-
1
-
-
14844325783
-
From protein networks to biological systems
-
Uetz P, Finley RL, Jr (2005) From protein networks to biological systems. FEBS Lett 579:1821-1827.
-
(2005)
FEBS Lett
, vol.579
, pp. 1821-1827
-
-
Uetz, P.1
Finley Jr, R.L.2
-
2
-
-
2942582560
-
A structural perspective on protein-protein interactions
-
Russel RB, et al. (2004) A structural perspective on protein-protein interactions. Curr Opin Struct Biol 14:313-324.
-
(2004)
Curr Opin Struct Biol
, vol.14
, pp. 313-324
-
-
Russel, R.B.1
-
3
-
-
27144530248
-
Towards a proteome-scale map of the human protein-protein interaction network
-
Rual J-F, et al. (2005) Towards a proteome-scale map of the human protein-protein interaction network. Nature 437:1173-1178.
-
(2005)
Nature
, vol.437
, pp. 1173-1178
-
-
Rual, J.-F.1
-
4
-
-
0032489015
-
The cell as a collection of protein machines: Preparing the next generation of molecular biologists
-
Alberts B (1998) The cell as a collection of protein machines: Preparing the next generation of molecular biologists. Cell 92:291-294.
-
(1998)
Cell
, vol.92
, pp. 291-294
-
-
Alberts, B.1
-
5
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
Gavin A-C, et al. (2002) Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415:141-146.
-
(2002)
Nature
, vol.415
, pp. 141-146
-
-
Gavin, A.-C.1
-
6
-
-
33644555054
-
Proteome survey reveals modularity of the yeast cell machinery
-
Gavin A-C, et al. (2006) Proteome survey reveals modularity of the yeast cell machinery. Nature 440:631-636.
-
(2006)
Nature
, vol.440
, pp. 631-636
-
-
Gavin, A.-C.1
-
7
-
-
33645453254
-
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae
-
Krogan NJ, et al. (2006) Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440:637-643.
-
(2006)
Nature
, vol.440
, pp. 637-643
-
-
Krogan, N.J.1
-
8
-
-
34248199267
-
Molecular chaperones: The modular evolution of cellular networks
-
Korcsmáros T, Kovács IA, Szalay MS, Csermely P (2007) Molecular chaperones: The modular evolution of cellular networks. J Biosci32:441-446.
-
(2007)
J Biosci
, vol.32
, pp. 441-446
-
-
Korcsmáros, T.1
Kovács, I.A.2
Szalay, M.S.3
Csermely, P.4
-
9
-
-
0742305866
-
Network biology: Understanding the cell's functional organization
-
Barabási A-L, Oltvai ZN (2004) Network biology: Understanding the cell's functional organization. Nat Rev Genet 112:101-114.
-
(2004)
Nat Rev Genet
, vol.112
, pp. 101-114
-
-
Barabási, A.-L.1
Oltvai, Z.N.2
-
10
-
-
9144264843
-
-
Hertz-Fowler C, et al. (2004) GeneDB: A resource for prokaryotic and eukaryotic organisms. Nucleic Acids Res 32 (database issue):D339-D343.
-
Hertz-Fowler C, et al. (2004) GeneDB: A resource for prokaryotic and eukaryotic organisms. Nucleic Acids Res 32 (database issue):D339-D343.
-
-
-
-
11
-
-
0034717044
-
Gatekeepers of the nucleus
-
Wente SR (2000) Gatekeepers of the nucleus. Science 288:1374-1377.
-
(2000)
Science
, vol.288
, pp. 1374-1377
-
-
Wente, S.R.1
-
12
-
-
0036289351
-
Hog1 kinase converts the Sko1-Cyc8-Tup1 repressor complex into an activator that recruits SAGA and SWI/SNF in response to osmotic stress
-
ProftM, Struhl K (2002) Hog1 kinase converts the Sko1-Cyc8-Tup1 repressor complex into an activator that recruits SAGA and SWI/SNF in response to osmotic stress. Mol Cell 9:1307-1317.
-
(2002)
Mol Cell
, vol.9
, pp. 1307-1317
-
-
Proft, M.1
Struhl, K.2
-
13
-
-
33750290326
-
Mitogen-activated protein kinase Hog1 is essential for the response to arsenite in Saccharomyces cerevisiae
-
SoteloJ, Rodríguez-Gabriel MA (2006) Mitogen-activated protein kinase Hog1 is essential for the response to arsenite in Saccharomyces cerevisiae. Eukaryot Cell5:1826-1830.
-
(2006)
Eukaryot Cell
, vol.5
, pp. 1826-1830
-
-
SoteloJ1
Rodríguez-Gabriel, M.A.2
-
14
-
-
0035721915
-
Defects in glycosylphosphatidylinositol (GPI) anchor synthesis activateHog1 kinase and confer copper-resistance in Saccharomyces cerevisiae
-
Toh-eA, Oguchi T(2001) Defects in glycosylphosphatidylinositol (GPI) anchor synthesis activateHog1 kinase and confer copper-resistance in Saccharomyces cerevisiae. Genes Genet Syst 76:393-410.
-
(2001)
Genes Genet Syst
, vol.76
, pp. 393-410
-
-
eA, T.1
Oguchi, T.2
-
15
-
-
2642554557
-
The Hog1 MAP kinase pathway and the Mec1 DNA damage checkpoint pathway independently control the cellular responses to hydrogen peroxide
-
Haghnazari E, Heyer WD (2004) The Hog1 MAP kinase pathway and the Mec1 DNA damage checkpoint pathway independently control the cellular responses to hydrogen peroxide. DNA Repair (Amst)3:769-776.
-
(2004)
DNA Repair (Amst)
, vol.3
, pp. 769-776
-
-
Haghnazari, E.1
Heyer, W.D.2
-
16
-
-
1842453025
-
Evidence of a new role for the high - osmolarity glycerol mitogen-activated protein kinasepathwayin yeast: Regulating adaptation to citric acid stress
-
Lawrence CL, Botting CH, AntrobusR, Coote PJ (2004) Evidence of a new role for the high - osmolarity glycerol mitogen-activated protein kinasepathwayin yeast: Regulating adaptation to citric acid stress. Mol Cell Biol 24:3307-3323.
-
(2004)
Mol Cell Biol
, vol.24
, pp. 3307-3323
-
-
Lawrence, C.L.1
Botting, C.H.2
Antrobus, R.3
Coote, P.J.4
-
17
-
-
0036081347
-
MIPS: A database for genomes and protein sequences
-
Mewes HW, et al. (2002) MIPS: A database for genomes and protein sequences. Nucleic Acids Res30:31-34.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 31-34
-
-
Mewes, H.W.1
-
18
-
-
13244284551
-
Dynamic complexformation during the yeast cell cycle
-
Lichtenberg U, Jensen LJ, Brunak S, Bork P (2005) Dynamic complexformation during the yeast cell cycle. Science 307:724-727.
-
(2005)
Science
, vol.307
, pp. 724-727
-
-
Lichtenberg, U.1
Jensen, L.J.2
Brunak, S.3
Bork, P.4
-
19
-
-
0037480738
-
Investigating semantic similarity measures across the gene ontology: The relationship between sequence and annotation
-
Lord PW, Stevens RD, Brass A, Goble CA (2003) Investigating semantic similarity measures across the gene ontology: The relationship between sequence and annotation. Bioinformatics19:1275-1283.
-
(2003)
Bioinformatics
, vol.19
, pp. 1275-1283
-
-
Lord, P.W.1
Stevens, R.D.2
Brass, A.3
Goble, C.A.4
-
20
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M, et al (2000) Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25:25-29.
-
(2000)
Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
-
21
-
-
49549122021
-
-
SGD project , Accessible at
-
SGD project (2007) Saccharomyces Genome Database. Accessible at www.yeastgenome. org/
-
(2007)
Saccharomyces Genome Database
-
-
-
22
-
-
0242659154
-
Bioinformatics analysis of experimentally determined protein complexes in the yeast Saccharomyces cerevisiae
-
Dezsö Z, Oltvai ZN, Barabási A-L (2003) Bioinformatics analysis of experimentally determined protein complexes in the yeast Saccharomyces cerevisiae. Genome Res 13:2450-2454.
-
(2003)
Genome Res
, vol.13
, pp. 2450-2454
-
-
Dezsö, Z.1
Oltvai, Z.N.2
Barabási, A.-L.3
-
23
-
-
0033529707
-
Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis
-
Winzeler EA, et al. (1999) Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis. Science 285:901-906.
-
(1999)
Science
, vol.285
, pp. 901-906
-
-
Winzeler, E.A.1
-
24
-
-
2942536740
-
Identification of factors regulating poly(A) tail synthesis and maturation
-
Mangus DA, Smith MM, McSweeney JM, Jacobson A (2004) Identification of factors regulating poly(A) tail synthesis and maturation. Mol Cel Biol24:4196-4206.
