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ORCIDMichael F. Ochs
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2010 – 2019
- 2018
[j17]Bahman Afsari, Theresa Guo, Michael Considine, Liliana Florea, Luciane T. Kagohara, Genevieve L. Stein-O'Brien, Dylan Kelley, Emily Flam
, Kristina D. Zambo, Patrick K. Ha, Donald Geman, Michael F. Ochs, Joseph A. Califano, Daria A. Gaykalova, Alexander V. Favorov, Elana J. Fertig:
Splice Expression Variation Analysis (SEVA) for inter-tumor heterogeneity of gene isoform usage in cancer. Bioinform. 34(11): 1859-1867 (2018)- 2017
- [j16]Genevieve L. Stein-O'Brien, Jacob L. Carey, Waishing Lee, Michael Considine, Alexander V. Favorov, Emily Flam, Theresa Guo, Sijia Li, Luigi Marchionni, Thomas Sherman, Shawn Sivy, Daria A. Gaykalova, Ronald McKay, Michael F. Ochs, Carlo Colantuoni, Elana J. Fertig:
PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF. Bioinform. 33(12): 1892-1894 (2017) - 2015
- [c12]Conor J. Kelton, Waishing Lee, Matthew Rusay, Ondrej Maxian, Elana J. Fertig, Michael F. Ochs:
The estimation of dimensionality in gene expression data using Nonnegative Matrix Factorization. BIBM 2015: 1642-1649 - [i1]Michael Considine, Hilary S. Parker, Yingying Wei, Xaio Xia, Leslie Cope, Michael F. Ochs, Elana J. Fertig:
AGA: Interactive pipeline for reproducible genomics analyses. F1000Research 4: 28 (2015) - 2014
- [j15]Michael F. Ochs, Jason E. Farrar, Michael Considine, Yingying Wei, Soheil Meshinchi, Robert J. Arceci:
Outlier Analysis and Top Scoring Pairfor Integrated Data Analysisand Biomarker Discovery. IEEE ACM Trans. Comput. Biol. Bioinform. 11(3): 520-532 (2014) - 2013
- [c11]Michael F. Ochs, Jason E. Farrar, Michael Considine, Yingying Wei, Soheil Meschinchi, Robert J. Arceci:
Outlier Gene Set Analysis Combined with Top Scoring Pair Provides Robust Biomarkers of Pathway Activity. PRIB 2013: 47-58 - [c10]Rachel Karchin, Michael F. Ochs, Joshua M. Stuart, Trey Ideker, Joel S. Bader:
Session Introduction. Pacific Symposium on Biocomputing 2013: 103-110 - 2012
- [j14]William Speier, Michael F. Ochs:
Updating annotations with the distributed annotation system and the automated sequence annotation pipeline. Bioinform. 28(21): 2858-2859 (2012) - [c9]Elana J. Fertig, Alexander V. Favorov, Michael F. Ochs:
Identifying context-specific transcription factor targets from prior knowledge and gene expression data. BIBM 2012: 1-6 - [c8]Michael F. Ochs, Elana J. Fertig:
Matrix factorization for transcriptional regulatory network inference. CIBCB 2012: 387-396 - [c7]Rachel Karchin, Michael F. Ochs, Joshua M. Stuart, Joel S. Bader:
Session Introduction. Pacific Symposium on Biocomputing 2012: 1-6 - 2011
- [j13]Erdem Yörük, Michael F. Ochs, Donald Geman, Laurent Younes:
A Comprehensive Statistical Model for Cell Signaling. IEEE ACM Trans. Comput. Biol. Bioinform. 8(3): 592-606 (2011) - [c6]Michael F. Ochs, Rachel Karchin, Habtom W. Ressom, Robert Gentleman:
Workshop Introduction. Pacific Symposium on Biocomputing 2011: 364-368 - [p1]Elana J. Fertig, Ludmila V. Danilova, Michael F. Ochs:
Cancer Systems Biology. Handbook of Statistical Bioinformatics 2011: 533-565 - 2010
- [j12]Michael F. Ochs:
Knowledge-based data analysis comes of age. Briefings Bioinform. 11(1): 30-39 (2010) - [j11]Elana J. Fertig, Jie Ding, Alexander V. Favorov, Giovanni Parmigiani, Michael F. Ochs:
CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data. Bioinform. 26(21): 2792-2793 (2010) - [j10]Andrew V. Kossenkov, Michael F. Ochs:
Matrix factorisation methods applied in microarray data analysis. Int. J. Data Min. Bioinform. 4(1): 72-90 (2010)
2000 – 2009
- 2009
- [c5]Michael F. Ochs, John Quackenbush, Ramana Davuluri, Habtom W. Ressom:
Session Introduction. Pacific Symposium on Biocomputing 2009: 353-355 - 2008
- [c4]Michael F. Ochs, John Quackenbush, Ramana Davuluri:
Session Introduction. Pacific Symposium on Biocomputing 2008: 137-140 - 2007
- [c3]Andrew V. Kossenkov, Aidan J. Peterson, Michael F. Ochs:
Determining Transcription Factor Activity from Microarray Data using Bayesian Markov Chain Monte Carlo Sampling. MedInfo 2007: 1250-1254 - 2006
- [j9]Ghislain Bidaut, Karsten Suhre, Jean-Michel Claverie, Michael F. Ochs:
Determination of strongly overlapping signaling activity from microarray data. BMC Bioinform. 7: 99 (2006) - [j8]Guoli Wang, Andrew V. Kossenkov, Michael F. Ochs:
LS-NMF: A modified non-negative matrix factorization algorithm utilizing uncertainty estimates. BMC Bioinform. 7: 175 (2006) - [j7]Ghislain Bidaut, Frank J. Manion, Christophe Garcia, Michael F. Ochs:
WaveRead: Automatic measurement of relative gene expression levels from microarrays using wavelet analysis. J. Biomed. Informatics 39(4): 379-388 (2006) - [c2]Olga Tchuvatkina, Liat Shimoni, Michael F. Ochs, Thomas D. Moloshok:
Proteomics LIMS: A caBIG™ Project, Year 1. AMIA 2006 - 2005
- [j6]Truman R. Brown, Michael F. Ochs, William D. Rooney, Radka Stoyanova, Xin Li, Charles S. Springer Jr.:
Bayesian image decomposition applied to relaxographic imaging. Int. J. Imaging Syst. Technol. 15(1): 2-9 (2005) - 2004
- [j5]Jeffrey D. Grant, Luke A. Somers, Yue Zhang, Frank J. Manion, Ghislain Bidaut, Michael F. Ochs:
FGDP: functional genomics data pipeline for automated, multiple microarray data analyses. Bioinform. 20(2): 282-283 (2004) - [j4]Ghislain Bidaut, Michael F. Ochs:
ClutrFree: cluster tree visualization and interpretation. Bioinform. 20(16): 2869-2871 (2004) - 2003
- [j3]Andrew V. Kossenkov, Frank J. Manion, Eugene V. Korotkov, Thomas D. Moloshok, Michael F. Ochs:
ASAP: automated sequence annotation pipeline for web-based updating of sequence information with a local dynamic database. Bioinform. 19(5): 675-676 (2003) - [c1]Ghislain Bidaut, Karsten Suhre, Jean-Michel Claverie, Michael F. Ochs:
Analysis of Phylogenetic Profiles Using Bayesian Decomposition. CSB 2003: 480-481 - 2002
- [j2]Thomas D. Moloshok, R. R. Klevecz, Jeffrey D. Grant, Frank J. Manion, W. F. Speier IV, Michael F. Ochs:
Application of Bayesian Decomposition for analysing microarray data. Bioinform. 18(4): 566-575 (2002) - [j1]Jeffrey D. Grant, Roland L. Dunbrack Jr., Frank J. Manion, Michael F. Ochs:
BeoBLAST: distributed BLAST and PSI-BLAST on a Beowulf cluster. Bioinform. 18(5): 765-766 (2002)
Coauthor Index
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