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- 14:37, 25 February 2020 (diff | hist) . . (+34) . . Literature Studies (→Imputation methods for missing values)
- 14:36, 25 February 2020 (diff | hist) . . (+1,365) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis (→Introduction)
- 14:32, 25 February 2020 (diff | hist) . . (+1,547) . . N Evaluation of preprocessing, mapping and postprocessing algorithms for analyzing whole genome bisulfite sequencing data (Created page with "__NUMBEREDHEADINGS__ === Citation === Tsuji J, Weng Z. Evaluation of preprocessing, mapping and postprocessing algorithms for analyzing whole genome bisulfite sequencing data....") (current)
- 14:31, 25 February 2020 (diff | hist) . . (-70) . . Missing value estimation methods for DNA microarrays (→Study outcomes)
- 14:31, 25 February 2020 (diff | hist) . . (+1,231) . . N Missing value estimation methods for DNA microarrays (Created page with " === Citation === Troyanskaya, O., Cantor, M., Sherlock, G., Brown, P., Hastie, T., Tibshirani, R., Botstein, D., and Altman, R. B. (2001). Missing value estimation methods fo...")
- 14:31, 25 February 2020 (diff | hist) . . (+148) . . Literature Studies (→Preprocessing high-throughput data)
- 14:28, 25 February 2020 (diff | hist) . . (+620) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 14:20, 25 February 2020 (diff | hist) . . (+356) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- 14:16, 25 February 2020 (diff | hist) . . (+7) . . m Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology (→Summary)
- 14:16, 25 February 2020 (diff | hist) . . (+317) . . Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology
- 14:13, 25 February 2020 (diff | hist) . . (+843) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- 14:12, 25 February 2020 (diff | hist) . . (+1,531) . . N MetaboAnalyst: a web server for metabolomic data analysis and interpretation (Created page with "__NUMBEREDHEADINGS__ === Citation === Xia J, Psychogios N, Young N, Wishart DS. MetaboAnalyst: a web server for metabolomic data analysis and interpretation. Nucleic acids res...") (current)
- 14:12, 25 February 2020 (diff | hist) . . (+104) . . Literature Studies (→Omics Workflows)
- 14:10, 25 February 2020 (diff | hist) . . (+1,216) . . Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology
- 14:07, 25 February 2020 (diff | hist) . . (0) . . Literature Studies (→ODE-based Modelling)
- 14:05, 25 February 2020 (diff | hist) . . (-38) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Further comments and aspects)
- 14:05, 25 February 2020 (diff | hist) . . (-20) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→References)
- 14:04, 25 February 2020 (diff | hist) . . (+1,589) . . N MeltDB: a software platform for the analysis and integration of metabolomics experiment data (Created page with "__NUMBEREDHEADINGS__ === Citation === Neuweger H, Albaum SP, Dondrup M, Persicke M, Watt T, Niehaus K, Stoye J, Goesmann A. MeltDB: a software platform for the analysis and in...") (current)
- 14:04, 25 February 2020 (diff | hist) . . (+81) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O1)
- 14:03, 25 February 2020 (diff | hist) . . (+125) . . Literature Studies (→Omics Workflows)
- 14:02, 25 February 2020 (diff | hist) . . (+15) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O1)
- 14:02, 25 February 2020 (diff | hist) . . (-112) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:59, 25 February 2020 (diff | hist) . . (+30) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:58, 25 February 2020 (diff | hist) . . (+81) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O1)
- 13:58, 25 February 2020 (diff | hist) . . (+1,496) . . N Software platform for high-throughput glycomics (Created page with "__NUMBEREDHEADINGS__ === Citation === Vakhrushev SY, Dadimov D, Peter-Katalinic J. Software platform for high-throughput glycomics. Analytical chemistry. 2009 May 1;81(9):3252...") (current)
- 13:57, 25 February 2020 (diff | hist) . . (+83) . . Literature Studies (→Preprocessing high-throughput data)
- 13:56, 25 February 2020 (diff | hist) . . (+1,845) . . N The effects of nonignorable missing data on label-free mass spectrometry proteomics experiments (Created page with "=== Citation === O'Brien JJ, Gunawardena HP, Paulo JA, Chen X, Ibrahim JG, Gygi SP, Qaqish BF (2018). The effects of nonignorable missing data on label-free mass spectrometry...")
