-
1
-
-
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, D525-531.
-
(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
-
2
-
-
78651328883
-
The biogrid interaction database: 2011 update
-
Stark, C., Breitkreutz, B.J., Chatr-Aryamontri, A., Boucher, L., Oughtred, R., Livstone, M.S., Nixon, J., Van Auken, K., Wang, X., Shi, X. et al. (2011) The BioGRID Interaction Database: 2011 update. Nucleic Acids Res., 39, D698-704.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Stark, C.1
Breitkreutz, B.J.2
Chatr-Aryamontri, A.3
Boucher, L.4
Oughtred, R.5
Livstone, M.S.6
Nixon, J.7
Van Auken, K.8
Wang, X.9
Shi, X.10
-
3
-
-
75549085083
-
Human protein reference database and human proteinpedia as discovery tools for systems biology
-
Prasad, T.S.K., Kandasamy, K. and Pandey, A. (2009) Human Protein Reference Database and Human Proteinpedia as discovery tools for systems biology. Methods Mol. Biol., 577, 67-79.
-
(2009)
Methods Mol. Biol.
, vol.577
, pp. 67-79
-
-
Prasad, T.S.K.1
Kandasamy, K.2
Pandey, A.3
-
4
-
-
23944458138
-
A general framework for weighted gene co-expression network analysis
-
Article17
-
Zhang, B. and Horvath, S. (2005) A general framework for weighted gene co-expression network analysis. Stat. Appl. Genet. Mol. Biol., 4, Article17.
-
(2005)
Stat. Appl. Genet. Mol. Biol.
, vol.4
-
-
Zhang, B.1
Horvath, S.2
-
5
-
-
0142052944
-
A bayesian networks approach for predicting protein-protein interactions from genomic data
-
Jansen, R., Yu, H., Greenbaum, D., Kluger, Y., Krogan, N.J., Chung, S., Emili, A., Snyder, M., Greenblatt, J.F. and Gerstein, M. (2003) A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science, 302, 449-453.
-
(2003)
Science
, vol.302
, pp. 449-453
-
-
Jansen, R.1
Yu, H.2
Greenbaum, D.3
Kluger, Y.4
Krogan, N.J.5
Chung, S.6
Emili, A.7
Snyder, M.8
Greenblatt, J.F.9
Gerstein, M.10
-
6
-
-
33947305781
-
ARACNE: An algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context
-
Margolin, A.A., Nemenman, I., Basso, K., Wiggins, C., Stolovitzky, G., Dalla Favera, R. and Califano, A. (2006) ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinfo., 7(Suppl. 1), S7.
-
(2006)
BMC Bioinfo.
, vol.7
, Issue.SUPPL. 1
-
-
Margolin, A.A.1
Nemenman, I.2
Basso, K.3
Wiggins, C.4
Stolovitzky, G.5
Dalla Favera, R.6
Califano, A.7
-
7
-
-
78649944559
-
PETALS: Proteomic evaluation and topological analysis of a mutated locus' signaling
-
Bebek, G., Patel, V. and Chance, M.R. (2010) PETALS: Proteomic evaluation and topological analysis of a mutated locus' signaling. BMC Bioinformatics, 11, 596.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 596
-
-
Bebek, G.1
Patel, V.2
Chance, M.R..3
-
8
-
-
9444239213
-
A probabilistic functional network of yeast genes
-
Lee, I., Date, S.V., Adai, A.T. and Marcotte, E.M. (2004) A probabilistic functional network of yeast genes. Science, 306, 1555-1558.
-
(2004)
Science
, vol.306
, pp. 1555-1558
-
-
Lee, I.1
Date, S.V.2
Adai, A.T.3
Marcotte, E.M.4
-
9
-
-
36348983834
-
Current progress in network research: Toward reference networks for key model organisms
-
Srinivasan, B.S., Shah, N.H., Flannick, J.A., Abeliuk, E., Novak, A.F. and Batzoglou, S. (2007) Current progress in network research: toward reference networks for key model organisms. Brief Bioinform., 8, 318-332.
-
(2007)
Brief Bioinform.
, vol.8
, pp. 318-332
-
-
Srinivasan, B.S.1
Shah, N.H.2
Flannick, J.A.3
Abeliuk, E.4
Novak, A.F.5
Batzoglou, S.6
-
10
-
-
0038492417
-
A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae)
-
Troyanskaya, O.G., Dolinski, K., Owen, A.B., Altman, R.B. and Botstein, D. (2003) A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae). Proc. Natl Acad. Sci. USA., 100, 8348-8353.
-
(2003)
Proc. Natl Acad. Sci. USA.
, vol.100
, pp. 8348-8353
-
-
Troyanskaya, O.G.1
Dolinski, K.2
Owen, A.B.3
Altman, R.B.4
Botstein, D.5
-
11
-
-
33745113181
-
Discovery of biological networks from diverse functional genomic data
-
Myers, C.L., Robson, D., Wible, A., Hibbs, M.A., Chiriac, C., Theesfeld, C.L., Dolinski, K. and Troyanskaya, O.G. (2005) Discovery of biological networks from diverse functional genomic data. Genome Biol., 6, R114.
-
(2005)
Genome Biol.
, vol.6
-
-
Myers, C.L.1
Robson, D.2
Wible, A.3
Hibbs, M.A.4
Chiriac, C.5
Theesfeld, C.L.6
Dolinski, K.7
Troyanskaya, O.G.8
-
12
-
-
84862185886
-
Comparative interactomics with Funcoup 2.0
-
Alexeyenko, A., Schmitt, T., Tjarnberg, A., Guala, D., Frings, O. and Sonnhammer, E.L. (2012) Comparative interactomics with Funcoup 2.0. Nucleic Acids Res., 40, D821-828.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Alexeyenko, A.1
Schmitt, T.2
Tjarnberg, A.3
Guala, D.4
Frings, O.5
Sonnhammer, E.L.6
-
13
-
-
77949532033
-
CORNET: A user-friendly tool for data mining and integration
-
De Bodt, S., Carvajal, D., Hollunder, J., Van den Cruyce, J., Movahedi, S. and Inze, D. (2010) CORNET: a user-friendly tool for data mining and integration. Plant Physiol., 152, 1167-1179.
-
(2010)
Plant Physiol.
, vol.152
, pp. 1167-1179
-
-
De Bodt, S.1
Carvajal, D.2
Hollunder, J.3
Van Den Cruyce, J.4
Movahedi, S.5
Inze, D.6
-
14
-
-
84860332776
-
Flybase 101-The basics of navigating flybase
-
McQuilton, P., St Pierre, S.E. and Thurmond, J. (2012) FlyBase 101-the basics of navigating FlyBase. Nucleic Acids Res., 40, D706-714.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
McQuilton, P.1
St Pierre, S.E.2
Thurmond, J.3
-
15
-
-
84858588614
-
Saccharomyces genome database: The genomics resource of budding yeast
-
Cherry, J.M., Hong, E.L., Amundsen, C., Balakrishnan, R., Binkley, G., Chan, E.T., Christie, K.R., Costanzo, M.C., Dwight, S.S., Engel, S.R. et al. (2012) Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res., 40, D700-705.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Cherry, J.M.1
Hong, E.L.2
Amundsen, C.3
Balakrishnan, R.4
Binkley, G.5
Chan, E.T.6
Christie, K.R.7
Costanzo, M.C.8
Dwight, S.S.9
Engel, S.R.10
-
16
-
-
44349113144
-
Estimating the size of the human interactome
-
Stumpf, M.P., Thorne, T., de Silva, E., Stewart, R., An, H.J., Lappe, M. and Wiuf, C. (2008) Estimating the size of the human interactome. Proc. Natl Acad. Sci. USA., 105, 6959-6964.
-
(2008)
Proc. Natl Acad. Sci. USA.
, vol.105
, pp. 6959-6964
-
-
Stumpf, M.P.1
Thorne, T.2
De Silva, E.3
Stewart, R.4
An, H.J.5
Lappe, M.6
Wiuf, C.7
-
17
-
-
36849004088
-
Pathfinder: Mining signal transduction pathway segments from protein-protein interaction networks
-
Bebek, G. and Yang, J. (2007) PathFinder: mining signal transduction pathway segments from protein-protein interaction networks. BMC Bioinformatics, 8, 335.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 335
-
-
Bebek, G.1
Yang, J.2
-
18
-
-
58149182724
-
NCBI GEO: Archive for high-throughput functional genomic data
-
Barrett, T., Troup, D.B., Wilhite, S.E., Ledoux, P., Rudnev, D., Evangelista, C., Kim, I.F., Soboleva, A., Tomashevsky, M., Marshall, K.A. et al. (2009) NCBI GEO: archive for high-throughput functional genomic data. Nucleic Acids Res., 37, D885-890.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Barrett, T.1
Troup, D.B.2
Wilhite, S.E.3
Ledoux, P.4
Rudnev, D.5
Evangelista, C.6
Kim, I.F.7
Soboleva, A.8
Tomashevsky, M.9
Marshall, K.A.10
-
19
-
-
77958518027
-
Prediction and testing of biological networks underlying intestinal cancer
-
Patel, V.N., Bebek, G., Mariadason, J.M., Wang, D., Augenlicht, L.H. and Chance, M.R. (2010) Prediction and testing of biological networks underlying intestinal cancer. PLoS One, 5, e12497.
-
(2010)
PLoS One
, vol.5
-
-
Patel, V.N.1
Bebek, G.2
Mariadason, J.M.3
Wang, D.4
Augenlicht, L.H.5
Chance, M.R.6
-
20
-
-
0032893083
-
MIPS: A database for genomes and protein sequences
-
Mewes, H.W., Heumann, K., Kaps, A., Mayer, K., Pfeiffer, F., Stocker, S. and Frishman, D. (1999) MIPS: a database for genomes and protein sequences. Nucleic Acids Res., 27, 44-48.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 44-48
-
-
Mewes, H.W.1
Heumann, K.2
Kaps, A.3
Mayer, K.4
Pfeiffer, F.5
Stocker, S.6
Frishman, D.7
-
21
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The gene ontology consortium
-
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. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nature Genetics, 25, 25-29.
-
(2000)
Nature Genetics
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
-
22
-
-
0037447257
-
Assessing experimentally derived interactions in a small world
-
Goldberg, D.S. and Roth, F.P. (2003) Assessing experimentally derived interactions in a small world. Proc. Natl Acad. Sci. USA., 100, 4372-4376.
-
(2003)
Proc. Natl Acad. Sci. USA.
, vol.100
, pp. 4372-4376
-
-
Goldberg, D.S.1
Roth, F.P.2
-
23
-
-
33747586075
-
A direct comparison of protein interaction confidence assignment schemes
-
Suthram, S., Shlomi, T., Ruppin, E., Sharan, R. and Ideker, T. (2006) A direct comparison of protein interaction confidence assignment schemes. BMC Bioinformatics, 7, 360.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 360
-
-
Suthram, S.1
Shlomi, T.2
Ruppin, E.3
Sharan, R.4
Ideker, T.5
-
24
-
-
77649168721
-
A general co-expression network-based approach to gene expression analysis: Comparison and applications
-
Ruan, J., Dean, A.K. and Zhang, W. (2010) A general co-expression network-based approach to gene expression analysis: comparison and applications. BMC Systems Biol., 4, 8.
-
(2010)
BMC Systems Biol.
, vol.4
, pp. 8
-
-
Ruan, J.1
Dean, A.K.2
Zhang, W.3
-
25
-
-
0142121516
-
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
-
Irizarry, R.A., Hobbs, B., Collin, F., Beazer-Barclay, Y.D., Antonellis, K.J., Scherf, U. and Speed, T.P. (2003) Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics, 4, 249-264.
-
(2003)
Biostatistics
, vol.4
, pp. 249-264
-
-
Irizarry, R.A.1
Hobbs, B.2
Collin, F.3
Beazer-Barclay, Y.D.4
Antonellis, K.J.5
Scherf, U.6
Speed, T.P.7
|