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2020 – today
- 2024
[j35]Simon Pfahler
, Peter Georg, Rudolf Schill, Maren Klever, Lars Grasedyck, Rainer Spang, Tilo Wettig:
Taming numerical imprecision by adapting the KL divergence to negative probabilities. Stat. Comput. 34(5): 168 (2024)- [c13]Rudolf Schill, Maren Klever, Andreas Lösch, Y. Linda Hu, Stefan Vocht, Kevin Rupp, Lars Grasedyck, Rainer Spang, Niko Beerenwinkel:
Overcoming Observation Bias for Cancer Progression Modeling. RECOMB 2024: 217-234 - [i4]Michael Huttner, Jakob Simeth, Renato Liguori, Fulvia Ferrazzi, Rainer Spang:
dabih - encrypted data storage and sharing platform. CoRR abs/2401.08333 (2024) - 2023
- [j34]Lena Buck, Tobias Schmidt, Maren Feist, Philipp Schwarzfischer, Dieter Kube, Peter J. Oefner, Helena U. Zacharias, Michael Altenbuchinger, Katja Dettmer, Wolfram Gronwald, Rainer Spang:
Anomaly detection in mixed high-dimensional molecular data. Bioinform. 39(8) (2023) - 2022
- [i3]Stefan Schrod, Andreas Schäfer, Stefan Solbrig, Robert Lohmayer, Wolfram Gronwald, Peter J. Oefner, Tim Beißbarth, Rainer Spang, Helena U. Zacharias, Michael Altenbuchinger:
BITES: Balanced Individual Treatment Effect for Survival data. CoRR abs/2201.03448 (2022) - 2021
- [i2]Kevin Rupp, Rudolf Schill, Jonas Süskind, Peter Georg, Maren Klever, Andreas Lösch, Lars Grasedyck, Tilo Wettig, Rainer Spang:
Differentiated uniformization: A new method for inferring Markov chains on combinatorial state spaces including stochastic epidemic models. CoRR abs/2112.10971 (2021) - 2020
- [j33]Rudolf Schill, Stefan Solbrig, Tilo Wettig, Rainer Spang:
Modelling cancer progression using Mutual Hazard Networks. Bioinform. 36(1): 241-249 (2020) - [j32]Franziska Görtler, Marian Schön, Jakob Simeth, Stefan Solbrig, Tilo Wettig, Peter J. Oefner, Rainer Spang, Michael Altenbuchinger:
Loss-Function Learning for Digital Tissue Deconvolution. J. Comput. Biol. 27(3): 342-355 (2020) - [j31]Marian Schön, Jakob Simeth, Paul Heinrich, Franziska Görtler, Stefan Solbrig, Tilo Wettig, Peter J. Oefner, Michael Altenbuchinger, Rainer Spang:
DTD: An R Package for Digital Tissue Deconvolution. J. Comput. Biol. 27(3): 386-389 (2020) - [i1]Peter Georg, Lars Grasedyck, Maren Klever, Rudolf Schill, Rainer Spang, Tilo Wettig:
Low-rank tensor methods for Markov chains with applications to tumor progression models. CoRR abs/2006.08135 (2020)
2010 – 2019
- 2018
- [c12]Franziska Görtler, Stefan Solbrig, Tilo Wettig, Peter J. Oefner, Rainer Spang, Michael Altenbuchinger:
Loss-Function Learning for Digital Tissue Deconvolution. RECOMB 2018: 75-89 - 2017
- [j30]Michael Altenbuchinger, Thorsten Rehberg, H. U. Zacharias, Frank Stämmler, K. Dettmer, D. Weber, Andreas Hiergeist, A. Gessner, E. Holler, Peter J. Oefner, Rainer Spang:
Reference point insensitive molecular data analysis. Bioinform. 33(2): 219-226 (2017) - [j29]Michael Altenbuchinger, Philipp Schwarzfischer, Thorsten Rehberg, Jörg Reinders, Christian W. Kohler, Wolfram Gronwald, Julia Richter, Monika Szczepanowski, Neus Masqué-Soler, Wolfram Klapper, Peter J. Oefner, Rainer Spang:
Molecular signatures that can be transferred across different omics platforms. Bioinform. 33(14): i333-i340 (2017) - [j28]Michael Altenbuchinger, Philipp Schwarzfischer, Thorsten Rehberg, Jörg Reinders, Christian W. Kohler, Wolfram Gronwald, Julia Richter, Monika Szczepanowski, Neus Masqué-Soler, Wolfram Klapper, Peter J. Oefner, Rainer Spang:
Molecular signatures that can be transferred across different omics platforms. Bioinform. 33(17): 2790 (2017) - 2016
