-
3
-
-
79960375174
-
-
Accessed 7 January 2011, URL
-
BioASP Tools. 2008. Accessed 7 January 2011, URL: http://www.cs.uni- potsdam.de/wv/bioasp
-
(2008)
BioASP Tools
-
-
-
4
-
-
33947201241
-
Transcriptional regulation of yeast phospholipid biosynthetic genes
-
DOI 10.1016/j.bbalip.2006.05.017, PII S1388198106001648, Regulation of Lipid Metabolism in Yeast
-
Chen, M., Hancock, L. and Lopes, J. 2007. Transcriptional regulation of yeast phospholipids biosynthetic genes. Biochimica et Biophysica Acta 1771, 3, 310-321. (Pubitemid 46428607)
-
(2007)
Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids
, vol.1771
, Issue.3
, pp. 310-321
-
-
Chen, M.1
Hancock, L.C.2
Lopes, J.M.3
-
5
-
-
33749578689
-
A scalable algorithm for minimal unsatisfiable core extraction
-
Theory and Applications of Satisfiability Testing, SAT 2006 - 9th International Conference, Proceedings
-
Dershowitz, N., Hanna, Z. and Nadel, A. 2006. A scalable algorithm for minimal unsatisfiable core extraction. In Proc. of the 9th International Conference on Theory and Applications of Satisfiability Testing (SAT'06), A. Biere and C. Gomes, Eds. Springer, 36-41. (Pubitemid 44531741)
-
(2006)
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
, vol.4121
, pp. 36-41
-
-
Dershowitz, N.1
Hanna, Z.2
Nadel, A.3
-
6
-
-
58549088025
-
Conflict-driven disjunctive answer set solving
-
G. Brewka and J. Lang, Eds. AAAI Press
-
Drescher, C., Gebser,M., Grote, T., Kaufmann, B., König, A., Ostrowski, M. and Schaub, T. 2008. Conflict-driven disjunctive answer set solving. In Proc. of the 11th International Conference on Principles of Knowledge Representation and Reasoning (KR'08), G. Brewka and J. Lang, Eds. AAAI Press, 422-432.
-
(2008)
Proc. of the 11th International Conference on Principles of Knowledge Representation and Reasoning (KR'08)
, pp. 422-432
-
-
Drescher, C.1
Gebserm, M.2
Grote, T.3
Kaufmann, B.4
König, A.5
Ostrowski, M.6
Schaub, T.7
-
7
-
-
21844511738
-
On the computational cost of disjunctive logic programming: Propositional case
-
Eiter, T. and Gottlob, G. 1995. On the computational cost of disjunctive logic programming: Propositional case. Annals of Mathematics and Artificial Intelligence 15, 3-4, 289-323.
-
(1995)
Annals of Mathematics and Artificial Intelligence
, vol.15
, Issue.3-4
, pp. 289-323
-
-
Eiter, T.1
Gottlob, G.2
-
9
-
-
0033707946
-
Using Bayesian networks to analyze expression data
-
Friedman, N., Linial, M., Nachman, I. and Pe'er, D. 2000. Using Bayesian networks to analyze expression data. Journal of Computational Biology 7, 3-4, 601-620.
-
(2000)
Journal of Computational Biology
, vol.7
, Issue.3-4
, pp. 601-620
-
-
Friedman, N.1
Linial, M.2
Nachman, I.3
Pe'er, D.4
-
10
-
-
79952021547
-
Repair and prediction (under inconsistency) in large biological networks with answer set programming
-
Gebser, M., Guziolowski, C., Ivanchev, M., Schaub, T., Siegel, A., Thiele, S. and Veber, P. 2010. Repair and prediction (under inconsistency) in large biological networks with answer set programming. In Proc. of the 12th International Conference on Principles of Knowledge Representation and Reasoning (KR'10).
-
(2010)
Proc. of the 12th International Conference on Principles of Knowledge Representation and Reasoning (KR'10)
-
-
Gebser, M.1
Guziolowski, C.2
Ivanchev, M.3
Schaub, T.4
Siegel, A.5
Thiele, S.6
Veber, P.7
-
11
-
-
70349880718
-
On the input language of ASP grounder gringo
-
E. Erdem, F. Lin and T. Schaub, Eds Springer
-
Gebser, M., Kaminski, R., Ostrowski, M., Schaub, T. and Thiele, S. 2009a. On the input language of ASP grounder gringo. In Proc. of the 10th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'09), E. Erdem, F. Lin and T. Schaub, Eds. Springer, 502-508.
-
(2009)
Proc. of the 10th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'09)
, pp. 502-508
-
-
Gebser, M.1
Kaminski, R.2
Ostrowski, M.3
Schaub, T.4
Thiele, S.5
-
12
-
-
38049077926
-
Conflict-driven answer set enumeration
-
C. Baral, G. Brewka and J. Schlipf, Eds Springer
-
Gebser, M., Kaufmann, B., Neumann, A. and Schaub, T. 2007. Conflict-driven answer set enumeration. In Proc. of the 9th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'07), C. Baral, G. Brewka and J. Schlipf, Eds. Springer, 136-148.
-
(2007)
Proc. of the 9th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'07)
, pp. 136-148
-
-
Gebser, M.1
Kaufmann, B.2
Neumann, A.3
Schaub, T.4
-
13
-
-
69849090800
-
Solution enumeration for projected Boolean search problems
-
W. van Hoeve and J. Hooker, Eds Springer
-
Gebser, M., Kaufmann, B. and Schaub, T. 2009b. Solution enumeration for projected Boolean search problems. In Proc. of the 6th International Conference on Integration of AI and OR Techniques in Constraint Programming for Combinatorial Optimization Problems (CPAIOR'09), W. van Hoeve and J. Hooker, Eds. Springer, 71-86.
-
(2009)
Proc. of the 6th International Conference on Integration of AI and or Techniques in Constraint Programming for Combinatorial Optimization Problems (CPAIOR'09)
, pp. 71-86
-
-
Gebser, M.1
Kaufmann, B.2
Schaub, T.3
-
14
-
-
70349876575
-
The conflict-driven answer set solver clasp: Progress report
-
E. Erdem, F. Lin and T. Schaub, Eds Springer
-
Gebser, M., Kaufmann, B. and Schaub, T. 2009c. The conflict-driven answer set solver clasp: Progress report. In Proc. of the 10th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'09), E. Erdem, F. Lin and T. Schaub, Eds. Springer, 509-514.
-
(2009)
Proc. of the 10th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR'09)
, pp. 509-514
-
-
Gebser, M.1
Kaufmann, B.2
Schaub, T.3
-
15
-
-
56649107837
-
Answer sets
-
V. Lifschitz, F. van Hermelen and B. Porter, Eds Elsevier
-
Gelfond, M. 2008. Answer sets. In Handbook of Knowledge Representation, V. Lifschitz, F. van Hermelen and B. Porter, Eds. Elsevier, 285-316.
-
(2008)
Handbook of Knowledge Representation
, pp. 285-316
-
-
Gelfond, M.1
-
16
-
-
0008437123
-
Disjunctive defaults
-
J. Allen, R. Fikes and E. Sandewall, Eds. Morgan Kaufmann
-
Gelfond, M., Lifschitz, V., Przymusinska, H. and Truszczyński, M. 1991. Disjunctive defaults. In Proc. of the 2nd International Conference on Principles of Knowledge Representation and Reasoning (KR'91), J. Allen, R. Fikes and E. Sandewall, Eds. Morgan Kaufmann, 230-237.
-
(1991)
Proc. of the 2nd International Conference on Principles of Knowledge Representation and Reasoning (KR'91)
, pp. 230-237
-
-
Gelfond, M.1
Lifschitz, V.2
Przymusinska, H.3
Truszczyński, M.4
-
17
-
-
33845971483
-
Answer set programming based on propositional satisfiability
-
DOI 10.1007/s10817-006-9033-2, Empirically Successful Automated Reasoning: Systems Issue
-
Giunchiglia, E., Lierler, Y. and Maratea, M. 2006. Answer set programming based on propositional satisfiability. Journal of Automated Reasoning 36, 4, 345-377. (Pubitemid 46046675)
-
(2006)
Journal of Automated Reasoning
, vol.36
, Issue.4
, pp. 345-377
-
-
Giunchiglia, E.1
Lierler, Y.2
Maratea, M.3
-
18
-
-
0036578654
-
Topological and causal structure of the yeast transcriptional regulatory network
-
Guelzim, N., Bottani, S., Bourgine, P. and Kép'es, F. 2002. Topological and causal structure of the yeast transcriptional regulatory network. Nature Genetics 31, 60-63.
-
(2002)
Nature Genetics
, vol.31
, pp. 60-63
-
-
Guelzim, N.1
Bottani, S.2
Bourgine, P.3
Kép'es, F.4
-
19
-
-
0242407438
-
Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles
-
DOI 10.1101/gr.1387003
-
Gutierrez-Rios, R., Rosenblueth, D., Loza, J., Huerta, A., Glasner, J., Blattner, F. and Collado-Vides, J. 2003. Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles. Genome Research 13, 11, 2435-2443. (Pubitemid 37428267)
-
(2003)
Genome Research
, vol.13
, Issue.11
, pp. 2435-2443
-
-
Gutierrez-Rios, R.M.1
Rosenblueth, D.A.2
Loza, J.A.3
Huerta, A.M.4
Glasner, J.D.5
Blattner, F.R.6
Collado-Vides, J.7
-
20
-
-
67649085724
-
Bioquali cytoscape plugin: Analysing the global consistency of regulatory networks
-
Guziolowski, C., Bourde, A., Moreews, F. and Siegel, A. 2009. Bioquali cytoscape plugin: Analysing the global consistency of regulatory networks. BMC Genomics 10.
-
(2009)
BMC Genomics
, vol.10
-
-
Guziolowski, C.1
Bourde, A.2
Moreews, F.3
Siegel, A.4
-
21
-
-
44949177237
-
Checking consistency between expression data and large scale regulatory networks: A case study
-
Guziolowski, C., Veber, P., Le Borgne, M., Radulescu, O. and Siegel, A. 2007. Checking consistency between expression data and large scale regulatory networks: A case study. Journal of Biological Physics and Chemistry 7, 2, 37-43.
-
(2007)
Journal of Biological Physics and Chemistry
, vol.7
, Issue.2
, pp. 37-43
-
-
Guziolowski, C.1
Veber, P.2
Le Borgne, M.3
Radulescu, O.4
Siegel, A.5
-
22
-
-
33745231666
-
Unfolding partiality and disjunctions in stable model semantics
-
Janhunen, T., Niemelä, I., Seipel, D., Simons, P. and You, J. 2006. Unfolding partiality and disjunctions in stable model semantics. ACM Transactions on Computational Logic 7, 1, 1-37. (Pubitemid 43924967)
-
(2006)
ACM Transactions on Computational Logic
, vol.7
, Issue.1
, pp. 1-37
-
-
Janhunen, T.1
Niemela, I.2
Seipel, D.3
Simons, P.4
You, J.-H.5
-
23
-
-
0034609791
-
The large-scale organization of metabolic networks
-
Jeong, H., Tombor, B., Albert, R., Oltvai, Z. and Barabási, A. 2000. The large-scale organization of metabolic networks. Nature 407, 651-654.
-
(2000)
Nature
, vol.407
, pp. 651-654
-
-
Jeong, H.1
Tombor, B.2
Albert, R.3
Oltvai, Z.4
Barabási, A.5
-
24
-
-
33750247353
-
Stoichiometric and constraint-based modelling
-
Z. Szallasi, J. Stelling and V. Periwal, Eds MIT Press
-
Klamt, S. and Stelling, J. 2006. Stoichiometric and constraint-based modelling. In System Modeling in Cellular Biology: From Concepts to Nuts and Bolts, Z. Szallasi, J. Stelling and V. Periwal, Eds. MIT Press, 73-96.
-
(2006)
System Modeling in Cellular Biology: From Concepts to Nuts and Bolts
, pp. 73-96
-
-
Klamt, S.1
Stelling, J.2
-
26
-
-
33745244351
-
The DLV system for knowledge representation and reasoning
-
DOI 10.1145/1149114.1149117
-
Leone, N., Pfeifer, G., Faber, W., Eiter, T., Gottlob, G., Perri, S. and Scarcello, F. 2006. The DLV system for knowledge representation and reasoning. ACM Transactions on Computational Logic 7, 3, 499-562. (Pubitemid 44330485)
-
(2006)
ACM Transactions on Computational Logic
, vol.7
, Issue.3
, pp. 499-562
-
-
Leone, N.1
Pfeifer, G.2
Faber, W.3
Eiter, T.4
Gottlob, G.5
Perri, S.6
Scarcello, F.7
-
27
-
-
34748920975
-
Meiosis-specific destruction of the Ume6p repressor by the Cdc20-directed APC/C
-
DOI 10.1016/j.molcel.2007.08.019, PII S109727650700562X
-
Mallory, M., Cooper, K. and Strich, R. 2007. Meiosis-specific destruction of the Ume6p repressor by the Cdc20-directed APC/C. Molecular Cell 27, 6, 951-961. (Pubitemid 47488188)
-
(2007)
Molecular Cell
, vol.27
, Issue.6
, pp. 951-961
-
-
Mallory, M.J.1
Cooper, K.F.2
Strich, R.3
-
29
-
-
49549085003
-
Graphic requirements for multistability and attractive cycles in a Boolean dynamical framework
-
Remy, É., Ruet, P. and Thieffry, D. 2008. Graphic requirements for multistability and attractive cycles in a Boolean dynamical framework. Advances in Applied Mathematics 41, 3, 335-350.