- 13:54, 25 February 2020 (diff | hist) . . (+55) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O1)
- 13:53, 25 February 2020 (diff | hist) . . (-3) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:51, 25 February 2020 (diff | hist) . . (+4) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:50, 25 February 2020 (diff | hist) . . (+120) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:49, 25 February 2020 (diff | hist) . . (-55) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→References)
- 13:48, 25 February 2020 (diff | hist) . . (-1) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→References)
- 13:47, 25 February 2020 (diff | hist) . . (+161) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:47, 25 February 2020 (diff | hist) . . (+379) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Study design and evidence level)
- 13:46, 25 February 2020 (diff | hist) . . (-1) . . Machine learning methods for predictive proteomics (current)
- 13:46, 25 February 2020 (diff | hist) . . (+1,530) . . N Machine learning methods for predictive proteomics (Created page with "__ NUMBEREDHEADINGS__ === Citation === Barla A, Jurman G, Riccadonna S, Merler S, Chierici M, Furlanello C. Machine learning methods for predictive proteomics. Briefings in bi...")
- 13:43, 25 February 2020 (diff | hist) . . (+80) . . Literature Studies (→Omics Workflows)
- 13:39, 25 February 2020 (diff | hist) . . (+31) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Study design and evidence level)
- 13:38, 25 February 2020 (diff | hist) . . (0) . . m Performance of objective functions and optimization procedures for parameter estimation in system biology models (→Study design and evidence level) (current)
- 13:38, 25 February 2020 (diff | hist) . . (+458) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Study outcomes)
- 13:38, 25 February 2020 (diff | hist) . . (+275) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models
- 13:35, 25 February 2020 (diff | hist) . . (+122) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:32, 25 February 2020 (diff | hist) . . (-2) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Further outcomes)
- 13:30, 25 February 2020 (diff | hist) . . (+7) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Outcome O2)
- 13:30, 25 February 2020 (diff | hist) . . (+30) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- 13:29, 25 February 2020 (diff | hist) . . (-1) . . Data-driven normalization strategies for high-throughput quantitative RT-PCR (current)
- 13:29, 25 February 2020 (diff | hist) . . (+1,571) . . N Data-driven normalization strategies for high-throughput quantitative RT-PCR (Created page with "__ NUMBEREDHEADINGS__ === Citation === Mar JC, Kimura Y, Schroder K, Irvine KM, Hayashizaki Y, Suzuki H, Hume D, Quackenbush J. Data-driven normalization strategies for high-t...")
- 13:28, 25 February 2020 (diff | hist) . . (-36) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O2)
- 13:27, 25 February 2020 (diff | hist) . . (+105) . . Literature Studies (→Preprocessing high-throughput data)
- 13:27, 25 February 2020 (diff | hist) . . (0) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Further comments and aspects)
- 13:27, 25 February 2020 (diff | hist) . . (-1) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (→Design for Outcome O2)
- 13:27, 25 February 2020 (diff | hist) . . (+124) . . A comparison of methods for quantifying prediction uncertainty in systems biology (Undo revision 563 by Bwday (talk)) (Tag: Undo)
- 13:27, 25 February 2020 (diff | hist) . . (+3,543) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- 13:27, 25 February 2020 (diff | hist) . . (-124) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O2)
- 13:26, 25 February 2020 (diff | hist) . . (-117) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O)
- 13:26, 25 February 2020 (diff | hist) . . (+35) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Design for Outcome O1)
- 13:20, 25 February 2020 (diff | hist) . . (+26) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:19, 25 February 2020 (diff | hist) . . (-106) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models (→Study design and evidence level)
- 13:18, 25 February 2020 (diff | hist) . . (+112) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:10, 25 February 2020 (diff | hist) . . (-52) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→General aspects)
- 13:10, 25 February 2020 (diff | hist) . . (+653) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models
- 13:06, 25 February 2020 (diff | hist) . . (+1,602) . . N Comprehensive evaluation of untargeted metabolomics data processing software in feature detection, quantification and discriminating marker selection (Created page with "__NUMBEREDHEADINGS__ === Citation === Li Z, Lu Y, Guo Y, Cao H, Wang Q, Shui W. Comprehensive evaluation of untargeted metabolomics data processing software in feature detecti...") (current)
- 13:06, 25 February 2020 (diff | hist) . . (+2) . . Literature Studies (→Preprocessing high-throughput data)
- 13:05, 25 February 2020 (diff | hist) . . (+173) . . Literature Studies (→Preprocessing high-throughput data)
- 13:03, 25 February 2020 (diff | hist) . . (-76) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Further outcomes)
- 13:02, 25 February 2020 (diff | hist) . . (-153) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O3)
- 13:02, 25 February 2020 (diff | hist) . . (-1) . . Comparison of peak‐picking workflows for untargeted liquid chromatography/high‐resolution mass spectrometry metabolomics data analysis (current)
- 13:02, 25 February 2020 (diff | hist) . . (+1,582) . . N Comparison of peak‐picking workflows for untargeted liquid chromatography/high‐resolution mass spectrometry metabolomics data analysis (Created page with "__ NUMBEREDHEADINGS__ === Citation === Rafiei A, Sleno L. Comparison of peak‐picking workflows for untargeted liquid chromatography/high‐resolution mass spectrometry metab...")