-
(2004)
Mol Cel Biol
, vol.24
, pp. 4196-4206
-
-
Mangus, D.A.1
Smith, M.M.2
McSweeney, J.M.3
Jacobson, A.4
-
25
-
-
1942452749
-
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
-
Kellis M, Birren BW, Lander ES (2004) Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature 428 617-624.
-
(2004)
Nature
, vol.428
, pp. 617-624
-
-
Kellis, M.1
Birren, B.W.2
Lander, E.S.3
-
26
-
-
0025183708
-
Basiclocal alignment search tool
-
Altschul SF,Gish W,MillerW,MyersEW,Lipman DJ (1990)Basiclocal alignment search tool. J Mol Biol 215:403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
27
-
-
34249041230
-
Exploring genetic interactions and networks with yeast
-
Boone C, Bussey H, Andrews BH (2007) Exploring genetic interactions and networks with yeast. Nat Rev Genet 8:437-449.
-
(2007)
Nat Rev Genet
, vol.8
, pp. 437-449
-
-
Boone, C.1
Bussey, H.2
Andrews, B.H.3
-
28
-
-
0034625428
-
Sfb2p, a yeast protein related to Sec24p, can function as a constituent of COPII coats required for vesicle budding from the endoplasmic reticulum
-
Higashio H, Kimata Y, Kiriyama T, Hirata A, Kohno K (2000) Sfb2p, a yeast protein related to Sec24p, can function as a constituent of COPII coats required for vesicle budding from the endoplasmic reticulum. J Biol Chem 275:17900-17908.
-
(2000)
J Biol Chem
, vol.275
, pp. 17900-17908
-
-
Higashio, H.1
Kimata, Y.2
Kiriyama, T.3
Hirata, A.4
Kohno, K.5
-
29
-
-
0035918144
-
The interactions of yeastSWI/SNF and RSC with the nucleosome before and after chromatin remodeling
-
Sengupta SM (2001) The interactions of yeastSWI/SNF and RSC with the nucleosome before and after chromatin remodeling. J Biol Chem 276:12636-12644.
-
(2001)
J Biol Chem
, vol.276
, pp. 12636-12644
-
-
Sengupta, S.M.1
-
30
-
-
0033858110
-
From complete genomes to measures of substitution rate variability with in and between proteins
-
Grishin NV, Wolf YI, Koonin EV (2000) From complete genomes to measures of substitution rate variability with in and between proteins. Genome Res 10:991-1000.
-
(2000)
Genome Res
, vol.10
, pp. 991-1000
-
-
Grishin, N.V.1
Wolf, Y.I.2
Koonin, E.V.3
-
31
-
-
30744441602
-
A single determinant dominates the rate of yeast protein evolution
-
Drummond DA, Raval A, Wilke CO (2006) A single determinant dominates the rate of yeast protein evolution. Mol Biol Evol 23:327-337.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 327-337
-
-
Drummond, D.A.1
Raval, A.2
Wilke, C.O.3
-
32
-
-
33947095027
-
A human phenome-interactome network of protein complexes implicated in genetic disorders
-
Kasper L, et al. (2007) A human phenome-interactome network of protein complexes implicated in genetic disorders. Nat Biotechnol 25:309-316.
-
(2007)
Nat Biotechnol
, vol.25
, pp. 309-316
-
-
Kasper, L.1
-
33
-
-
33747035889
-
Predictingdiseasegenesusing proteinprotein interactions
-
Oti M,Snel M,Huynen MA,BrunnerHG (2006)Predictingdiseasegenesusing proteinprotein interactions. J Med Genet 43:691-698.
-
(2006)
J Med Genet
, vol.43
, pp. 691-698
-
-
Oti, M.1
Snel, M.2
Huynen, M.A.3
Brunner, H.G.4
-
34
-
-
26244460198
-
Protein-interaction mapping in search of effective drug targets
-
Chaudhuri A, Chant J (2005) Protein-interaction mapping in search of effective drug targets. Bio Essays 27:958-969.
-
(2005)
Bio Essays
, vol.27
, pp. 958-969
-
-
Chaudhuri, A.1
Chant, J.2
-
36
-
-
20144382615
-
Identification of a novel adult-onset primary open-angle glaucoma (POAG) gene on 5q22.1
-
Monemi S, et al. (2005) Identification of a novel adult-onset primary open-angle glaucoma (POAG) gene on 5q22.1. Hum Mol Genet 14:725-733.
-
(2005)
Hum Mol Genet
, vol.14
, pp. 725-733
-
-
Monemi, S.1
-
37
-
-
0032231298
-
A second locus for familial high myopia maps to chromosome 12q
-
Young TL, et al. (1998) A second locus for familial high myopia maps to chromosome 12q. Am J Hum Genet 63:1419-1424.
