-
1
-
-
74049112301
-
Role for protein-protein interaction databases in human genetics
-
Pattin, K.A. and Moore, J.H. (2009) Role for protein-protein interaction databases in human genetics. Expert Rev. Proteomics, 6, 647-659.
-
(2009)
Expert Rev. Proteomics
, vol.6
, pp. 647-659
-
-
Pattin, K.A.1
Moore, J.H.2
-
2
-
-
70349629971
-
Using biological networks to search for interacting loci in genome-wide association studies
-
Emily, M., Mailund, T., Hein, J., Schauser, L. and Schierup, M.H. (2009) Using biological networks to search for interacting loci in genome-wide association studies. Eur. J. Hum. Genet., 17, 1231-1240.
-
(2009)
Eur. J. Hum. Genet.
, vol.17
, pp. 1231-1240
-
-
Emily, M.1
Mailund, T.2
Hein, J.3
Schauser, L.4
Schierup, M.H.5
-
3
-
-
77649182705
-
Unveiling the role of network and systems biology in drug discovery
-
Pujol, A., Mosca, R., Farres, J. and Aloy, P. (2010) Unveiling the role of network and systems biology in drug discovery. Trends Pharmacol. Sci., 31, 115-123.
-
(2010)
Trends Pharmacol. Sci.
, vol.31
, pp. 115-123
-
-
Pujol, A.1
Mosca, R.2
Farres, J.3
Aloy, P.4
-
4
-
-
77956651201
-
Biochemical network-based drug-target prediction
-
Klipp, E., Wade, R.C. and Kummer, U. (2010) Biochemical network-based drug-target prediction. Curr. Opin. Biotechnol., 21, 511-516.
-
(2010)
Curr. Opin. Biotechnol.
, vol.21
, pp. 511-516
-
-
Klipp, E.1
Wade, R.C.2
Kummer, U.3
-
5
-
-
78651278577
-
Network-based function prediction and interactomics: The case for metabolic enzymes
-
Janga, S.C., Diaz-Mejia, J.J. and Moreno-Hagelsieb, G. (2010) Network-based function prediction and interactomics: The case for metabolic enzymes. Metab. Eng.
-
(2010)
Metab. Eng.
-
-
Janga, S.C.1
Diaz-Mejia, J.J.2
Moreno-Hagelsieb, G.3
-
6
-
-
78651335279
-
Systematizing the generation of missing metabolic knowledge
-
Orth, J.D. and Palsson, B.O. (2010) Systematizing the generation of missing metabolic knowledge. Biotechnol. Bioeng., 107, 403-412.
-
(2010)
Biotechnol. Bioeng.
, vol.107
, pp. 403-412
-
-
Orth, J.D.1
Palsson, B.O.2
-
7
-
-
77957242540
-
It's the machine that matters: Predicting gene function and phenotype from protein networks
-
Wang, P.I. and Marcotte, E.M. (2010) It's the machine that matters: Predicting gene function and phenotype from protein networks. J. Proteomics, 73, 2277-2289.
-
(2010)
J. Proteomics
, vol.73
, pp. 2277-2289
-
-
Wang, P.I.1
Marcotte, E.M.2
-
8
-
-
33947095027
-
A human phenome-interactome network of protein complexes implicated in genetic disorders
-
Lage, K., Karlberg, E.O., Storling, Z.M., Olason, P.I., Pedersen, A.G., Rigina, O., Hinsby, A.M., Tumer, Z., Pociot, F., Tommerup, N. 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
-
-
Lage, K.1
Karlberg, E.O.2
Storling, Z.M.3
Olason, P.I.4
Pedersen, A.G.5
Rigina, O.6
Hinsby, A.M.7
Tumer, Z.8
Pociot, F.9
Tommerup, N.10
-
9
-
-
0742323374
-
The HUPO PSI's molecular interaction format-A community standard for the representation of protein interaction data
-
Hermjakob, H., Montecchi-Palazzi, L., Bader, G., Wojcik, J., Salwinski, L., Ceol, A., Moore, S., Orchard, S., Sarkans, U., von Mering, C. et al. (2004) The HUPO PSI's molecular interaction format-a community standard for the representation of protein interaction data. Nat. Biotechnol., 22, 177-183.
-
(2004)
Nat. Biotechnol.