- 13:01, 25 February 2020 (diff | hist) . . (+168) . . Literature Studies (→Preprocessing high-throughput data)
- 12:59, 25 February 2020 (diff | hist) . . (-46) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O2)
- 12:59, 25 February 2020 (diff | hist) . . (+177) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O1)
- 12:58, 25 February 2020 (diff | hist) . . (0) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O3)
- 12:58, 25 February 2020 (diff | hist) . . (+60) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome On)
- 12:56, 25 February 2020 (diff | hist) . . (+1,553) . . N Comparative evaluation of preprocessing freeware on chromatography/mass spectrometry data for signature discovery (Created page with "__NUMBEREDHEADINGS__ === Citation === Coble JB, Fraga CG. Comparative evaluation of preprocessing freeware on chromatography/mass spectrometry data for signature discovery. Jo...") (current)
- 12:55, 25 February 2020 (diff | hist) . . (+143) . . Literature Studies (→Preprocessing high-throughput data)
- 12:55, 25 February 2020 (diff | hist) . . (+11) . . Literature Studies (→Imputation methods for missing values)
- 12:54, 25 February 2020 (diff | hist) . . (+8) . . Literature Studies (→Imputation methods for missing values)
- 12:54, 25 February 2020 (diff | hist) . . (-5) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O2)
- 12:53, 25 February 2020 (diff | hist) . . (+12) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O1)
- 12:51, 25 February 2020 (diff | hist) . . (+95) . . Literature Studies (→Imputation methods for missing values)
- 12:50, 25 February 2020 (diff | hist) . . (0) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O2)
- 12:50, 25 February 2020 (diff | hist) . . (+110) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O2)
- 12:44, 25 February 2020 (diff | hist) . . (+131) . . Literature Studies (→Preprocessing high-throughput data)
- 12:44, 25 February 2020 (diff | hist) . . (-78) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models (→Study outcomes)
- 12:39, 25 February 2020 (diff | hist) . . (+38) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Outcome O1)
- 12:34, 25 February 2020 (diff | hist) . . (+154) . . Literature Studies (→Omics Workflows)
- 12:32, 25 February 2020 (diff | hist) . . (+14) . . Literature Studies (→Imputation methods for missing values)
- 12:30, 25 February 2020 (diff | hist) . . (+109) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Summary)
- 12:29, 25 February 2020 (diff | hist) . . (+505) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models (→Summary)
- 12:28, 25 February 2020 (diff | hist) . . (+115) . . Literature Studies (→Omics Workflows)
- 12:27, 25 February 2020 (diff | hist) . . (+10) . . Literature Studies (→Omics Workflows)
- 12:26, 25 February 2020 (diff | hist) . . (0) . . Literature Studies (→Omics Workflows)
- 12:26, 25 February 2020 (diff | hist) . . (+14) . . Literature Studies (→Omics Workflows)
- 12:25, 25 February 2020 (diff | hist) . . (-1) . . An Automated Pipeline for High-Throughput Label-Free Quantitative Proteomics (current)
- 12:24, 25 February 2020 (diff | hist) . . (+1,612) . . N An Automated Pipeline for High-Throughput Label-Free Quantitative Proteomics (Created page with "__ NUMBEREDHEADINGS__ === Citation === Weisser H, Nahnsen S, Grossmann J, Nilse L, Quandt A, Brauer H, Sturm M, Kenar E, Kohlbacher O, Aebersold R, Malmström L. An automated...")
