UFO: a web server for ultra-fast functional profiling of whole genome protein sequences (2009)
Abstract Background Functional profiling is a key technique to characterize and compare the functional potential of entire genomes. The estimation of profiles according to an assignment of sequences...
Britta Mersch, Abteilung Molekulare Biophysik, Tobias Glasmachers, Peter Meinicke, Christian Igel
Received (to be inserted
MarVis: a tool for clustering and visualization of metabolic biomarkers (2009)
Kaever, Alexander, Lingner, Thomas, Feussner, Kirstin, Göbel, Cornelia, Feussner, Ivo, Meinicke, Peter
Abstract Background A central goal of experimental studies in systems biology is to identify meaningful markers that are hidden within a diffuse background of data originating from large-scale...
Orphelia: predicting genes in metagenomic sequencing reads (2009)
Hoff, Katharina J., Lingner, Thomas, Meinicke, Peter, Tech, Maike
Metagenomic sequencing projects yield numerous sequencing reads of a diverse range of uncultivated and mostly yet unknown microorganisms. In many cases, these sequencing reads cannot be assembled...
Meinicke, Peter, Lingner, Thomas, Kaever, Alexander, Feussner, Kirstin, Göbel, Cornelia, Feussner, Ivo, ...
Abstract Background One of the goals of global metabolomic analysis is to identify metabolic markers that are hidden within a large background of data originating from high-throughput analytical...
Word correlation matrices for protein sequence analysis and remote homology detection (2008)
Lingner, Thomas, Meinicke, Peter
Abstract Background Classification of protein sequences is a central problem in computational biology. Currently, among computational methods discriminative kernel-based approaches provide the most...
Gene prediction in metagenomic fragments: A large scale machine learning approach (2008)
Hoff, Katharina J, Tech, Maike, Lingner, Thomas, Daniel, Rolf, Morgenstern, Burkhard, Meinicke, Peter
Abstract Background Metagenomics is an approach to the characterization of microbial genomes via the direct isolation of genomic sequences from the environment without prior cultivation. The amount...
Meinicke P: Remote homology detection based on oligomer distances (2008)
Thomas Lingner, Peter Meinicke
doi:10.1093/bioinformatics/btl376
We suggest a nonparametric framework for unsupervised learning of projection models in terms of density estimation on quantized sample spaces. The objective is not to optimally reconstruct the data...
Peter Meinicke, Helge Ritter, Thorsten Twellmann
We propose a framework for classifier design based on discriminative densities for representation of the differences of the class-conditional distributions in a way that is optimal for...
Christian Igel, Tobias Glasmachers, Britta Mersch, Nico Pfeifer, Peter Meinicke
Biological data mining using kernel methods can be improved by a task-specific choice of the kernel function. Oligo kernels for genomic sequence analysis have proven to have a high discriminative...
Lingner, Thomas, Meinicke, Peter
Background: Classification of protein sequences is a central problem in computational biology. Currently, among computational methods discriminative kernel-based approaches provide the most accurate...
Meinicke, Peter, Lingner, Thomas, Kaever, Alexander, Feussner, Kirstin, Göbel, Cornelia, Feussner, Ivo, ...
Background: One of the goals of global metabolomic analysis is to identify metabolic markers that are hidden within a large background of data originating from high-throughput analytical...
Principal Component Analysis (PCA), (2007)
A globally linear model, as implied by conventional
Quantizing Density Estimators (2007)
We suggest a nonparametric framework for unsupervised learning of projection models in terms of density estimation on quantized sample spaces. The objective is not to optimally reconstruct the data...
P-value based visualization of codon usage data (2006)
Meinicke, Peter, Brodag, Thomas, Fricke, Wolfgang, Waack, Stephan
Abstract Two important and not yet solved problems in bacterial genome research are the identification of horizontally transferred genes and the prediction of gene expression levels. Both problems...
Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models (2006)
Waack, Stephan, Keller, Oliver, Asper, Roman, Brodag, Thomas, Damm, Carsten, Fricke, Wolfgang, ...
Abstract Background Horizontal gene transfer (HGT) is considered a strong evolutionary force shaping the content of microbial genomes in a substantial manner. It is the difference in speed enabling...
An unsupervised classification scheme for improving predictions of prokaryotic TIS (2006)
Abstract Background Although it is not difficult for state-of-the-art gene finders to identify coding regions in prokaryotic genomes, exact prediction of the corresponding translation initiation...
Remote homology detection based on oligomer distances (2006)
Lingner, Thomas, Meinicke, Peter
Motivation: Remote homology detection is among the most intensively researched problems in bioinformatics. Currently discriminative approaches, especially kernel-based methods, provide the most...
BMC Bioinformatics BioMed Central Methodology article (2006)
An unsupervised classification scheme for improving predictions of prokaryotic TIS
Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models (2006)
Waack, Stephan, Keller, Oliver, Asper, Roman, Brodag, Thomas, Damm, Carsten, Fricke, Wolfgang Florian, ...
Background: Horizontal gene transfer (HGT) is considered a strong evolutionary force shaping the content of microbial genomes in a substantial manner. It is the difference in speed enabling the rapid...
Principal Surfaces from Unsupervised Kernel Regression (2005)
Meinicke, Peter, Klanke, Stefan, Memisevic, Roland, Ritter, Helge
We propose a nonparametric approach to learning of principal surfaces based on an unsupervised formulation of the Nadaraya-Watson kernel regression estimator. As compared with previous approaches to...
BIOINFORMATICS APPLICATIONS NOTE Sequence analysis (2005)
Maike Tech, Nico Pfeifer, Burkhard Morgenstern, Peter Meinicke
doi:10.1093/bioinformatics/bti563
TICO: a tool for improving predictions of prokaryotic translation initiation sites (2005)
Tech, Maike, Pfeifer, Nico, Morgenstern, Burkhard, Meinicke, Peter
Summary: We provide the tool ‘TICO’ (Translation Initiation site COrrection) for improving the results of conventional gene finders for prokaryotic genomes with regard to exact localization of...
Meinicke, Peter, Tech, Maike, Morgenstern, Burkhard, Merkl, Rainer
Abstract Background Kernel-based learning algorithms are among the most advanced machine learning methods and have been successfully applied to a variety of sequence classification tasks within the...
on prokaryotic translation initiation sites (2004)
Peter Meinicke, Maike Tech, Burkhard Morgenstern, Rainer Merkl, Open Access, Rainer Merkl
This is an Open Access article distributed under the terms of the Creative Commons Attribution License
Meinicke, Peter, Tech, Maike, Morgenstern, Burkhard, Merkl, Rainer
BACKGROUND: Kernel-based learning algorithms are among the most advanced machine learning methods and have been successfully applied to a variety of sequence classification tasks within the field of...
Improving transfer rates in brain computer interfacing: A case study (2003)
Peter Meinicke, Matthias Kaper, Manfred Heumann, Helge Ritter
In this paper we present results of a study on brain computer interfacing. We adopted an approach of Farwell & Donchin [4], which we tried to improve in several aspects. The main objective was to...
The Importance of Window Length in Splice Site Prediction (2003)
Leila Taher, Burkhard Morgenstern, Peter Meinicke
Introduction The performance of gene prediction programs strongly depends on the methods that they use to locate splice sites. Different pattern recognition techniques are available to assess the...
Improving transfer rates in brain computer interfacing: A case study (2003)
Peter Meinicke, Matthias Kaper, Manfred Heumann, Helge Ritter
In this paper we present results of a study on brain computer interfacing. We adopted an approach of Farwell & Donchin [4], which we tried to improve in several aspects. The main objective was to...
Improving Transfer Rates in Brain Computer (2002)
Interfacing Case Study, Peter Meinicke, Helge Ritter, Matthias Kaper, Manfred Heumann
In this paper we present results of a study on brain computer interfacing.
Resolution-based complexity control for Gaussian mixture models (2001)
In the domain of unsupervised learning, mixtures of Gaussians have become a popular tool for statistical modelling. For this class of generative models we present a complexity control scheme, which...
Unsupervised learning in a generalized regression framework (2000)
In this thesis, the generalized regression (GR) framework is introduced as an extension of conventional regression estimation to the case of unsupervised learning. This approach unifies many...
Unsupervised learning in a generalized regression framework [Elektronische Ressource] / (2000)
Bielefeld, University, Diss., 2000.
Calibration of a "Self-Viewing" Eye-on-Hand Configuration (1996)
We introduce a new calibration concept for eye-on-hand systems based on the self-viewing principle. A configuration where the camera directly observes the gripper offers new advantages to hand/eye...
Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models
Waack, Stephan, Keller, Oliver, Asper, Roman, Brodag, Thomas, Damm, Carsten, Fricke, Wolfgang Florian, ...
P-value based visualization of codon usage data
Meinicke, Peter, Brodag, Thomas, Fricke, Wolfgang Florian, Waack, Stephan
Two important and not yet solved problems in bacterial genome research are the identification of horizontally transferred genes and the prediction of gene expression levels. Both problems can be...
Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models
Waack, Stephan, Keller, Oliver, Asper, Roman, Brodag, Thomas, Damm, Carsten, Fricke, Wolfgang Florian, ...
P-value based visualization of codon usage data
Meinicke, Peter, Brodag, Thomas, Fricke, Wolfgang Florian, Waack, Stephan
Two important and not yet solved problems in bacterial genome research are the identification of horizontally transferred genes and the prediction of gene expression levels. Both problems can be...
Gene prediction in metagenomic fragments: A large scale machine learning approach
Hoff, Katharina J, Tech, Maike, Lingner, Thomas, Daniel, Rolf, Morgenstern, Burkhard, Meinicke, Peter
Meinicke, Peter, Lingner, Thomas, Kaever, Alexander, Feussner, Kirstin, Göbel, Cornelia, Feussner, Ivo, ...
MarVis: a tool for clustering and visualization of metabolic biomarkers
Kaever, Alexander, Lingner, Thomas, Feussner, Kirstin, Göbel, Cornelia, Feussner, Ivo, Meinicke, Peter
Orphelia: predicting genes in metagenomic sequencing reads
Hoff, Katharina J., Lingner, Thomas, Meinicke, Peter, Tech, Maike
Metagenomic sequencing projects yield numerous sequencing reads of a diverse range of uncultivated and mostly yet unknown microorganisms. In many cases, these sequencing reads cannot be assembled...