Korbinian Strimmer

Search results

• 2022

  Quantification of protein abundance and interaction defines a mechanism for operation of the circadian clock

  Koch, A., Bagnall, J., Smyllie, N. J., Begley, N., Adamson, A., Fribourgh, J. L., Spiller, D., Meng, Q.-J., Partch, C. L., Strimmer, K., House, T., Hastings, M. H. & Loudon, A., 14 Mar 2022, In: eLife. 11, e73976.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • PER2 100%
  • DNA Binding 100%
  • CLOCK 100%
  • Circadian Rhythm 100%
  • Quantitative Imaging 50%
• 2019

  A whitening approach to probabilistic canonical correlation analysis for omics data integration

  Jendoubi, T. & Strimmer, K., 9 Jan 2019, In: BMC Bioinformatics. 20, 1, 15.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Methylation 100%
  • Gene Expression Data 100%
  • Canonical Correlation Analysis 100%
  • Random Variable 10%
  • Apply It 10%
• 2018

  Optimal Whitening and Decorrelation

  Kessy, A., Lewin, A. & Strimmer, K., 2 Oct 2018, In: The American Statistician. 72, 4, p. 309-314 6 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Variables 100%
  • Zeros 40%
  • Principal Component Analysis 40%
  • Procedures 40%
  • Analysis 40%
• 2015

  A simple data-adaptive probabilistic variant calling model

  Hoffmann, S., Stadler, P. F. & Strimmer, K., 4 Mar 2015, In: Algorithms for Molecular Biology . 10

  Research output: Contribution to journal › Article › peer-review

  Open Access

• Differential protein expression and peak selection in mass spectrometry data by binary discriminant analysis

  Gibb, S. & Strimmer, K., 1 Oct 2015, In: Bioinformatics. 31, 19, p. 3156-3162

  Research output: Contribution to journal › Article › peer-review
• 2013

  Signal identification for rare and weak features: higher criticism or false discovery rates?

  Klaus, B. & Strimmer, K., Jan 2013, In: Biostatistics. 14, 1, p. 129-143 15 p.

  Research output: Contribution to journal › Article › peer-review

  • False Discovery 100%
  • Signal Identification 100%
  • Discriminant Analysis 100%
  • Effective Mean 33%
  • Threshold Rate 33%
• 2012

  A novel algorithm for simultaneous SNP selection in high-dimensional genome-wide association studies

  Zuber, V., Pedro Duarte Silva, A. & Strimmer, K., 31 Oct 2012, In: BMC Bioinformatics. 13

  Research output: Contribution to journal › Article › peer-review

• MALDIquant: a versatile R package for the analysis of mass spectrometry data

  Gibb, S. & Strimmer, K., 1 Sept 2012, In: Bioinformatics. 28, 17, p. 2270-2271 2 p.

  Research output: Contribution to journal › Article › peer-review
• 2011

  High-Dimensional Regression and Variable Selection Using CAR Scores

  Zuber, V. & Strimmer, K., Jan 2011, In: Statistical Applications in Genetics and Molecular Biology. 10, 1

  Research output: Contribution to journal › Article › peer-review

  • Linear Regression 100%
  • Prediction Error 100%
  • False Positive Rate 100%
  • Explanatory Variable 100%
  • Correlated Predictor 100%
• 2010

  Feature selection in omics prediction problems using CAT scores and false nondiscovery rate control

  Ahdesmäki, M. & Strimmer, K., Mar 2010, In: Annals of Applied Statistics. 4, 1, p. 503-519 17 p.

  Research output: Contribution to journal › Article › peer-review

  • Discriminant Analysis 100%
  • Prediction Problem 100%
  • Regularization 50%
  • Variance 50%
  • Centroid 50%

• Over-optimism in bioinformatics: an illustration

  Jelizarow, M., Guillemot, V., Tenenhaus, A., Strimmer, K. & Boulesteix, A.-L., 15 Aug 2010, In: Bioinformatics. 26, 16, p. 1990-1998 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Linear Discriminant Analysis 100%
  • Dimensional Classification 100%
  • Classification Algorithm 100%
  • Covariance Matrix 100%
  • Functional Group 100%
• 2009

  A general modular framework for gene set enrichment analysis

  Ackermann, M. & Strimmer, K., 3 Feb 2009, In: BMC Bioinformatics. 10

  Research output: Contribution to journal › Article › peer-review

• Entropy Inference and the James-Stein Estimator, with Application to Nonlinear Gene Association Networks

  Hausser, J. & Strimmer, K., Jul 2009, In: Journal of Machine Learning Research. 10, p. 1469-1484

  Research output: Contribution to journal › Article › peer-review

  • Smaller Sample 100%
  • Apply It 100%
  • Shrinkage Estimator 100%
  • James Stein Estimator 100%
  • Sample Data 100%

• Gene ranking and biomarker discovery under correlation

  Zuber, V. & Strimmer, K., 15 Oct 2009, In: Bioinformatics. 25, 20, p. 2700-2707 8 p.

  Research output: Contribution to journal › Article › peer-review

  • Group Membership 100%
  • Metabolomics 100%
• 2008

  Augmenting the bootstrap to analyze high dimensional genomic data - Connections between the augmented bootstrap and the shrinkage covariance estimator - Discussion

  Strimmer, K., May 2008, In: Test. 17, 1, p. 25-27

  Research output: Contribution to journal › Article › peer-review

• A unified approach to false discovery rate estimation

  Strimmer, K., 9 Jul 2008, In: BMC Bioinformatics. 9

  Research output: Contribution to journal › Article › peer-review

• fdrtool: a versatile R package for estimating local and tail area-based false discovery rates

  Strimmer, K., 15 Jun 2008, In: Bioinformatics. 24, 12, p. 1461-1462 2 p.

  Research output: Contribution to journal › Article › peer-review

  • Tail Area 100%
  • False Discovery Rate 100%
  • Local Area 100%
  • Proteomics 100%
  • Test Statistic 42%

• Identifying periodically expressed transcripts in microarray time series data

  Wichert, S., Fokianos, K. & Strimmer, K., 1 Oct 2008, In: Bioinformatics. 24, 19, p. 2274-2274 1 p.

  Research output: Contribution to journal › Article › peer-review

• Therapeutic vaccination reduces HIV sequence variability

  Hoffmann, D., Seebach, J., Cosma, A., Goebel, F. D., Strimmer, K., Schatzl, H. M. & Erfle, V., Feb 2008, In: Faseb Journal. 22, 2, p. 437-444

  Research output: Contribution to journal › Article › peer-review
• 2007

  Accurate ranking of differentially expressed genes by a distribution-free shrinkage approach

  Opgen-Rhein, R. & Strimmer, K., 2 Apr 2007, In: Statistical Applications in Genetics and Molecular Biology. 6, 1

  Research output: Contribution to journal › Article › peer-review

• From correlation to causation networks: a simple approximate learning algorithm and its application to high-dimensional plant gene expression data

  Opgen-Rhein, R. & Strimmer, K., 6 Aug 2007, In: BMC Systems Biology. 1, 37

  Research output: Contribution to journal › Article › peer-review

  • Approximates 100%
  • Partial Order 100%
  • Proteomics 100%
  • Gene Expression 100%
  • Arabidopsis thaliana 100%

• Learning causal networks from systems biology time course data: an effective model selection procedure for the vector autoregressive process

  Opgen-Rhein, R. & Strimmer, K., 3 May 2007, In: BMC Bioinformatics. 8, Supp. 2

  Research output: Contribution to journal › Article › peer-review

  • Regression Coefficient 100%
  • Small Sample Size 100%
  • High Dimensionality 100%
  • Time Series Data 100%
  • Sample Size 100%

• Partial least squares: a versatile tool for the analysis of high-dimensional genomic data

  Boulesteix, A.-L. & Strimmer, K., Jan 2007, In: Briefings in Bioinformatics. 8, 1, p. 32-44 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Gene Network 100%
  • Gene Transcription 100%
  • Proteomics 100%
  • Transcription Factors 100%
  • Transcriptome 100%
• 2005

  An empirical Bayes approach to inferring large-scale gene association networks

  Schäfer, J. & Strimmer, K., 15 Mar 2005, In: Bioinformatics. 21, 6, p. 754-764 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Graphical Model 100%
  • Association Network 100%
  • Gaussian Distribution 100%
  • Microarrays 100%
  • Gene Expression Data 100%

• A shrinkage approach to large-scale covariance matrix estimation and implications for functional genomics

  Schäfer, J. & Strimmer, K., 2005, In: Statistical Applications in Genetics and Molecular Biology. 4, 1

  Research output: Contribution to journal › Article › peer-review

• Inference of demographic history from genealogical trees using reversible jump Markov chain Monte Carlo

  Opgen-Rhein, R., Fahrmeir, L. & Strimmer, K., 21 Jan 2005, In: BMC Evolutionary Biology. 5, 6

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Markov Chain Monte Carlo 100%
  • markov chain monte-carlo 100%
  • Demographic History 100%
  • Bayesian 66%
  • Nonparametric Estimation 66%

• Predicting transcription factor activities from combined analysis of microarray and ChIP data: a partial least squares approach

  Boulesteix, A.-L. & Strimmer, K., 24 Jun 2005, In: Theoretical biology & medical modelling. 2, 23

  Research output: Contribution to journal › Article › peer-review

  • Partial Least Squares 100%
  • Microarrays 100%
  • Least Square 100%
  • Transcription Factors 100%
  • Smaller Sample 50%
• 2004

  APE: Analyses of Phylogenetics and Evolution in R language

  Paradis, E., Claude, J. & Strimmer, K., 22 Jan 2004, In: Bioinformatics. 20, 2, p. 289-290

  Research output: Contribution to journal › Article › peer-review

  • Phylogeny 100%
  • Comparative Genomics 14%
  • Phylogenetic Tree 14%
  • Molecular Evolution 14%

• Identifying periodically expressed transcripts in microarray time series data

  Wichert, S., Fokianos, K. & Strimmer, K., 1 Jan 2004, In: Bioinformatics. 20, 1, p. 5-20

  Research output: Contribution to journal › Article › peer-review

  • Time Series Data 100%
  • Cell Cycle 100%
  • Microarrays 100%
  • Gene Expression 75%
  • Statistical Analysis 50%
• 2003

  A CART-based approach to discover emerging patterns in microarray data

  Boulesteix, A., Tutz, G. & Strimmer, K., 12 Dec 2003, In: Bioinformatics. 19, 18, p. 2465-2472

  Research output: Contribution to journal › Article › peer-review

• A novel exploratory method for visual recombination detection

  Strimmer, K., Forslund, K., Holland, B. & Moulton, V., 2003, In: Genome biology. 4, 5

  Research output: Contribution to journal › Article › peer-review

  • Human Immunodeficiency Virus 1 100%
  • Phylogeny 100%
  • Sequence Alignment 100%
  • Illustrates 100%
  • Simulated Data 100%

• Modeling gene expression measurement error: a quasi-likelihood approach

  Strimmer, K., 20 Mar 2003, In: BMC Bioinformatics. 4, 10

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Likelihood Approach 100%
  • Measurement Error 100%
  • Quasi-Likelihood 100%
  • Parametric Model 75%
  • Approximates 50%
• 2002

  Inferring confidence sets of possibly misspecified gene trees

  Strimmer, K. & Rambaut, A., 22 Jan 2002, In: Royal Society of London. Philosophical Transactions B. Biological Sciences . 269, 1487, p. 137-142

  Research output: Contribution to journal › Article › peer-review

  • Confidence Set 100%
  • Human Immunodeficiency Virus 1 100%
  • Model Misspecification 33%

• TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing

  Schmidt, H., Strimmer, K., Vingron, M. & von Haeseler, A., Mar 2002, In: Bioinformatics. 18, 3, p. 502-504

  Research output: Contribution to journal › Article › peer-review
• 2001

  Dating the common ancestor of SIVcpz and HIV-1 group M and the origin of HIV-1 subtypes using a new method to uncover clock-like molecular evolution

  Salemi, M., Strimmer, K., Hall, W., Duffy, M., Delaporte, E., Mboup, S., Peeters, M. & Vandamme, A., Feb 2001, In: Faseb Journal. 15, 2, p. 276-278

  Research output: Contribution to journal › Article › peer-review

• Exploring the demographic history of DNA sequences using the generalized skyline plot

  Strimmer, K. & Pybus, O., Dec 2001, In: Molecular Biology and Evolution. 18, 12, p. 2298-2305

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Smaller Sample 100%
  • Apply It 100%
  • Akaike Information Criterion 100%
  • DNA Sequencing 100%
  • Demographic History 100%

• PAL: an object-oriented programming library for molecular evolution and phylogenetics

  Drummond, A. & Strimmer, K., Jul 2001, In: Bioinformatics. 17, 7, p. 662-663

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Cladistics 100%
  • Molecular Evolution 100%

• Recombination analysis using directed graphical models

  Strimmer, K., Wiuf, C. & Moulton, V., Jan 2001, In: Molecular Biology and Evolution. 18, 1, p. 97-99

  Research output: Contribution to journal › Article › peer-review

  Open Access
• 2000

  Likelihood analysis of phylogenetic networks using directed graphical models

  Strimmer, K. & Moulton, V., Jun 2000, In: Molecular Biology and Evolution. 17, 6, p. 875-881

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Graphical Model 100%
  • Branch Length 100%
  • Directed Acyclic Graph 100%
  • Approximates 50%
  • Joint Probability Distribution 50%
• 1997

  Bayesian probabilities and quartet puzzling

  Strimmer, K., Goldman, N. & von Haeseler, A., Feb 1997, In: Molecular Biology and Evolution. 14, 2, p. 210-211

  Research output: Contribution to journal › Article › peer-review

• Likelihood-mapping: A simple method to visualize phylogenetic content of a sequence alignment

  Strimmer, K. & von Haeseler, A., 24 Jun 1997, In: Proceedings of the National Academy of Sciences. 94, 13, p. 6815-6819

  Research output: Contribution to journal › Article › peer-review

  • Triangle 100%
  • Sequence Alignment 100%
  • Graphical Method 33%
  • Tree Topology 33%
  • Equilateral Triangle 33%
• 1996

  Accuracy of neighbor joining for n-taxon trees

  Strimmer, K. & von Haeseler, A., Dec 1996, In: Systematic Biology. 45, 4, p. 516-523

  Research output: Contribution to journal › Article › peer-review

• Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies

  Strimmer, K. & von Haeseler, A., Sept 1996, In: Molecular Biology and Evolution. 13, 7, p. 964-969

  Research output: Contribution to journal › Article › peer-review