- 12:24, 25 February 2020 (diff | hist) . . (+98) . . Literature Studies (→Imputation methods for missing values)
- 12:23, 25 February 2020 (diff | hist) . . (+98) . . Literature Studies (→Omics Workflows)
- 12:22, 25 February 2020 (diff | hist) . . (-111) . . Literature Studies (→Omics Workflows)
- 12:21, 25 February 2020 (diff | hist) . . (+198) . . Literature Studies (→Omics Workflows)
- 12:19, 25 February 2020 (diff | hist) . . (-1) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:19, 25 February 2020 (diff | hist) . . (+24) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:17, 25 February 2020 (diff | hist) . . (+286) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:14, 25 February 2020 (diff | hist) . . (+3) . . Literature Studies (→Preprocessing high-throughput data)
- 12:13, 25 February 2020 (diff | hist) . . (-1) . . Parameter estimation in models of biological oscillators: an automated regularised estimation approach (current)
- 12:13, 25 February 2020 (diff | hist) . . (+22) . . Parameter estimation in models of biological oscillators: an automated regularised estimation approach (→Paper name)
- 12:13, 25 February 2020 (diff | hist) . . (+22) . . Parameter Estimation and Variable Selection for Big Systems of Linear Ordinary Differential Equations: A Matrix-Based Approach
- 12:13, 25 February 2020 (diff | hist) . . (+180) . . Literature Studies (→Preprocessing high-throughput data)
- 12:13, 25 February 2020 (diff | hist) . . (+22) . . Mini-batch optimization enables training of ODE models on large-scale datasets (→Paper name)
- 12:12, 25 February 2020 (diff | hist) . . (+21) . . Efficient computation of steady states in large-scale ODE models of biochemical reaction networks (current)
- 12:11, 25 February 2020 (diff | hist) . . (+2) . . Literature Studies (→Imputation methods for missing values)
- 12:11, 25 February 2020 (diff | hist) . . (+22) . . Benchmark problems for dynamic modeling of intracellular processes
- 12:11, 25 February 2020 (diff | hist) . . (+1,530) . . Literature Studies (→Imputation methods for missing values)
- 12:10, 25 February 2020 (diff | hist) . . (-1) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:10, 25 February 2020 (diff | hist) . . (+308) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis (→Summary)
- 12:10, 25 February 2020 (diff | hist) . . (-285) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:10, 25 February 2020 (diff | hist) . . (0) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 12:08, 25 February 2020 (diff | hist) . . (-6) . . Literature Studies (→Preprocessing high-throughput data)
- 12:08, 25 February 2020 (diff | hist) . . (+6) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Summary)
- 12:07, 25 February 2020 (diff | hist) . . (-1) . . MS‐Analyzer: preprocessing and data mining services for proteomics applications on the Grid (current)
- 12:07, 25 February 2020 (diff | hist) . . (+1,550) . . N MS‐Analyzer: preprocessing and data mining services for proteomics applications on the Grid (Created page with "__ NUMBEREDHEADINGS__ === Citation === Cannataro M, Veltri P. MS‐Analyzer: preprocessing and data mining services for proteomics applications on the Grid. Concurrency and Co...")
