-
1
-
-
0036375410
-
Genomes, proteomes, and dynamic networks in the cell nucleus
-
12189514
-
Roix J Misteli T Genomes, proteomes, and dynamic networks in the cell nucleus. Histochem Cell Biol 2002, 118:105-116. 12189514
-
(2002)
Histochem Cell Biol
, vol.118
, pp. 105-116
-
-
Roix, J.1
Misteli, T.2
-
2
-
-
0345865040
-
Localizing the proteome
-
329412 14659010 10.1186/gb-2003-4-12-240
-
Simpson JC Pepperkok R Localizing the proteome. Genome Biol 2003, 4:240. 329412 14659010 10.1186/gb-2003-4-12-240
-
(2003)
Genome Biol
, vol.4
, pp. 240
-
-
Simpson, J.C.1
Pepperkok, R.2
-
3
-
-
33750104230
-
The subcellular localization of the mammalian proteome comes a fraction closer
-
1779544 16938898 10.1186/gb-2006-7-6-213
-
Simpson JC Pepperkok R The subcellular localization of the mammalian proteome comes a fraction closer. Genome Biol 2006, 7:222. 1779544 16938898 10.1186/gb-2006-7-6-213
-
(2006)
Genome Biol
, vol.7
, pp. 222
-
-
Simpson, J.C.1
Pepperkok, R.2
-
4
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
10.1038/nature02026 14562095
-
Huh WK Falvo JV Gerke LC Carroll AS Howson RW Weissman JS O'Shea EK Global analysis of protein localization in budding yeast. Nature 2003, 425:686-691. 10.1038/nature02026 14562095
-
(2003)
Nature
, vol.425
, pp. 686-691
-
-
Huh, W.K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
Howson, R.W.5
Weissman, J.S.6
O'Shea, E.K.7
-
5
-
-
33644877441
-
The LIFEdb database in 2006
-
(Database issue) 1347501 16381901 10.1093/nar/gkj139
-
Mehrle A Rosenfelder H Schupp I del Val C Arlt D Hahne F Bechtel S Simpson J Hofmann O Hide W Glatting KH Huber W Pepperkok R Poustka A Wiemann S The LIFEdb database in 2006. Nucleic Acids Res 2006, 34(Database issue):D415-D418. 1347501 16381901 10.1093/nar/gkj139
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Mehrle, A.1
Rosenfelder, H.2
Schupp, I.3
del Val, C.4
Arlt, D.5
Hahne, F.6
Bechtel, S.7
Simpson, J.8
Hofmann, O.9
Hide, W.10
Glatting, K.H.11
Huber, W.12
Pepperkok, R.13
Poustka, A.14
Wiemann, S.15
-
6
-
-
0035445626
-
Large-scale identification of mammalian proteins localized to nuclear sub-compartments
-
10.1093/hmg/10.18.1995 11555636
-
Sutherland HG Mumford GK Newton K Ford LV Farrall R Dellaire G Cáceres JF Bickmore WA Large-scale identification of mammalian proteins localized to nuclear sub-compartments. Hum Mol Genet 2001, 10:1995-2011. 10.1093/hmg/10.18.1995 11555636
-
(2001)
Hum Mol Genet
, vol.10
, pp. 1995-2011
-
-
Sutherland, H.G.1
Mumford, G.K.2
Newton, K.3
Ford, L.V.4
Farrall, R.5
Dellaire, G.6
Cáceres, J.F.7
Bickmore, W.A.8
-
8
-
-
33646484899
-
Transcriptional network dynamics in macrophage activation
-
10.1016/j.ygeno.2006.03.022 16698233
-
Nilsson R Bajic VB Suzuki H di Bernardo D Bjorkegren J Katayama S Reid JF Sweet MJ Gariboldi M Carninci P Hayashizaki Y Hume DA Tegner J Ravasi T Transcriptional network dynamics in macrophage activation. Genomics 2006, 88:133-142. 10.1016/j.ygeno.2006.03.022 16698233
-
(2006)
Genomics
, vol.88
, pp. 133-142
-
-
Nilsson, R.1
Bajic, V.B.2
Suzuki, H.3
di Bernardo, D.4
Bjorkegren, J.5
Katayama, S.6
Reid, J.F.7
Sweet, M.J.8
Gariboldi, M.9
Carninci, P.10
Hayashizaki, Y.11