, vol.22
, pp. 177-183
-
-
Hermjakob, H.1
Montecchi-Palazzi, L.2
Bader, G.3
Wojcik, J.4
Salwinski, L.5
Ceol, A.6
Moore, S.7
Orchard, S.8
Sarkans, U.9
Von Mering, C.10
-
10
-
-
21544461263
-
PAX of mind for pathway researchers
-
Luciano, J.S. (2005) PAX of mind for pathway researchers. Drug Discov. Today, 10, 937-942.
-
(2005)
Drug Discov. Today
, vol.10
, pp. 937-942
-
-
Luciano, J.S.1
-
11
-
-
0037342537
-
The systems biology markup language (SBML): A medium for representation and exchange of biochemical network models
-
Hucka, M., Finney, A., Sauro, H.M., Bolouri, H., Doyle, J.C., Kitano, H., Arkin, A.P., Bornstein, B.J., Bray, D., Cornish- Bowden, A. et al. (2003) The systems biology markup language (SBML): A medium for representation and exchange of biochemical network models. Bioinformatics, 19, 524-531.
-
(2003)
Bioinformatics
, vol.19
, pp. 524-531
-
-
Hucka, M.1
Finney, A.2
Sauro, H.M.3
Bolouri, H.4
Doyle, J.C.5
Kitano, H.6
Arkin, A.P.7
Bornstein, B.J.8
Bray, D.9
Cornish-Bowden, A.10
-
12
-
-
68449103579
-
The systems biology graphical notation
-
Le Novere, N., Hucka, M., Mi, H., Moodie, S., Schreiber, F., Sorokin, A., Demir, E., Wegner, K., Aladjem, M.I., Wimalaratne, S.M. et al. (2009) The Systems Biology Graphical Notation. Nat. Biotechnol., 27, 735-741.
-
(2009)
Nat. Biotechnol.
, vol.27
, pp. 735-741
-
-
Le Novere, N.1
Hucka, M.2
Mi, H.3
Moodie, S.4
Schreiber, F.5
Sorokin, A.6
Demir, E.7
Wegner, K.8
Aladjem, M.I.9
Wimalaratne, S.M.10
-
13
-
-
2442595958
-
CellML: Its future, present and past
-
Lloyd, C.M., Halstead, M.D. and Nielsen, P.F. (2004) CellML: Its future, present and past. Prog. Biophys. Mol. Biol., 85, 433-450.
-
(2004)
Prog. Biophys. Mol. Biol.
, vol.85
, pp. 433-450
-
-
Lloyd, C.M.1
Halstead, M.D.2
Nielsen, P.F.3
-
14
-
-
41649106470
-
Submit your interaction data the IMEx way: A step by step guide to trouble-free deposition
-
Orchard, S., Kerrien, S., Jones, P., Ceol, A., Chatr-Aryamontri, A., Salwinski, L., Nerothin, J. and Hermjakob, H. (2007) Submit your interaction data the IMEx way: a step by step guide to trouble-free deposition. Proteomics, 7(Suppl 1), 28-34.
-
(2007)
Proteomics
, vol.7
, Issue.SUPPL. 1
, pp. 28-34
-
-
Orchard, S.1
Kerrien, S.2
Jones, P.3
Ceol, A.4
Chatr-Aryamontri, A.5
Salwinski, L.6
Nerothin, J.7
Hermjakob, H.8
-
15
-
-
0347755535
-
The Database of Interacting Proteins: 2004 update
-
Salwinski, L., Miller, C.S., Smith, A.J., Pettit, F.K., Bowie, J.U. and Eisenberg, D. (2004) The Database of Interacting Proteins: 2004 update. Nucleic Acids Res., 32, D449-D451.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Salwinski, L.1
Miller, C.S.2
Smith, A.J.3
Pettit, F.K.4
Bowie, J.U.5
Eisenberg, D.6
-
16
-
-
75549087047
-
The IntAct molecular interaction database in 2010
-
Aranda, B., Achuthan, P., Alam-Faruque, Y., Armean, I., Bridge, A., Derow, C., Feuermann, M., Ghanbarian, A.T., Kerrien, S., Khadake, J. et al. (2010) The IntAct molecular interaction database in 2010. Nucleic Acids Res., 38, D525-D531.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Aranda, B.1
Achuthan, P.2
Alam-Faruque, Y.3
Armean, I.4
Bridge, A.5
Derow, C.6
Feuermann, M.7
Ghanbarian, A.T.8
Kerrien, S.9
Khadake, J.10
-
17
-
-
75549083295
-
MINT, the molecular interaction database: 2009 update
-
Ceol, A., Chatr Aryamontri, A., Licata, L., Peluso, D., Briganti, L., Perfetto, L., Castagnoli, L. and Cesareni, G. (2010) MINT, the molecular interaction database: 2009 update. Nucleic Acids Res., 38, D532-D539.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Ceol, A.1
Chatr Aryamontri, A.2
Licata, L.3
Peluso, D.4
Briganti, L.5
Perfetto, L.6
Castagnoli, L.7
Cesareni, G.8
-
18
-
-
33644878150
-
MPact: The MIPS protein interaction resource on yeast
-
Guldener, U., Munsterkotter, M., Oesterheld, M., Pagel, P., Ruepp, A., Mewes, H.W. and Stumpflen, V. (2006) MPact: The MIPS protein interaction resource on yeast. Nucleic Acids Res., 34, D436-D441.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Guldener, U.1
Munsterkotter, M.2
Oesterheld, M.3
Pagel, P.4
Ruepp, A.5
Mewes, H.W.6
Stumpflen, V.7
-
19
-
-
61449243886
-
MatrixDB, a database focused on extracellular protein-protein and protein-carbohydrate interactions
-
Chautard, E., Ballut, L., Thierry-Mieg, N. and Ricard-Blum, S. (2009) MatrixDB, a database focused on extracellular protein-protein and protein-carbohydrate interactions. Bioinformatics, 25, 690-691.
-
(2009)
Bioinformatics
, vol.25
, pp. 690-691
-
-
Chautard, E.1
Ballut, L.2
Thierry-Mieg, N.3
Ricard-Blum, S.4
-
20
-
-
48249112175
-
MPIDB: The microbial protein interaction database
-
Goll, J., Rajagopala, S.V., Shiau, S.C., Wu, H., Lamb, B.T. and Uetz, P. (2008) MPIDB: The microbial protein interaction database. Bioinformatics, 24, 1743-1744.
-
(2008)
Bioinformatics
, vol.24
, pp. 1743-1744
-
-
Goll, J.1
Rajagopala, S.V.2
Shiau, S.C.3
Wu, H.4
Lamb, B.T.5
Uetz, P.6
-
21
-
-
38549173606
-
The BioGRID Interaction Database: 2008 update
-
Breitkreutz, B.J., Stark, C., Reguly, T., Boucher, L., Breitkreutz, A., Livstone, M., Oughtred, R., Lackner, D.H., Bahler, J., Wood, V. et al. (2008) The BioGRID Interaction Database: 2008 update. Nucleic Acids Res., 36, D637-D640.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Breitkreutz, B.J.1
Stark, C.2
Reguly, T.3
Boucher, L.4
Breitkreutz, A.5
Livstone, M.6
Oughtred, R.7
Lackner, D.H.8
Bahler, J.9
Wood, V.10
-
22
-
-
75549090213
-
KEGG for representation and analysis of molecular networks involving diseases and drugs
-
Kanehisa, M., Goto, S., Furumichi, M., Tanabe, M. and Hirakawa, M. (2010) KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res., 38, D355-D360.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Kanehisa, M.1