- 12:06, 25 February 2020 (diff | hist) . . (+1) . . Literature Studies (→Preprocessing high-throughput data)
- 12:06, 25 February 2020 (diff | hist) . . (+126) . . Literature Studies (→Preprocessing high-throughput data)
- 12:05, 25 February 2020 (diff | hist) . . (0) . . m Literature Studies
- 12:04, 25 February 2020 (diff | hist) . . (-1) . . m Performance of objective functions and optimization procedures for parameter estimation in system biology models
- 12:02, 25 February 2020 (diff | hist) . . (+1,273) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models (→Paper name)
- 12:02, 25 February 2020 (diff | hist) . . (-28) . . Hierarchical optimization for the efficient parametrization of ODE models (→General Information)
- 12:01, 25 February 2020 (diff | hist) . . (-98) . . Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology
- 12:00, 25 February 2020 (diff | hist) . . (-89) . . Literature Studies (→ODE-based Modelling)
- 12:00, 25 February 2020 (diff | hist) . . (-71) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Study outcomes)
- 12:00, 25 February 2020 (diff | hist) . . (+49) . . Literature Studies (→Preprocessing high-throughput data)
- 11:58, 25 February 2020 (diff | hist) . . (+36) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Summary)
- 11:58, 25 February 2020 (diff | hist) . . (0) . . Hierarchical optimization for the efficient parametrization of ODE models
- 11:57, 25 February 2020 (diff | hist) . . (+6) . . Literature Studies (→Preprocessing high-throughput data)
- 11:57, 25 February 2020 (diff | hist) . . (-26) . . m Hierarchical optimization for the efficient parametrization of ODE models (→Study design and evidence level)
- 11:57, 25 February 2020 (diff | hist) . . (-1) . . Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks (current)
- 11:56, 25 February 2020 (diff | hist) . . (+23) . . Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks
- 11:56, 25 February 2020 (diff | hist) . . (+3) . . Literature Studies (→Preprocessing high-throughput data)
- 11:56, 25 February 2020 (diff | hist) . . (+1,318) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Citation)
- 11:56, 25 February 2020 (diff | hist) . . (-1) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 11:55, 25 February 2020 (diff | hist) . . (+455) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 11:55, 25 February 2020 (diff | hist) . . (-66) . . Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks
- 11:55, 25 February 2020 (diff | hist) . . (-76) . . m Hierarchical optimization for the efficient parametrization of ODE models
- 11:54, 25 February 2020 (diff | hist) . . (-99) . . Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy (current)
- 11:54, 25 February 2020 (diff | hist) . . (0) . . Fast derivatives of likelihood functionals for ODE based models using adjoint-state method
- 11:54, 25 February 2020 (diff | hist) . . (-219) . . Hierarchical optimization for the efficient parametrization of ODE models (→Study design and evidence level)
- 11:53, 25 February 2020 (diff | hist) . . (-77) . . Data-driven reverse engineering of signaling pathways using ensembles of dynamic models (current)
- 11:53, 25 February 2020 (diff | hist) . . (+41) . . Literature Studies (→Preprocessing high-throughput data)
- 11:53, 25 February 2020 (diff | hist) . . (+34) . . Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems (current)
- 11:52, 25 February 2020 (diff | hist) . . (-1) . . Lessons Learned from Quantitative Dynamical Modeling in Systems Biology (→Citation) (current)
- 11:52, 25 February 2020 (diff | hist) . . (-27) . . Lessons Learned from Quantitative Dynamical Modeling in Systems Biology (→Lessons Learned from Quantitative Dynamical Modeling in Systems Biology)
- 11:51, 25 February 2020 (diff | hist) . . (+86) . . Parameter estimation with bio-inspired meta-heuristic optimization: modeling the dynamics of endocytosis (current)
- 11:51, 25 February 2020 (diff | hist) . . (+8) . . Literature Studies (→Preprocessing high-throughput data)
- 11:50, 25 February 2020 (diff | hist) . . (-141) . . Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies (→Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies) (current)
- 11:49, 25 February 2020 (diff | hist) . . (-1) . . Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics. (→Citation) (current)
- 11:49, 25 February 2020 (diff | hist) . . (-14) . . Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics. (→General information)
- 11:48, 25 February 2020 (diff | hist) . . (-226) . . Literature Studies (→Preprocessing high-throughput data)
- 11:48, 25 February 2020 (diff | hist) . . (+26) . . Recursive partitioning for missing data imputation in the presence of interaction effects. (→Citation) (current)
- 11:47, 25 February 2020 (diff | hist) . . (-99) . . Comparing gene set analysis methods on single-nucleotide polymorphism data from Genetic Analysis Workshop 16 (→Comparing gene set analysis methods on single-nucleotide polymorphism data from Genetic Analysis Workshop 16)
- 11:45, 25 February 2020 (diff | hist) . . (+1) . . Hierarchical optimization for the efficient parametrization of ODE models (→Further comments and aspects)
- 11:45, 25 February 2020 (diff | hist) . . (+16) . . Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline (→Citation) (current)
- 11:45, 25 February 2020 (diff | hist) . . (-50) . . Hierarchical optimization for the efficient parametrization of ODE models (→Further comments and aspects)
- 11:44, 25 February 2020 (diff | hist) . . (+7) . . Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline (→Citation)
- 11:44, 25 February 2020 (diff | hist) . . (+15) . . Literature Studies (→Preprocessing high-throughput data)
- 11:44, 25 February 2020 (diff | hist) . . (+293) . . m Hierarchical optimization for the efficient parametrization of ODE models (→Further comments and aspects)
- 11:43, 25 February 2020 (diff | hist) . . (+19) . . