@article{OBRIEN_2017,
	Author = {Stein-O’Brien, Genevieve L. and Carey, Jacob L. and Lee, Wai S. and Considine, Michael and Favorov, Alexander V. and  Flam, Emily and Guo, Theresa and Li, Sijia and Marchionni, Luigi and Sherman, Thomas D. and Sivy, Shawn and Gaykalova, Daria A. and McKay, Ronald D. and Ochs, Michael F. and Colantuoni, Carlo and Fertig, Elana J.},
	Year = {2017},
	Title = {PatternMarkers & GWCoGAPS for Novel Data-Driven Biomarkers via Whole Transcriptome NMF},
	Journal = {Bioinformatics},
	Volume = {33},
	Number = {12},
	Pages = {1892-1894},
	Doi = {10.1093/bioinformatics/btx058}}

@article{FERTIG_2010,
	Author = {Fertig, Elana J. and Ding, Jie and Favorov, Alexander V. and Parmigiani, Giovanni and Ochs, Michael F.},
	Year = {2010},
	Title = {CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data},
	Journal = {Bioinformatics},
	Volume = {26},
	Number = {21},
	Pages = {2792-2793},
	Doi = {10.1093/bioinformatics/btq503}}

@article{SEUNG_1999,
	Author = {Seung, Sebastian and Lee, Daniel D.},
	Year = {1999},
	Title = {Learning the Parts of Objects by Non-Negative Matrix Factorization},
	Journal = {Nature},
	Volume = {401},
	Number = {6755},
	Pages = {788-791},
	Doi = {10.1038/44565}}

@conference{FERTIG_2012,
	Author = {Fertig, Elana J. and Favorov, Alexander V. and Ochs, Michael F.},
 	Year = {2012},
	Title = {Identifying Context-Specific Transcription Factor Targets from Prior Knowledge and Gene Expression Data},
	Booktitle = {IEEE International Conference on Bioinformatics and Biomedicine},
	Address = {Philadelphia, PA, USA}}

@incollection{OCHS_2003,
	Author = {Ochs, Michael F.},
	Year = {2003},
	Title = {Bayesian Decomposition},
	Booktitle = {The Analysis of Gene Expression Data: Methods and Software},
	Editor = {Parmigiani, Giovanni and Garett, Elizabeth S. and Irizarry, Rafael A. and Zeger, Scott L.},
	Address = {New York},
 	Publisher = {Springer-Verlag}}

@article{OCHS_2009,
	Author = {Ochs, Michael F. and Rink, Lori and Tarn, Chi and Mburu, Sarah and Taguchi, Takahiro and Eisenberg, Burton and Godwin, Andrew K.},
	Year = {2009},
	Title = {Detection of Treatment-Induced Changes in Signaling Pathways in Gastrointestinal Stromal Tumors Using Transcriptomic Data},
	Journal = {Cancer Research},
	Volume = {69},
	Number = {23},
	Pages = {9125-9132},
	Doi = {10.1158/0008-5472.CAN-09-1709}}