Hume, D.A.12
Tegner, J.13
Ravasi, T.14
-
10
-
-
33644843329
-
LOCATE: A mouse protein subcellular localization database
-
(Database issue) 1347432 16381849 10.1093/nar/gkj069
-
Fink JL Aturaliya RN Davis MJ Zhang F Hanson K Teasdale MS Kai C Kawai J Carninci P Hayashizaki Y Teasdale RD LOCATE: A mouse protein subcellular localization database. Nucleic Acids Res 2006, 34(Database issue):D213-D217. 1347432 16381849 10.1093/nar/gkj069
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Fink, J.L.1
Aturaliya, R.N.2
Davis, M.J.3
Zhang, F.4
Hanson, K.5
Teasdale, M.S.6
Kai, C.7
Kawai, J.8
Carninci, P.9
Hayashizaki, Y.10
Teasdale, R.D.11
-
12
-
-
33644845490
-
PhosphoregDB: The tissue and sub-cellular distribution of mammalian protein kinases and phosphatases
-
1395337 16504016 10.1186/1471-2105-7-82
-
Forrest AR Taylor DF Fink JL Gongora MM Flegg C Teasdale RD Suzuki H Kanamori M Kai C Hayashizaki Y Grimmond SM PhosphoregDB: The tissue and sub-cellular distribution of mammalian protein kinases and phosphatases. BMC Bioinformatics 2006, 7:82. 1395337 16504016 10.1186/1471-2105-7-82
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 82
-
-
Forrest, A.R.1
Taylor, D.F.2
Fink, J.L.3
Gongora, M.M.4
Flegg, C.5
Teasdale, R.D.6
Suzuki, H.7
Kanamori, M.8
Kai, C.9
Hayashizaki, Y.10
Grimmond, S.M.11
-
13
-
-
10744224439
-
Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria
-
10.1016/S0092-8674(03)00926-7 14651853
-
Mootha VK Bunkenborg J Olsen JV Hjerrild M Wisniewski JR Stahl E Bolouri MS Ray HN Sihag S Kamal M Patterson N Lander ES Mann M Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 2003, 115:629-640. 10.1016/ S0092-8674(03)00926-7 14651853
-
(2003)
Cell
, vol.115
, pp. 629-640
-
-
Mootha, V.K.1
Bunkenborg, J.2
Olsen, J.V.3
Hjerrild, M.4
Wisniewski, J.R.5
Stahl, E.6
Bolouri, M.S.7
Ray, H.N.8
Sihag, S.9
Kamal, M.10
Patterson, N.11
Lander, E.S.12
Mann, M.13
-
14
-
-
33645993265
-
Global survey of organ and organelle protein expression in mouse: Combined proteomic and transcriptomic profiling
-
10.1016/j.cell.2006.01.044 16615898
-
Kislinger T Cox B Kannan A Chung C Hu P Ignatchenko A Scott MS Gramolini AO Morris Q Hallett MT Rossant J Hughes TR Frey B Emili A Global survey of organ and organelle protein expression in mouse: Combined proteomic and transcriptomic profiling. Cell 2006, 125:173-186. 10.1016/ j.cell.2006.01.044 16615898
-
(2006)
Cell
, vol.125
, pp. 173-186
-
-
Kislinger, T.1
Cox, B.2
Kannan, A.3
Chung, C.4
Hu, P.5
Ignatchenko, A.6
Scott, M.S.7
Gramolini, A.O.8
Morris, Q.9
Hallett, M.T.10
Rossant, J.11
Hughes, T.R.12
Frey, B.13
Emili, A.14
-
15
-
-
33646466731
-
Subcellular localization of mammalian type II membrane proteins
-
10.1111/j.1600-0854.2006.00407.x 16643283
-
Aturaliya RN Fink JL Davis MJ Teasdale MS Hanson KA Miranda KC Forrest AR Grimmond SM Suzuki H Kanamori M Kai C Kawai J Carninci P Hayashizaki Y Teasdale RD Subcellular localization of mammalian type II membrane proteins. Traffic 2006, 7:613-625. 10.1111/j.1600-0854.2006.00407.x 16643283
-
(2006)
Traffic
, vol.7
, pp. 613-625
-
-
Aturaliya, R.N.1
Fink, J.L.2
Davis, M.J.3
Teasdale, M.S.4
Hanson, K.A.5
Miranda, K.C.6
Forrest, A.R.7
Grimmond, S.M.8
Suzuki, H.9
Kanamori, M.10
Kai, C.11
Kawai, J.12
Carninci, P.13
Hayashizaki, Y.14
Teasdale, R.D.15
-
16
-
-
0037255042
-
The Nuclear Protein Database (NPD): Sub-nuclear localisation and functional annotation of the nuclear proteome
-
165465 12520015 10.1093/nar/gkg018
-
Dellaire G Farrall R Bickmore WA The Nuclear Protein Database (NPD): sub-nuclear localisation and functional annotation of the nuclear proteome. Nucleic Acids Res 2003, 31:328-330. 165465 12520015 10.1093/ nar/gkg018
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 328-330
-
-
Dellaire, G.1
Farrall, R.2
Bickmore, W.A.3
-
17
-
-
0034280113
-
Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing
-
1083732 11256614 10.1093/embo-reports/kvd058
-
Simpson JC Wellenreuther R Poustka A Pepperkok R Wiemann S Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. EMBO Rep 2000, 1:287-292. 1083732 11256614 10.1093/ embo-reports/kvd058
-
(2000)
EMBO Rep
, vol.1
, pp. 287-292
-
-
Simpson, J.C.1
Wellenreuther, R.2
Poustka, A.3
Pepperkok, R.4
Wiemann, S.5
-
18
-
-
0347125201
-
LIFEdb: A database for functional genomics experiments integrating information from external sources, and serving as a sample tracking system
-
(Database issue) 314201 14681468 10.1093/nar/gkh022
-
Bannasch D Mehrle A Glatting KH Pepperkok R Poustka A Wiemann S LIFEdb: a database for functional genomics experiments integrating information from external sources, and serving as a sample tracking system. Nucleic Acids Res 2004, 32(Database issue):D505-D508. 314201 14681468 10.1093/ nar/gkh022
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Bannasch, D.1
Mehrle, A.2
Glatting, K.H.3
Pepperkok, R.4
Poustka, A.5
Wiemann, S.6
-
19
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
395923 15075390 10.1073/pnas.0400782101
-
Su AI Wiltshire T Batalov S Lapp H Ching KA Block D Zhang J Soden R Hayakawa M Kreiman G Cooke MP Walker JR Hogenesch JB A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci USA 2004, 101:6062-6067. 395923 15075390 10.1073/pnas.0400782101
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
Cooke, M.P.11
Walker, J.R.12
Hogenesch, J.B.13
-
20
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
10.1126/science.1112014 16141072
-
Carninci P Kasukawa T Katayama S Gough J Frith MC Maeda N Oyama R Ravasi T Lenhard B Wells C Kodzius R Shimokawa K Bajic VB Brenner SE Batalov S Forrest AR Zavolan M Davis MJ Wilming LG Aidinis V Allen JE Ambesi-Impiombato A Apweiler R Aturaliya RN Bailey TL Bansal M Baxter L Beisel KW Bersano T Bono H The transcriptional landscape of the mammalian genome. Science 2005, 309:1559-1563. 10.1126/science.1112014 16141072
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
Carninci, P.1
Kasukawa, T.2
Katayama, S.3
Gough, J.4
Frith, M.C.5
Maeda, N.6
Oyama, R.7
Ravasi, T.8
Lenhard, B.9
Wells, C.10
Kodzius, R.11
Shimokawa, K.12
Bajic, V.B.13
Brenner, S.E.14
Batalov, S.15
Forrest, A.R.16
Zavolan, M.17
Davis, M.J.18
Wilming, L.G.19
Aidinis, V.20
Allen, J.E.21
Ambesi-Impiombato, A.22
Apweiler, R.23
Aturaliya, R.N.24
Bailey, T.L.25
Bansal, M.26
Baxter, L.27
Beisel, K.W.28
Bersano, T.29
Bono, H.30
more..
-
21
-
-
33947407688
-
Evaluation and comparison of mammalian subcellular localization prediction methods
-
1764480 17254308 10.1186/1471-2105-7-S5-S3
-
Sprenger J Fink JL Teasdale RD Evaluation and comparison of mammalian subcellular localization prediction methods. BMC Bioinformatics 2006, 7(Suppl 5):S3. 1764480 17254308 10.1186/1471-2105-7-S5-S3
-
(2006)
BMC Bioinformatics
, vol.7
, Issue.SUPPL. 5
-
-
Sprenger, J.1
Fink, J.L.2
Teasdale, R.D.3
-
22
-
-
11944274520
-
Nucleolar proteome dynamics
-
10.1038/nature03207 15635413
-
Andersen JS Lam YW Leung AK Ong SE Lyon CE Lamond AI Mann M Nucleolar proteome dynamics. Nature 2005, 433:77-83. 10.1038/nature03207 15635413
-
(2005)
Nature
, vol.433
, pp. 77-83
-
-
Andersen, J.S.1
Lam, Y.W.2
Leung, A.K.3
Ong, S.E.4
Lyon, C.E.5
Lamond, A.I.6
Mann, M.7
-
23
-
-
36749081534
-
Crossing the nuclear envelope: Hierarchical regulation of nucleocytoplasmic transport
-
10.1126/science.1142204 18048681
-
Terry LJ Shows EB Wente SR Crossing the nuclear envelope: Hierarchical regulation of nucleocytoplasmic transport. Science 2007, 318:1412-1416. 10.1126/science.1142204 18048681
-
(2007)
Science
, vol.318
, pp. 1412-1416
-
-
Terry, L.J.1
Shows, E.B.2
Wente, S.R.3
-
24
-
-
33646466927
-
Differential use of signal peptides and membrane domains is a common occurrence in the protein output of transcriptional units
-
1449889 16683029 10.1371/journal.pgen.0020046
-
Davis MJ Hanson KA Clark F Fink JL Zhang F Kasukawa T Kai C Kawai J Carninci P Hayashizaki Y Teasdale RD Differential use of signal peptides and membrane domains is a common occurrence in the protein output of transcriptional units. PLoS Genet 2006, 2:e46. 1449889 16683029 10.1371/ journal.pgen.0020046
-
(2006)
PLoS Genet
, vol.2
-
-
Davis, M.J.1
Hanson, K.A.2
Clark, F.3
Fink, J.L.4
Zhang, F.5
Kasukawa, T.6
Kai, C.7
Kawai, J.8
Carninci, P.9
Hayashizaki, Y.10
Teasdale, R.D.11
-
26
-
-
33746218840
-
Prediction of protein subcellular localization
-
10.1002/prot.21018 16752418
-
Yu CS Chen YC Lu CH Hwang JK Prediction of protein subcellular localization. Proteins 2006, 64:643-651. 10.1002/prot.21018 16752418
-
(2006)
Proteins
, vol.64
, pp. 643-651
-
-
Yu, C.S.1
Chen, Y.C.2
Lu, C.H.3
Hwang, J.K.4
-
27
-
-
84856980739
-
Protein subcellular localization prediction with WoLF PSORT
-
London: Imperial College Press Jiang T, Yang UC, Chen YPP, Wong L
-
Horton P Protein subcellular localization prediction with WoLF PSORT. Fourth Asia-Pacific Bioinformatics Conference: February 13-16 2006; Taipei London: Imperial College Press Jiang T, Yang UC, Chen YPP, Wong L 2006:39-48.
-
(2006)
Fourth Asia-Pacific Bioinformatics Conference: February 13-16 2006; Taipei
, pp. 39-48
-
-
Horton, P.1
-
28
-
-
33646861792
-
MultiLoc: Prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition
-
10.1093/bioinformatics/btl002 16428265
-
Höglund A Dönnes P Blum T Adolph HW Kohlbacher O MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition. Bioinformatics 2006, 22:1158-1165. 10.1093/bioinformatics/btl002 16428265
-
(2006)
Bioinformatics
, vol.22
, pp. 1158-1165
-
-
Höglund, A.1
Dönnes, P.2
Blum, T.3
Adolph, H.W.4
Kohlbacher, O.5
-
29
-
-
3242876302
-
Proteome Analyst: Custom predictions with explanations in a web-based tool for high-throughput proteome annotations
-
(Web Server issue) 441623 15215412 10.1093/nar/gkh485
-
Szafron D Lu P Greiner R Wishart DS Poulin B Eisner R Lu Z Anvik J Macdonell C Fyshe A Meeuwis D Proteome Analyst: Custom predictions with explanations in a web-based tool for high-throughput proteome annotations. Nucleic Acids Res 2004, 32(Web Server issue):W365-W371. 441623 15215412 10.1093/nar/gkh485
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Szafron, D.1
Lu, P.2
Greiner, R.3
Wishart, D.S.4
Poulin, B.5
Eisner, R.6
Lu, Z.7
Anvik, J.8
Macdonell, C.9
Fyshe, A.10
Meeuwis, D.11
-
30
-
-
1542400030
-
Predicting subcellular localization of proteins using machine-learned classifiers
-
10.1093/bioinformatics/btg447 14990451
-
Lu Z Szafron D Greiner R Lu P Wishart DS Poulin B Anvik J Macdonell C Eisner R Predicting subcellular localization of proteins using machine-learned classifiers. Bioinformatics 2004, 20:547-556. 10.1093/ bioinformatics/btg447 14990451
-
(2004)
Bioinformatics
, vol.20
, pp. 547-556
-
-
Lu, Z.1
Szafron, D.2
Greiner, R.3
Lu, P.4
Wishart, D.S.5
Poulin, B.6
Anvik, J.7
Macdonell, C.8
Eisner, R.9
-
31
-
-
33747375161
-
pTARGET: A web server for predicting protein subcellular localization
-
(Web Server issue) 1538910 16844995 10.1093/nar/gkl093
-
Guda C pTARGET: A web server for predicting protein subcellular localization. Nucleic Acids Res 2006, 34(Web Server issue):W210-W213. 1538910 16844995 10.1093/nar/gkl093
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Guda, C.1
-
32
-
-
0037249644
-
NLSdb: Database of nuclear localization signals
-
165448 12520032 10.1093/nar/gkg001
-
Nair R Carter P Rost B NLSdb: Database of nuclear localization signals. Nucleic Acids Res 2003, 31:397-399. 165448 12520032 10.1093/nar/gkg001
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 397-399
-
-
Nair, R.1
Carter, P.2
Rost, B.3
-
33
-
-
0034331073
-
Finding nuclear localization signals
-
1083765 11258480 10.1093/embo-reports/kvd092
-
Cokol M Nair R Rost B Finding nuclear localization signals. EMBO Rep 2000, 1:411-415. 1083765 11258480 10.1093/embo-reports/kvd092
-
(2000)
EMBO Rep
, vol.1
, pp. 411-415
-
-
Cokol, M.1
Nair, R.2
Rost, B.3
-
34
-
-
35048847106
-
Evolving regular expression-based sequence classifiers for protein nuclear localisation
-
Heddad A Brameier M MacCallum RM Evolving regular expression-based sequence classifiers for protein nuclear localisation. Lecture Notes Computer Sci 2004, 3005:31-40.
-
(2004)
Lecture Notes Computer Sci
, vol.3005
, pp. 31-40
-
-
Heddad, A.1
Brameier, M.2
MacCallum, R.M.3
-
35
-
-
34248205175
-
Predicting nuclear localization
-
10.1021/pr060564n 17319708
-
Hawkins J Davis L Boden M Predicting nuclear localization. J Proteome Res 2007, 6:1402-1409. 10.1021/pr060564n 17319708
-
(2007)
J Proteome Res
, vol.6
, pp. 1402-1409
-
-
Hawkins, J.1
Davis, L.2
Boden, M.3
-
37
-
-
0036084691
-
euGenes: A eukaryotic genome information system
-
99146 11752277 10.1093/nar/30.1.145
-
Gilbert DG euGenes: A eukaryotic genome information system. Nucleic Acids Res 2002, 30:145-148. 99146 11752277 10.1093/nar/30.1.145
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 145-148
-
-
Gilbert, D.G.1
|