Goto, S.2
Furumichi, M.3
Tanabe, M.4
Hirakawa, M.5
-
23
-
-
58149177166
-
Reactome knowledgebase of human biological pathways and processes
-
Matthews, L., Gopinath, G., Gillespie, M., Caudy, M., Croft, D., de Bono, B., Garapati, P., Hemish, J., Hermjakob, H., Jassal, B. et al. (2009) Reactome knowledgebase of human biological pathways and processes. Nucleic Acids Res., 37, D619-D622.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Matthews, L.1
Gopinath, G.2
Gillespie, M.3
Caudy, M.4
Croft, D.5
De Bono, B.6
Garapati, P.7
Hemish, J.8
Hermjakob, H.9
Jassal, B.10
-
24
-
-
27244436714
-
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
-
Karp, P.D., Ouzounis, C.A., Moore-Kochlacs, C., Goldovsky, L., Kaipa, P., Ahren, D., Tsoka, S., Darzentas, N., Kunin, V. and Lopez-Bigas, N. (2005) Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Res., 33, 6083-6089.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 6083-6089
-
-
Karp, P.D.1
Ouzounis, C.A.2
Moore-Kochlacs, C.3
Goldovsky, L.4
Kaipa, P.5
Ahren, D.6
Tsoka, S.7
Darzentas, N.8
Kunin, V.9
Lopez-Bigas, N.10
-
25
-
-
58149193222
-
Human Protein Reference Database- 2009 update
-
Keshava Prasad, T.S., Goel, R., Kandasamy, K., Keerthikumar, S., Kumar, S., Mathivanan, S., Telikicherla, D., Raju, R., Shafreen, B., Venugopal, A. et al. (2009) Human Protein Reference Database- 2009 update. Nucleic Acids Res., 37, D767-D772.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Keshava Prasad, T.S.1
Goel, R.2
Kandasamy, K.3
Keerthikumar, S.4
Kumar, S.5
Mathivanan, S.6
Telikicherla, D.7
Raju, R.8
Shafreen, B.9
Venugopal, A.10
-
26
-
-
58149199579
-
FlyBase: Enhancing Drosophila Gene Ontology annotations
-
Tweedie, S., Ashburner, M., Falls, K., Leyland, P., McQuilton, P., Marygold, S., Millburn, G., Osumi-Sutherland, D., Schroeder, A., Seal, R. et al. (2009) FlyBase: Enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res., 37, D555-D559.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Tweedie, S.1
Ashburner, M.2
Falls, K.3
Leyland, P.4
McQuilton, P.5
Marygold, S.6
Millburn, G.7
Osumi-Sutherland, D.8
Schroeder, A.9
Seal, R.10
-
27
-
-
74549117176
-
Biomedical text mining and its applications
-
Rodriguez-Esteban, R. (2009) Biomedical text mining and its applications. PLoS Comput. Biol., 5, e1000597.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
Rodriguez-Esteban, R.1
-
28
-
-
3042786293
-
A gene network for navigating the literature
-
Hoffmann, R. and Valencia, A. (2004) A gene network for navigating the literature. Nat. Genet., 36, 664.
-
(2004)
Nat. Genet.
, vol.36
, pp. 664
-
-
Hoffmann, R.1
Valencia, A.2
-
29
-
-
72949117638
-
Predicting protein-protein interactions in the context of protein evolution
-
Lewis, A.C., Saeed, R. and Deane, C.M. (2010) Predicting protein-protein interactions in the context of protein evolution. Mol. Biosyst., 6, 55-64.
-
(2010)
Mol. Biosyst.
, vol.6
, pp. 55-64
-
-
Lewis, A.C.1
Saeed, R.2
Deane, C.M.3
-
30
-
-
38949138554
-
Computational prediction of protein-protein interactions
-
Skrabanek, L., Saini, H.K., Bader, G.D. and Enright, A.J. (2008) Computational prediction of protein-protein interactions. Mol. Biotechnol., 38, 1-17.
-
(2008)
Mol. Biotechnol.
, vol.38
, pp. 1-17
-
-
Skrabanek, L.1
Saini, H.K.2
Bader, G.D.3
Enright, A.J.4
-
31
-
-
0037377181
-
Function prediction and protein networks
-
Huynen, M.A., Snel, B., von Mering, C. and Bork, P. (2003) Function prediction and protein networks. Curr. Opin. Cell Biol., 15, 191-198.
-
(2003)
Curr. Opin. Cell Biol.
