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ORCIDTheo A. Knijnenburg
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2020 – today
- 2022
[j10]Rory M. Donovan-Maiye
, Eva Maxfield Brown, K. Caleb Chan, Liya Ding, Calysta Yan, Nathalie Gaudreault, Julie A. Theriot, Mary M. Maleckar, Theo A. Knijnenburg, Gregory R. Johnson:
A deep generative model of 3D single-cell organization. PLoS Comput. Biol. 18(1) (2022)
2010 – 2019
- 2017
- [j9]William Poole, Kalle Leinonen, Ilya Shmulevich, Theo A. Knijnenburg, Brady Bernard:
Multiscale mutation clustering algorithm identifies pan-cancer mutational clusters associated with pathway-level changes in gene expression. PLoS Comput. Biol. 13(2) (2017) - 2016
- [j8]William Poole, David L. Gibbs, Ilya Shmulevich, Brady Bernard, Theo A. Knijnenburg:
Combining dependent P-values with an empirical adaptation of Brown's method. Bioinform. 32(17): 430-436 (2016) - 2012
- [j7]Ryan Bressler, Jake Lin, Andrea Eakin, Thomas Robinson, Richard Kreisberg, Hector Rovira, Theo A. Knijnenburg, John Boyle, Ilya Shmulevich:
Fastbreak: a tool for analysis and visualization of structural variations in genomic data. EURASIP J. Bioinform. Syst. Biol. 2012: 15 (2012) - 2011
- [j6]Theo A. Knijnenburg, Jake Lin, Hector Rovira, John Boyle, Ilya Shmulevich:
EPEPT: A web service for enhanced P-value estimation in permutation tests. BMC Bioinform. 12: 411 (2011) - 2010
- [j5]Stephen A. Ramsey, Theo A. Knijnenburg, Kathleen A. Kennedy, Daniel E. Zak, Mark Gilchrist, Elizabeth S. Gold, Carrie D. Johnson, Aaron E. Lampano, Vladimir Litvak, Garnet Navarro, Tetyana Stolyar, Alan Aderem, Ilya Shmulevich:
Genome-wide histone acetylation data improve prediction of mammalian transcription factor binding sites. Bioinform. 26(17): 2071-2075 (2010)
2000 – 2009
- 2009
- [j4]Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders, Ilya Shmulevich:
Fewer permutations, more accurate P-values. Bioinform. 25(12) (2009) - 2008
- [j3]Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders:
Creating gene set activity profiles with time-series expression data. Int. J. Bioinform. Res. Appl. 4(3): 306-323 (2008) - [c3]Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders:
Combinatorial influence of environmental parameters on transcription factor activity. ISMB 2008: 172-181 - 2007
- [j2]Maarten Clements, Eugene P. van Someren, Theo A. Knijnenburg, Marcel J. T. Reinders:
Integration of Known Transcription Factor Binding Site Information and Gene Expression Data to Advance from Co-Expression to Co-Regulation. Genom. Proteom. Bioinform. 5(2): 86-101 (2007) - 2006
- [j1]Theo A. Knijnenburg, Marcel J. T. Reinders, Lodewyk F. A. Wessels:
Artifacts of Markov blanket filtering based on discretized features in small sample size applications. Pattern Recognit. Lett. 27(7): 709-714 (2006) - [c2]Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders:
Condition Transition Analysis Reveals TF Activity Related to Nutrient-Limitation-Specific Effects of Oxygen Presence in Yeast. CMSB 2006: 271-284 - 2005
- [c1]Theo A. Knijnenburg, Marcel J. T. Reinders, Jean-Marc Daran, Pascale A. S. Daran-Lapujade, Lodewyk F. A. Wessels:
Relating transcription factors, modules of genes and cultivation conditions in Saccharomyces cerevisiae. CSB Workshops 2005: 71-72
Coauthor Index
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