- [j27]Martin Pirkl, Elisabeth Hand, Dieter Kube, Rainer Spang:
Analyzing synergistic and non-synergistic interactions in signalling pathways using Boolean Nested Effect Models. Bioinform. 32(6): 893-900 (2016) - 2015
- [j26]Franziska Taruttis, Rainer Spang, Julia C. Engelmann:
A statistical approach to virtual cellular experiments: improved causal discovery using accumulation IDA (aIDA). Bioinform. 31(23): 3807-3814 (2015) - [j25]Julia C. Engelmann, Thomas Amann, Birgitta Ott-Rötzer, Margit Nützel, Yvonne Reinders, Jörg Reinders, Wolfgang E. Thasler, Theresa Kristl, Andreas Teufel, Christian G. Huber, Peter J. Oefner, Rainer Spang, Claus Hellerbrand:
Causal Modeling of Cancer-Stromal Communication Identifies PAPPA as a Novel Stroma-Secreted Factor Activating NFκB Signaling in Hepatocellular Carcinoma. PLoS Comput. Biol. 11(5) (2015) - 2014
- [j24]Sebastian Dümcke, Johannes Bräuer, Benedict Anchang, Rainer Spang, Niko Beerenwinkel, Achim Tresch:
Exact likelihood computation in Boolean networks with probabilistic time delays, and its application in signal network reconstruction. Bioinform. 30(3): 414-419 (2014) - 2013
- [j23]Mohammad Javad Sadeh, Giusi Moffa, Rainer Spang:
Considering Unknown Unknowns: Reconstruction of Nonconfoundable Causal Relations in Biological Networks. J. Comput. Biol. 20(11): 920-932 (2013) - [c11]Mohammad Javad Sadeh, Giusi Moffa, Rainer Spang:
Considering Unknown Unknowns - Reconstruction of Non-confoundable Causal Relations in Biological Networks. RECOMB 2013: 234-248 - 2011
- [j22]Matthias Maneck, Alexandra Schrader, Dieter Kube, Rainer Spang:
Genomic data integration using guided clustering. Bioinform. 27(16): 2231-2238 (2011) - [j21]Inka J. Appel, Wolfram Gronwald, Rainer Spang:
Estimating classification probabilities in high-dimensional diagnostic studies. Bioinform. 27(18): 2563-2570 (2011)
2000 – 2009
- 2009
- [j20]Marian Thieme, Claudio Lottaz, Harald Niederstätter, Walther Parson, Rainer Spang, Peter J. Oefner:
ReseqChip: Automated integration of multiple local context probe data from the MitoChip array in mitochondrial DNA sequence assembly. BMC Bioinform. 10: 440 (2009) - 2008
- [j19]Juby Jacob, Marcel Jentsch, Dennis Kostka, Stefan Bentink, Rainer Spang:
Detecting hierarchical structure in molecular characteristics of disease using transitive approximations of directed graphs. Bioinform. 24(7): 995-1001 (2008) - [j18]Holger Fröhlich, Tim Beißbarth, Achim Tresch, Dennis Kostka, Juby Jacob, Rainer Spang, Florian Markowetz:
Analyzing gene perturbation screens with nested effects models in R and bioconductor. Bioinform. 24(21): 2549-2550 (2008) - [j17]Dennis Kostka, Rainer Spang:
Microarray Based Diagnosis Profits from Better Documentation of Gene Expression Signatures. PLoS Comput. Biol. 4(2) (2008) - 2007
- [j16]Claudio Lottaz, Joern Toedling, Rainer Spang:
Annotation-based distance measures for patient subgroup discovery in clinical microarray studies. Bioinform. 23(17): 2256-2264 (2007) - [j15]Florian Markowetz, Rainer Spang:
Inferring cellular networks - a review. BMC Bioinform. 8(S-6) (2007) - [j14]Stefanie Scheid, Rainer Spang:
Compensating for Unknown Confounders in Microarray Data Analysis Using Filtered Permutations. J. Comput. Biol. 14(5): 669-681 (2007) - [c10]Florian Markowetz, Dennis Kostka, Olga G. Troyanskaya, Rainer Spang:
Nested effects models for high-dimensional phenotyping screens. ISMB/ECCB (Supplement of Bioinformatics) 2007: 305-312 - 2006
- [j13]Claudio Lottaz, Xinan Yang, Stefanie Scheid, Rainer Spang:
OrderedList - a bioconductor package for detecting similarity in ordered gene lists. Bioinform. 22(18): 2315-2316 (2006) - [j12]Joern Toedling, Peter Rhein, Richard Ratei, Leonid Karawajew, Rainer Spang:
Automated in-silico detection of cell populations in flow cytometry readouts and its application to leukemia disease monitoring. BMC Bioinform. 7: 282 (2006) - [j11]Jochen Jaeger, Rainer Spang:
Selecting normalization genes for small diagnostic microarrays. BMC Bioinform. 7: 388 (2006) - [j10]Xinan Yang, Stefan Bentink, Stefanie Scheid, Rainer Spang:
Similarities of Ordered Gene Lists. J. Bioinform. Comput. Biol. 4(3): 693-708 (2006) - [c9]Claudio Lottaz, Joern Toedling, Rainer Spang:
Annotation-based Distance Measures for Patient Subgroup Discovery in Clinical Microarray Studies. German Conference on Bioinformatics 2006: 75-91 - [c8]Stefanie Scheid, Rainer Spang:
Permutation Filtering: A Novel Concept for Significance Analysis of Large-Scale Genomic Data. RECOMB 2006: 338-347 - 2005
- [j9]Claudio Lottaz, Rainer Spang:
Molecular decomposition of complex clinical phenotypes using biologically structured analysis of microarray data. Bioinform. 21(9): 1971-1978 (2005) - [j8]Stefanie Scheid, Rainer Spang:
twilight; a Bioconductor package for estimating the local false discovery rate. Bioinform. 21(12): 2921-2922 (2005) - [j7]Florian Markowetz, Jacques Bloch, Rainer Spang:
Non-transcriptional pathway features reconstructed from secondary effects of RNA interference. Bioinform. 21(21): 4026-4032 (2005) - [j6]Claudio Lottaz, Rainer Spang:
stam - a Bioconductor compliant R package for structured analysis of microarray data. BMC Bioinform. 6: 211 (2005) - [c7]Florian Markowetz, Steffen Grossmann, Rainer Spang:
Probabilistic Soft Interventions in Conditional Gaussian Networks. AISTATS 2005: 214-221 - 2004
- [j5]Stefanie Scheid, Rainer Spang:
A Stochastic Downhill Search Algorithm for Estimating the Local False Discovery Rate. IEEE ACM Trans. Comput. Biol. Bioinform. 1(3): 98-108 (2004) - [c6]Dennis Kostka, Rainer Spang:
Finding disease specific alterations in the co-expression of genes. ISMB/ECCB (Supplement of Bioinformatics) 2004: 194-199 - 2002
- [j4]Rainer Spang, Carrie Blanchette, Harry Zuzan, Jeffrey R. Marks, Joseph Nevins, Mike West:
Prediction and uncertainty in the analysis of gene expression profiles. Silico Biol. 2(3): 369-381 (2002) - [j3]Rainer Spang, Marc Rehmsmeier, Jens Stoye:
A Novel Approach to Remote Homology Detection: Jumping Alignments. J. Comput. Biol. 9(5): 747-760 (2002) - 2001
- [j2]Rainer Spang, Martin Vingron:
Limits of homology detection by pairwise sequence comparison. Bioinform. 17(4): 338-342 (2001) - [c5]Rainer Spang, Carrie Blanchette, Harry Zuzan, Jeffrey R. Marks, Joseph Nevins, Mike West:
Prediction and uncertainty in the analysis of gene expression profiles. German Conference on Bioinformatics 2001: 102-111 - [c4]Constantin Bannert, Marc Rehmsmeier, Rainer Spang, Jens Stoye:
Sequence Database Search Using Jumping Alignments. German Conference on Bioinformatics 2001: 142 - 2000
- [c3]Rainer Spang, Marc Rehmsmeier, Jens Stoye:
Sequence Database Search Using Jumping Alignments. ISMB 2000: 367-375
1990 – 1999
- 1999
- [c2]Tobias Müller, Rainer Spang, Martin Vingron:
A new method for modeling protein evolution. German Conference on Bioinformatics 1999: 2-8 - 1998
- [j1]Rainer Spang, Martin Vingron:
Statistics of large-scale sequence searching. Bioinform. 14(3): 279-284 (1998) - 1997
- [c1]Rainer Spang, Martin Vingron:
Statistics of large scale sequence searching. German Conference on Bioinformatics 1997: 33-35
Coauthor Index
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