-
(1998)
Am J Hum Genet
, vol.63
, pp. 1419-1424
-
-
Young, T.L.1
-
39
-
-
0037039378
-
Profile of the genes expressed in the human peripheral retina, macula, and retinal pigment epithelium determined through serial analysis of gene expression (SAGE)
-
Sharon D, Blackshaw S, Cepko CL, Dryja TP (2002) Profile of the genes expressed in the human peripheral retina, macula, and retinal pigment epithelium determined through serial analysis of gene expression (SAGE). Proc Natl Acad Sci USA 99:315-320.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 315-320
-
-
Sharon, D.1
Blackshaw, S.2
Cepko, C.L.3
Dryja, T.P.4
-
40
-
-
33746555366
-
Afunctional SNP in PSMA6 confersrisk of myocardial infarction in the Japanese population
-
Ozaki K, et al. (2006) Afunctional SNP in PSMA6 confersrisk of myocardial infarction in the Japanese population. Nat Genet 38:921-925.
-
(2006)
Nat Genet
, vol.38
, pp. 921-925
-
-
Ozaki, K.1
-
41
-
-
10744233196
-
Premature myocardial infarction novel susceptibility locus on chromosome 1P34-36 identified by genomewide linkage analysis
-
Wang Q (2004) Premature myocardial infarction novel susceptibility locus on chromosome 1P34-36 identified by genomewide linkage analysis. Am J Hum Genet 74:262-271.
-
(2004)
Am J Hum Genet
, vol.74
, pp. 262-271
-
-
Wang, Q.1
-
42
-
-
0017521538
-
Atrial septal defect of the secundum type and HLA
-
Mohl W, Mayr WR (1977) Atrial septal defect of the secundum type and HLA. Tissue Antigens 10:121-122.
-
(1977)
Tissue Antigens
, vol.10
, pp. 121-122
-
-
Mohl, W.1
Mayr, W.R.2
-
43
-
-
41349117788
-
Finding community structure in very large networks
-
Clauset A, Newman MEJ, More C (2004) Finding community structure in very large networks. Phys Rev E 70:066111.
-
(2004)
Phys Rev E
, vol.70
, pp. 066111
-
-
Clauset, A.1
Newman, M.E.J.2
More, C.3
-
44
-
-
0346753737
-
Hierarchical assemblyof the budding yeast kinetochore from multiple subcomplexes
-
De Wulf P, McAinsh AD, Sorger PK (2003) Hierarchical assemblyof the budding yeast kinetochore from multiple subcomplexes. Genes Dev17:2902-2921.
-
(2003)
Genes Dev
, vol.17
, pp. 2902-2921
-
-
De Wulf, P.1
McAinsh, A.D.2
Sorger, P.K.3
-
45
-
-
33744786043
-
Phylogenetic and structural analysis of centromeric DNA and kinetochore proteins
-
Meraldi P, McAinsh AD, Rheinbay E, Sorger PK (2006) Phylogenetic and structural analysis of centromeric DNA and kinetochore proteins. Genome Biol 7:R23.
-
(2006)
Genome Biol
, vol.7
-
-
Meraldi, P.1
McAinsh, A.D.2
Rheinbay, E.3
Sorger, P.K.4
-
46
-
-
1842532350
-
The Bayesian revolution in genetics
-
Beaumont MA, Rannala B (2004) The Bayesian revolution in genetics. Nat Rev Genet 5:251-261.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 251-261
-
-
Beaumont, M.A.1
Rannala, B.2
-
47
-
-
33744822763
-
Yeast protein interactome topology provides framework for coordinated-functionality
-
Valente AXCN, Cusick ME (2006) Yeast protein interactome topology provides framework for coordinated-functionality. Nucleic Acids Res 34:2812-2819.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 2812-2819
-
-
Valente, A.X.C.N.1
Cusick, M.E.2
-
48
-
-
69949092735
-
Polar Mapper: Computational tool for integrated visualization ofprotein interaction networksandmRNAexpression data
-
10.1098/rsif.2008.0407
-
Gonçalves JP, Grãos M, Valente AXCN (2008) Polar Mapper: Computational tool for integrated visualization ofprotein interaction networksandmRNAexpression data. J R Soc Interface 10.1098/rsif.2008.0407.
-
(2008)
J R Soc Interface
-
-
Gonçalves, J.P.1
Grãos, M.2
Valente, A.X.C.N.3
|