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Michael 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
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
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
The estimation of dimensionality in gene expression data using Nonnegative Matrix Factorization. BIBM 2015: 1642-1649 - [i1]Michael Considine, Hilary S. Parker, Yingying Wei
AGA: Interactive pipeline for reproducible genomics analyses. F1000Research 4: 28 (2015) - 2014
- [j15]Michael F. Ochs, Jason E. Farrar
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
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
Updating annotations with the distributed annotation system and the automated sequence annotation pipeline. Bioinform. 28(21): 2858-2859 (2012) - [c9]Elana J. Fertig
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
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
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
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
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
FGDP: functional genomics data pipeline for automated, multiple microarray data analyses. Bioinform. 20(2): 282-283 (2004) - [j4]Ghislain Bidaut
ClutrFree: cluster tree visualization and interpretation. Bioinform. 20(16): 2869-2871 (2004) - 2003
- [j3]Andrew V. Kossenkov, Frank J. Manion
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
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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