The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo
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* Corresponding author: Richard Bonneau bonneau@cs.nyu.edu
Genome Biology 2006, 7:R36 doi:10.1186/gb-2006-7-5-r36
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BioMed Central: 11 citations
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Research article
Jason E McDermott, Harish Shankaran, Amie J Eisfeld, Sarah E Belisle, Gabriele Neuman, Chengjun Li, Shannon McWeeney, Carol Sabourin, Yoshihiro Kawaoka, Michael G Katze, Katrina M Waters BMC Systems Biology 2011, 5:190 (11 November 2011) |
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Research
Construction of gene regulatory networks using biclustering and bayesian networks Fadhl M Alakwaa, Nahed H Solouma, Yasser M Kadah Theoretical Biology and Medical Modelling 2011, 8:39 (22 October 2011) |
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Software review
A proof of the DBRF-MEGN method, an algorithm for deducing minimum equivalent gene networks Koji Kyoda, Kotaro Baba, Hiroaki Kitano, Shuichi Onami Source Code for Biology and Medicine 2011, 6:12 (24 June 2011) |
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Research article
Marc T Facciotti, Wyming L Pang, Fang-yin Lo, Kenia Whitehead, Tie Koide, Ken-ichi Masumura, Min Pan, Amardeep Kaur, David J Larsen, David J Reiss, Linh Hoang, Ewa Kalisiak, Trent Northen, Sunia A Trauger, Gary Siuzdak, Nitin S Baliga BMC Systems Biology 2010, 4:64 (14 May 2010) |
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Methodology article
Classification and biomarker identification using gene network modules and support vector machines Malik Yousef, Mohamed Ketany, Larry Manevitz, Louise C Showe, Michael K Showe BMC Bioinformatics 2009, 10:337 (15 October 2009) |
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Research
Javier Carrera, Guillermo Rodrigo, Alfonso Jaramillo, Santiago F Elena Genome Biology 2009, 10:R96 (15 September 2009) An Arabidopsis thaliana transcriptional network reveals regulatory mechanisms for the control of genes related to stress adaptation. |
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Research article
Tom Michoel, Riet De Smet, Anagha Joshi, Yves Van de Peer, Kathleen Marchal BMC Systems Biology 2009, 3:49 (7 May 2009) |
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Technical Note
Model selection in the reconstruction of regulatory networks from time-series data Eugene Novikov, Emmanuel Barillot BMC Research Notes 2009, 2:68 (5 May 2009) |
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Method
Karen Lemmens, Tijl De Bie, Thomas Dhollander, Sigrid C De Keersmaecker, Inge M Thijs, Geert Schoofs, Ami De Weerdt, Bart De Moor, Jos Vanderleyden, Julio Collado-Vides, Kristof Engelen, Kathleen Marchal Genome Biology 2009, 10:R27 (6 March 2009) DISTILLER, a data integration framework for the inference of transcriptional module networks, is presented and used to investigate the condition dependency and modularity in Escherichia coli networks. |
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Review
Inferring cellular networks – a review Florian Markowetz, Rainer Spang BMC Bioinformatics 2007, 8(Suppl 6):S5 (27 September 2007) |
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Methodology article
David J Reiss, Nitin S Baliga, Richard Bonneau BMC Bioinformatics 2006, 7:280 (2 June 2006) |