, vol.15
, pp. 191-198
-
-
Huynen, M.A.1
Snel, B.2
Von Mering, C.3
Bork, P.4
-
32
-
-
0036601150
-
Computational methods for the prediction of protein interactions
-
Valencia, A. and Pazos, F. (2002) Computational methods for the prediction of protein interactions. Curr. Opin. Struct. Biol., 12, 368-373.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 368-373
-
-
Valencia, A.1
Pazos, F.2
-
33
-
-
67849122322
-
VisANT 3.5: Multi-scale network visualization, analysis and inference based on the gene ontology
-
Hu, Z., Hung, J.H., Wang, Y., Chang, Y.C., Huang, C.L., Huyck, M. and DeLisi, C. (2009) VisANT 3.5: Multi-scale network visualization, analysis and inference based on the gene ontology. Nucleic Acids Res., 37, W115-W121.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Hu, Z.1
Hung, J.H.2
Wang, Y.3
Chang, Y.C.4
Huang, C.L.5
Huyck, M.6
DeLisi, C.7
-
34
-
-
77954269901
-
The GeneMANIA prediction server: Biological network integration for gene prioritization and predicting gene function
-
Warde-Farley, D., Donaldson, S.L., Comes, O., Zuberi, K., Badrawi, R., Chao, P., Franz, M., Grouios, C., Kazi, F., Lopes, C.T. et al. (2010) The GeneMANIA prediction server: Biological network integration for gene prioritization and predicting gene function. Nucleic Acids Res., 38(Suppl), W214-W220.
-
(2010)
Nucleic Acids Res.
, vol.38
, Issue.SUPPL.
-
-
Warde-Farley, D.1
Donaldson, S.L.2
Comes, O.3
Zuberi, K.4
Badrawi, R.5
Chao, P.6
Franz, M.7
Grouios, C.8
Kazi, F.9
Lopes, C.T.10
-
35
-
-
54449083188
-
Browsing multidimensional molecular networks with the generic network browser (N-Browse)
-
Chapter 9, Unit 9
-
Kao, H.L. and Gunsalus, K.C. (2008) Browsing multidimensional molecular networks with the generic network browser (N-Browse). Curr. Protoc. Bioinformatics, Chapter 9, Unit 9 11.
-
(2008)
Curr. Protoc. Bioinformatics
, pp. 11
-
-
Kao, H.L.1
Gunsalus, K.C.2
-
36
-
-
75249101080
-
Evaluation of linguistic features useful in extraction of interactions from PubMed; application to annotating known, high-throughput and predicted interactions in I2D
-
Niu, Y., Otasek, D. and Jurisica, I. (2010) Evaluation of linguistic features useful in extraction of interactions from PubMed; application to annotating known, high-throughput and predicted interactions in I2D. Bioinformatics, 26, 111-119.
-
(2010)
Bioinformatics
, vol.26
, pp. 111-119
-
-
Niu, Y.1
Otasek, D.2
Jurisica, I.3
-
37
-
-
33747853260
-
APID: Agile protein interaction DataAnalyzer
-
Prieto, C. and De Las Rivas, J. (2006) APID: Agile Protein Interaction DataAnalyzer. Nucleic Acids Res., 34, W298-W302.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Prieto, C.1
De Las Rivas, J.2
-
38
-
-
70349570450
-
Discovering biological networks from diverse functional genomic data
-
Myers, C.L., Chiriac, C. and Troyanskaya, O.G. (2009) Discovering biological networks from diverse functional genomic data. Methods Mol. Biol., 563, 157-175.
-
(2009)
Methods Mol. Biol.
, vol.563
, pp. 157-175
-
-
Myers, C.L.1
Chiriac, C.2
Troyanskaya, O.G.3
-
39
-
-
58149194611
-
ConsensusPathDB-A database for integrating human functional interaction networks
-
Kamburov, A., Wierling, C., Lehrach, H. and Herwig, R. (2009) ConsensusPathDB-a database for integrating human functional interaction networks. Nucleic Acids Res., 37, D623-D628.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Kamburov, A.1
Wierling, C.2
Lehrach, H.3
Herwig, R.4
-
40
-
-
58149193234
-
STRING 8-A global view on proteins and their functional interactions in 630 organisms
-
Jensen, L.J., Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., Doerks, T., Julien, P., Roth, A., Simonovic, M. et al. (2009) STRING 8-a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res., 37, D412-D416.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Jensen, L.J.1
Kuhn, M.2
Stark, M.3
Chaffron, S.4
Creevey, C.5
Muller, J.6
Doerks, T.7
Julien, P.8
Roth, A.9
Simonovic, M.10
-
41
-
-
67650727359
-
JClust: A clustering and visualization toolbox
-
Pavlopoulos, G.A., Moschopoulos, C.N., Hooper, S.D., Schneider, R. and Kossida, S. (2009) jClust: A clustering and visualization toolbox. Bioinformatics, 25, 1994-1996.
-
(2009)
Bioinformatics
, vol.25
, pp. 1994-1996
-
-
Pavlopoulos, G.A.1
Moschopoulos, C.N.2
Hooper, S.D.3
Schneider, R.4
Kossida, S.5
-
42
-
-
3142756502
-
Open source clustering software
-
de Hoon, M.J., Imoto, S., Nolan, J. and Miyano, S. (2004) Open source clustering software. Bioinformatics, 20, 1453-1454.
-
(2004)
Bioinformatics
, vol.20
, pp. 1453-1454
-
-
De Hoon, M.J.1
Imoto, S.2
Nolan, J.3
Miyano, S.4
-
43
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
Enright, A.J., Van Dongen, S. and Ouzounis, C.A. (2002) An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res., 30, 1575-1584.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1575-1584
-
-
Enright, A.J.1
Van Dongen, S.2
Ouzounis, C.A.3
-
44
-
-
58149193233
-
The SWISS-MODEL Repository and associated resources
-
Kiefer, F., Arnold, K., Kunzli, M., Bordoli, L. and Schwede, T. (2009) The SWISS-MODEL Repository and associated resources. Nucleic Acids Res., 37, D387-D392.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Kiefer, F.1
Arnold, K.2
Kunzli, M.3
Bordoli, L.4
Schwede, T.5
-
45
-
-
58149178579
-
NCBI Reference Sequences: Current status, policy and new initiatives
-
Pruitt, K.D., Tatusova, T., Klimke, W. and Maglott, D.R. (2009) NCBI Reference Sequences: Current status, policy and new initiatives. Nucleic Acids Res., 37, D32-D36.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Pruitt, K.D.1
Tatusova, T.2
Klimke, W.3
Maglott, D.R.4
-
46
-
-
58149185123
-
Ensembl 2009
-
Hubbard, T.J., Aken, B.L., Ayling, S., Ballester, B., Beal, K., Bragin, E., Brent, S., Chen, Y., Clapham, P., Clarke, L. et al. (2009) Ensembl 2009. Nucleic Acids Res., 37, D690-D697.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Hubbard, T.J.1
Aken, B.L.2
Ayling, S.3
Ballester, B.4
Beal, K.5
Bragin, E.6
Brent, S.7
Chen, Y.8
Clapham, P.9
Clarke, L.10
-
47
-
-
75549086850
-
SIMAP-A comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters
-
Rattei, T., Tischler, P., Gotz, S., Jehl, M.A., Hoser, J., Arnold, R., Conesa, A. and Mewes, H.W. (2010) SIMAP-a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters. Nucleic Acids Res., 38, D223-D226.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Rattei, T.1
Tischler, P.2
Gotz, S.3
Jehl, M.A.4
Hoser, J.5
Arnold, R.6
Conesa, A.7
Mewes, H.W.8
-
48
-
-
75849153303
-
The Universal Protein Resource (UniProt) in 2010
-
Apweiler, R., Martin, M.J., O'Donovan, C., Magrane, M., Alam- Faruque, Y., Antunes, R., Barell, D., Bely, B., Bingley, M., Binns, D. et al. (2010) The Universal Protein Resource (UniProt) in 2010. Nucleic Acids Res., 38, D142-D148.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Apweiler, R.1
Martin, M.J.2
O'Donovan, C.3
Magrane, M.4
Alam-Faruque, Y.5
Antunes, R.6
Barell, D.7
Bely, B.8
Bingley, M.9
Binns, D.10
-
49
-
-
58149194624
-
SMART 6: Recent updates and new developments
-
Letunic, I., Doerks, T. and Bork, P. (2009) SMART 6: Recent updates and new developments. Nucleic Acids Res., 37, D229-D232.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Letunic, I.1
Doerks, T.2
Bork, P.3
-
50
-
-
78049480691
-
GeneCards version 3: The human gene integrator
-
baq020
-
Safran, M., Dalah, I., Alexander, J., Rosen, N., Iny Stein, T., Shmoish, M., Nativ, N., Bahir, I., Doniger, T., Krug, H. et al. (2010) GeneCards Version 3: The human gene integrator. Database, 2010, baq020.
-
(2010)
Database
, pp. 2010
-
-
Safran, M.1
Dalah, I.2
Alexander, J.3
Rosen, N.4
Iny Stein, T.5
Shmoish, M.6
Nativ, N.7
Bahir, I.8
Doniger, T.9
Krug, H.10
-
51
-
-
67149113481
-
Reflect: Augmented browsing for the life scientist
-
Pafilis, E., O'Donoghue, S.I., Jensen, L.J., Horn, H., Kuhn, M., Brown, N.P. and Schneider, R. (2009) Reflect: Augmented browsing for the life scientist. Nat. Biotechnol., 27, 508-510.
-
(2009)
Nat. Biotechnol.
, vol.27
, pp. 508-510
-
-
Pafilis, E.1
O'Donoghue, S.I.2
Jensen, L.J.3
Horn, H.4
Kuhn, M.5
Brown, N.P.6
Schneider, R.7
-
52
-
-
30544453247
-
Bioinformatic "Harvester": A search engine for genome-wide human, mouse, and rat protein resources
-
Liebel, U., Kindler, B. and Pepperkok, R. (2005) Bioinformatic "Harvester": A search engine for genome-wide human, mouse, and rat protein resources. Methods Enzymol., 404, 19-26.
-
(2005)
Methods Enzymol.
, vol.404
, pp. 19-26
-
-
Liebel, U.1
Kindler, B.2
Pepperkok, R.3
-
53
-
-
76249090489
-
BioGPS: An extensible and customizable portal for querying and organizing gene annotation resources
-
Wu, C., Orozco, C., Boyer, J., Leglise, M., Goodale, J., Batalov, S., Hodge, C.L., Haase, J., Janes, J., Huss, J.W. 3rd et al. (2009) BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources. Genome Biol., 10, R130.
-
(2009)
Genome Biol.
, vol.10
-
-
Wu, C.1
Orozco, C.2
Boyer, J.3
Leglise, M.4
Goodale, J.5
Batalov, S.6
Hodge, C.L.7
Haase, J.8
Janes, J.9
Huss III, J.W.10
-
54
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon, P., Markiel, A., Ozier, O., Baliga, N.S., Wang, J.T., Ramage, D., Amin, N., Schwikowski, B. and Ideker, T. (2003) Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Res., 13, 2498-2504.
-
(2003)
Genome Res.
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
Amin, N.7
Schwikowski, B.8
Ideker, T.9
-
55
-
-
38449101120
-
Integration of biological networks and gene expression data using Cytoscape
-
Cline, M.S., Smoot, M., Cerami, E., Kuchinsky, A., Landys, N., Workman, C., Christmas, R., Avila-Campilo, I., Creech, M., Gross, B. et al. (2007) Integration of biological networks and gene expression data using Cytoscape. Nat. Protoc., 2, 2366-2382.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 2366-2382
-
-
Cline, M.S.1
Smoot, M.2
Cerami, E.3
Kuchinsky, A.4
Landys, N.5
Workman, C.6
Christmas, R.7
Avila-Campilo, I.8
Creech, M.9
Gross, B.10
-
56
-
-
77952351989
-
Implementing data standards: A report on the HUPOPSI workshop September 2009, Toronto, Canada
-
Orchard, S., Albar, J.P., Deutsch, E.W., Eisenacher, M., Binz, P.A. and Hermjakob, H. (2010) implementing data standards: A report on the HUPOPSI workshop September 2009, Toronto, Canada. Proteomics, 10, 1895-1898.
-
(2010)
Proteomics
, vol.10
, pp. 1895-1898
-
-
Orchard, S.1
Albar, J.P.2
Deutsch, E.W.3
Eisenacher, M.4
Binz, P.A.5
Hermjakob, H.6
-
57
-
-
77950868171
-
Biosynthesis and functions of bacillithiol, a major low-molecular-weight thiol in Bacilli
-
Gaballa, A., Newton, G.L., Antelmann, H., Parsonage, D., Upton, H., Rawat, M., Claiborne, A., Fahey, R.C. and Helmann, J.D. (2010) Biosynthesis and functions of bacillithiol, a major low-molecular-weight thiol in Bacilli. Proc. Natl Acad. Sci. USA, 107, 6482-6486.
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 6482-6486
-
-
Gaballa, A.1
Newton, G.L.2
Antelmann, H.3
Parsonage, D.4
Upton, H.5
Rawat, M.6
Claiborne, A.7
Fahey, R.C.8
Helmann, J.D.9
-
58
-
-
15244349863
-
A copper(I) protein possibly involved in the assembly of CuA center of bacterial cytochrome c oxidase
-
Banci, L., Bertini, I., Ciofi-Baffoni, S., Katsari, E., Katsaros, N., Kubicek, K. and Mangani, S. (2005) A copper(I) protein possibly involved in the assembly of CuA center of bacterial cytochrome c oxidase. Proc. Natl Acad. Sci. USA, 102, 3994-3999.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 3994-3999
-
-
Banci, L.1
Bertini, I.2
Ciofi-Baffoni, S.3
Katsari, E.4
Katsaros, N.5
Kubicek, K.6
Mangani, S.7
-
59
-
-
33646580070
-
Completing the uric acid degradation pathway through phylogenetic comparison of whole genomes
-
Ramazzina, I., Folli, C., Secchi, A., Berni, R. and Percudani, R. (2006) Completing the uric acid degradation pathway through phylogenetic comparison of whole genomes. Nat. Chem. Biol., 2, 144-148.
-
(2006)
Nat. Chem. Biol.
, vol.2
, pp. 144-148
-
-
Ramazzina, I.1
Folli, C.2
Secchi, A.3
Berni, R.4
Percudani, R.5
-
60
-
-
75549087827
-
STITCH 2: An interaction network database for small molecules and proteins
-
Kuhn, M., Szklarczyk, D., Franceschini, A., Campillos, M., von Mering, C., Jensen, L.J., Beyer, A. and Bork, P. (2010) STITCH 2: An interaction network database for small molecules and proteins. Nucleic Acids Res., 38, D552-D556.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Kuhn, M.1
Szklarczyk, D.2
Franceschini, A.3
Campillos, M.4
Von Mering, C.5
Jensen, L.J.6
Beyer, A.7
Bork, P.8
-
61
-
-
75549085495
-
EggNOG v2.0: Extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations
-
Muller, J., Szklarczyk, D., Julien, P., Letunic, I., Roth, A., Kuhn, M., Powell, S., von Mering, C., Doerks, T., Jensen, L.J. et al. (2010) eggNOG v2.0: Extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations. Nucleic Acids Res., 38, D190-D195.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Muller, J.1
Szklarczyk, D.2
Julien, P.3
Letunic, I.4
Roth, A.5
Kuhn, M.6
Powell, S.7
Von Mering, C.8
Doerks, T.9
Jensen, L.J.10
-
62
-
-
67649124461
-
A network-based integrative approach to prioritize reliable hits from multiple genome-wide RNAi screens in Drosophila
-
Wang, L., Tu, Z. and Sun, F. (2009) A network-based integrative approach to prioritize reliable hits from multiple genome-wide RNAi screens in Drosophila. BMC Genomics, 10, 220.
-
(2009)
BMC Genomics
, vol.10
, pp. 220
-
-
Wang, L.1
Tu, Z.2
Sun, F.3
-
63
-
-
65549085440
-
Genome-wide analysis of Notch signalling in Drosophila by transgenic RNAi
-
Mummery-Widmer, J.L., Yamazaki, M., Stoeger, T., Novatchkova, M., Bhalerao, S., Chen, D., Dietzl, G., Dickson, B.J. and Knoblich, J.A. (2009) Genome-wide analysis of Notch signalling in Drosophila by transgenic RNAi. Nature, 458, 987-992.
-
(2009)
Nature
, vol.458
, pp. 987-992
-
-
Mummery-Widmer, J.L.1
Yamazaki, M.2
Stoeger, T.3
Novatchkova, M.4
Bhalerao, S.5
Chen, D.6
Dietzl, G.7
Dickson, B.J.8
Knoblich, J.A.9
-
64
-
-
68949212379
-
Lysine acetylation targets protein complexes and co-regulates major cellular functions
-
Choudhary, C., Kumar, C., Gnad, F., Nielsen, M.L., Rehman, M., Walther, T.C., Olsen, J.V. and Mann, M. (2009) Lysine acetylation targets protein complexes and co-regulates major cellular functions. Science, 325, 834-840.
-
(2009)
Science
, vol.325
, pp. 834-840
-
-
Choudhary, C.1
Kumar, C.2
Gnad, F.3
Nielsen, M.L.4
Rehman, M.5
Walther, T.C.6
Olsen, J.V.7
Mann, M.8
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