski K., Owen A.B., Altman R.B. and Botstein D., “A bayesian
framework for combining heterogeneous data sources for gene function prediction (in
Saccharomyces cerevisiae)”, Proc. Natl. Acad. Sci. USA, 100, 8348-8353, 2003.
[19] Deng, M., Zhang K., Mehta S., Chen T. and Sun F.,“Prediction of protein function using
protein-protein interaction data”, J. Comput. Biol., 10, 947-960, 2003.
[20] Nabieva E., Jim K., Agarwal A., Chazelle B. and Singh M., “Whole-proteome prediction
of protein function via graph-theoretic analysis of interaction maps”, Bioinformatics,
21,i302-i310, 2005.
[21] von Mering C., Krause R., Snel B., Cornell M., Oliver S.G., Fields S. and Bork P.,
“Comparative assessment of large-scale data sets of protein-protein interactions”, Nature,
417, 399-403, 2002.
[22] Sprinzak E., Sattath S. and Margalit H., “How reliable are experimental protein-protein
interaction data?”, J. Mol. Biol., 327, 919-923, 2003.
[23] Deane C.M., Salwinski L., Xenarios I. and Eisenberg D., “Protein interactions: two
methods for assessment of the reliability of high throughput observations”, Mol. Cell
Proteomics, 1, 349-356, 2002.
[24] Bader J.S., Chaudhuri A., Rothberg J.M. and Chant J., “Gaining confidence in highthroughput protein interaction networks”, Nat. Biotechnol., 22, 78-85, 2004.
[25] Patil A. and Nakamura H., “Filtering high-throughput protein-protein interaction data
using a combination of genomic features”, BMC Bioinformatics, 6, 100, 2005.
[26] Jansen R., Yu H., Greenbaum D., Kluger Y., Krogan N.J., Chung S., Emili A., Snyder M.,
Greenblatt J.F. and Gerstein M., “A bayesian networks approach for predicting proteinprotein interactions from genomic data”, Science, 302, 449-453, 2003.
[27] Lu L.J., Xia Y., Paccanaro A., Yu H. and Gerstein M., “Assessing the limits of genomic
data integration for predicting protein networks”, Genome Res., 15, 945-953, 2005.
[28] Huh W., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S. and O’Shea
E.K., “Global analysis of protein localization in budding yeast”, Nature, 425, 686-691,
2003.
[29] Jin H., McCaffery J.M. and Grote E., “Ergosterol promotes pheromone signaling and
plasma membrane fusion in mating yeast “, The Journal of Cell Biology, 180, 4, 813-826,
2008.
[30] Betz C., Zajonc D., Moll M. and Schweizer E., “ISC1-encoded inositol
phosphosphingolipid phospholipase C is involved in Na+
/Li+
halotolerance of
Saccharomyces cerevisiae”, Eur. J. Biochem, 269, 4033–4039, 2002.
[31] Aronova S., Wedaman K. , Aronov P.A. , Fontes K. , Ramos K. , Hammock B.D. and
Powers T., “Regulation of Ceramide Biosynthesis by TOR Complex 2”, Cell Metabolism,
7, 148-158, 2008.
[32] Kamada Y., Fujioka Y., Suzuki N.N., Inagaki F., Wullschleger S., Loewith R., Hall M.N.,
and Ohsumi Y., Biology, 25, 16, 7239–7248, 2005.
[33] Birchwood C.J., Saba J.D., Dickson R.C., and Cunningham K.W., ”Calcium Influx and
Signaling in Yeast Stimulated by Intracellular Sphingosine 1-Phosphate Accumulation”,
The Journal of Biological Chemistry, 276, 15, 11712–11718, 2001.
[34] Tatebayashi K., Takekawa M. and Saito H., “A docking site determining specificity of
Pbs2 MAPKK for Ssk2/Ssk22 MAPKKKs in the yeast HOG pathway”, EMBO J., 22, 14,
3624-3634, 2003.
[35] Van Drogen F., Stucke V.M., Jorritsma G. and Peter M., “MAP kinase dynamics in
response to pheromones in budding yeast”, Nat. Cell Biol., 3, 12, 1051-1059, 2001.
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