-
(2008)
Advances in Applied Mathematics
, vol.41
, Issue.3
, pp. 335-350
-
-
Remy, E.1
Ruet, P.2
Thieffry, D.3
-
30
-
-
24044438215
-
R. Thomas' modeling of biological regulatory Networks: Introduction of singular states in the qualitative dynamics
-
Richard, A., Comet, J. and Bernot, G. 2004. R. Thomas' modeling of biological regulatory networks: Introduction of singular states in the qualitative dynamics. Fundamenta Informaticae 65, 4, 373-392. (Pubitemid 41218101)
-
(2005)
Fundamenta Informaticae
, vol.65
, Issue.4
, pp. 373-392
-
-
Richard, A.1
Comet, J.-P.2
Bernot, G.3
-
31
-
-
33646010660
-
Qualitative analysis of the relation between DNA microarray data and behavioral models of regulation networks
-
Siegel, A., Radulescu, O., Le Borgne, M., Veber, P., Ouy, J. and Lagarrigue, S. 2006. Qualitative analysis of the relation between DNA microarray data and behavioral models of regulation networks. Biosystems 84, 2, 153-174.
-
(2006)
Biosystems
, vol.84
, Issue.2
, pp. 153-174
-
-
Siegel, A.1
Radulescu, O.2
Le Borgne, M.3
Veber, P.4
Ouy, J.5
Lagarrigue, S.6
-
32
-
-
7744230024
-
Graphic requirements for multistationarity
-
Soulé, C. 2003. Graphic requirements for multistationarity. Complexus 1, 3, 123-133.
-
(2003)
Complexus
, vol.1
, Issue.3
, pp. 123-133
-
-
Soulé, C.1
-
33
-
-
30344488719
-
Mathematical approaches to differentiation and gene regulation
-
DOI 10.1016/j.crvi.2005.10.002, PII S1631069105001800
-
Soulé, C. 2006. Mathematical approaches to differentiation and gene regulation. Comptes Rendus Biologies 329, 13-20. (Pubitemid 43056268)
-
(2006)
Comptes Rendus - Biologies
, vol.329
, Issue.1
, pp. 13-20
-
-
Soule, C.1
-
34
-
-
0034724394
-
Whole-genome expression analysis of Snf/Swi mutants of Saccharomyces cerevisiae
-
DOI 10.1073/pnas.050407197
-
Sudarsanam, P., Iyer, V., Brown, P. and Winston, F. 2000. Whole-genome expression analysis of snf/swi mutants of Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America 97, 7, 3364-3369. (Pubitemid 30183308)
-
(2000)
Proceedings of the National Academy of Sciences of the United States of America
, vol.97
, Issue.7
, pp. 3364-3369
-
-
Sudarsanam, P.1
Iyer, V.R.2
Brown, P.O.3
Winston, F.4
-
35
-
-
0344128081
-
-
Accessed 7 January
-
Syrjänen, T. Lparse 1.0 user's manual, Accessed 7 January 2011. URL: http://www.tcs.hut.fi/Software/smodels/lparse.ps.gz
-
(2011)
Lparse 1.0 User's Manual
-
-
Syrjänen, T.1
-
36
-
-
33747843935
-
Complex qualitative models in biology: A new approach
-
DOI 10.1159/000093686
-
Veber, P., Le Borgne, M., Siegel, A., Lagarrigue, S. and Radulescu, O. 2004. Complex qualitative models in biology: A new approach. Complexus 2, 3-4, 140-151. (Pubitemid 44285812)
-
(2006)
Complexus
, vol.2
, Issue.3-4
, pp. 140-151
-
-
Veber, P.1
Le Borgne, M.2
Siegel, A.3
Lagarrigue, S.4
Radulescu, O.5
-
37
-
-
0034996711
-
Identification of the Sin3-binding site in Ume6 defines a two-step process for conversion of Ume6 from a transcriptional repressor to an activator in yeast
-
DOI 10.1128/MCB.21.6.2057-2069.2001
-
Washburn, B. and Esposito, R. 2006. Identification of the Sin3-binding site in Ume6 defines a two-step process for conversion of Ume6 from a transcriptional repressor to an activator in yeast. Molecular and Cellular Biology 21, 6, 2057-2069. (Pubitemid 32479628)
-
(2001)
Molecular and Cellular Biology
, vol.21
, Issue.6
, pp. 2057-2069
-
-
Washburn, B.K.1
Esposito, R.E.2
|