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97 results
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A genome-scale modeling approach to study inborn errors of liver metabolism: toward an in silico patient.
Pagliarini R, di Bernardo D. Pagliarini R, et al. Among authors: di bernardo d. J Comput Biol. 2013 May;20(5):383-97. doi: 10.1089/cmb.2012.0276. Epub 2013 Mar 6. J Comput Biol. 2013. PMID: 23464878 Free PMC article.
Robust identification of large genetic networks.
Di Bernardo D, Gardner TS, Collins JJ. Di Bernardo D, et al. Pac Symp Biocomput. 2004:486-97. doi: 10.1142/9789812704856_0046. Pac Symp Biocomput. 2004. PMID: 14992527
Chemogenomic profiling on a genome-wide scale using reverse-engineered gene networks.
di Bernardo D, Thompson MJ, Gardner TS, Chobot SE, Eastwood EL, Wojtovich AP, Elliott SJ, Schaus SE, Collins JJ. di Bernardo D, et al. Nat Biotechnol. 2005 Mar;23(3):377-83. doi: 10.1038/nbt1075. Nat Biotechnol. 2005. PMID: 15765094
Inference of gene regulatory networks and compound mode of action from time course gene expression profiles.
Bansal M, Della Gatta G, di Bernardo D. Bansal M, et al. Among authors: di bernardo d. Bioinformatics. 2006 Apr 1;22(7):815-22. doi: 10.1093/bioinformatics/btl003. Epub 2006 Jan 17. Bioinformatics. 2006. PMID: 16418235
Computational framework for the prediction of transcription factor binding sites by multiple data integration.
Ambesi-Impiombato A, Bansal M, LiĆ² P, di Bernardo D. Ambesi-Impiombato A, et al. Among authors: di bernardo d. BMC Neurosci. 2006 Oct 30;7 Suppl 1(Suppl 1):S8. doi: 10.1186/1471-2202-7-S1-S8. BMC Neurosci. 2006. PMID: 17118162 Free PMC article. Review.
Discovering drug mode of action using reverse-engineered gene networks.
Bansal M, Della Gatta G, Wierzbowski J, Gardner T, di Bernardo D. Bansal M, et al. Among authors: di bernardo d. Conf Proc IEEE Eng Med Biol Soc. 2005;2005:4739-42. doi: 10.1109/IEMBS.2005.1615530. Conf Proc IEEE Eng Med Biol Soc. 2005. PMID: 17281300
How to infer gene networks from expression profiles.
Bansal M, Belcastro V, Ambesi-Impiombato A, di Bernardo D. Bansal M, et al. Among authors: di bernardo d. Mol Syst Biol. 2007;3:78. doi: 10.1038/msb4100120. Epub 2007 Feb 13. Mol Syst Biol. 2007. PMID: 17299415 Free PMC article.
Inference of gene networks from temporal gene expression profiles.
Bansal M, di Bernardo D. Bansal M, et al. Among authors: di bernardo d. IET Syst Biol. 2007 Sep;1(5):306-12. doi: 10.1049/iet-syb:20060079. IET Syst Biol. 2007. PMID: 17907680
Direct targets of the TRP63 transcription factor revealed by a combination of gene expression profiling and reverse engineering.
Della Gatta G, Bansal M, Ambesi-Impiombato A, Antonini D, Missero C, di Bernardo D. Della Gatta G, et al. Among authors: di bernardo d. Genome Res. 2008 Jun;18(6):939-48. doi: 10.1101/gr.073601.107. Epub 2008 Apr 25. Genome Res. 2008. PMID: 18441228 Free PMC article.
Identifying network of drug mode of action by gene expression profiling.
Iorio F, Tagliaferri R, di Bernardo D. Iorio F, et al. Among authors: di bernardo d. J Comput Biol. 2009 Feb;16(2):241-51. doi: 10.1089/cmb.2008.10TT. J Comput Biol. 2009. PMID: 19183001
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