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- Evaluation of the microba community profiler for taxonomic profiling of metagenomic datasets from the human gut microbiome
- Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data
- Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- Funding
- Gene set analysis methods: a systematic comparison
- Guidelines for Summarizing a Literature Study
- Help
- Hierarchical optimization for the efficient parametrization of ODE models
- Hybrid optimization method with general switching strategy for parameter estimation
- Identification and Correction of Additive and Multiplicative Spatial Biases in Experimental High-Throughput Screening
- Identifying and quantifying metabolites by scoring peaks of GC-MS data
- Improved Peak Detection and Deconvolution of Native Electrospray Mass Spectra from Large Protein Complexes
- Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching
- LEMMI: a continuous benchmarking platform for metagenomics classifiers
- Lessons Learned from Quantitative Dynamical Modeling in Systems Biology
- Literature Studies
- MS‐Analyzer: preprocessing and data mining services for proteomics applications on the Grid
- Machine learning methods for predictive proteomics
- MeltDB: a software platform for the analysis and integration of metabolomics experiment data
- MetaboAnalyst: a web server for metabolomic data analysis and interpretation
- MethCP: Differentially Methylated Region Detection with Change Point Models (bioRxiv)
- Microbiome differential abundance methods produce different results across 38 datasets
- Mini-batch optimization enables training of ODE models on large-scale datasets
- Missing value estimation methods for DNA microarrays
- Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline
- Mockrobiota: a public resource for microbiome bioinformatics benchmarking
- NOREVA: normalization and evaluation of MS-based metabolomics data
- Normalization regarding non-random missing values in high-throughput mass spectrometry data
- NormalyzerDE: Online Tool for Improved Normalization of Omics Expression Data and High-Sensitivity Differential Expression Analysis
- OpenMS: a flexible open-source software platform for mass spectrometry data analysis
- Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- Optimization and uncertainty analysis of ODE models using second order adjoint sensitivity analysis
- Optimization of miRNA-seq data preprocessing
- Parameter Estimation and Variable Selection for Big Systems of Linear Ordinary Differential Equations: A Matrix-Based Approach
- Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy
- Parameter estimation in models of biological oscillators: an automated regularised estimation approach
- Parameter estimation with bio-inspired meta-heuristic optimization: modeling the dynamics of endocytosis
- Peak alignment using wavelet pattern matching and differential evolution
- Peakbin selection in mass spectrometry data using a consensus approach with estimation of distribution algorithms
- Performance Evaluation and Online Realization of Data-driven Normalization Methods Used in LC/MS based Untargeted Metabolomics Analysis
- Performance of objective functions and optimization procedures for parameter estimation in system biology models
- Predicting Breast Cancer Survivability Using Data Mining Techniques
- Preprocessing of tandem mass spectrometric data to support automatic protein identification
- Prevention, diagnosis and treatment of high-throughput sequencing data pathologies
- Project 20 Benchmark Problems for Modelling Intracellular Processes
- Project Imputation in Proteomics
- Recursive partitioning for missing data imputation in the presence of interaction effects
- Recursive partitioning for missing data imputation in the presence of interaction effects.
- Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics
- Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics.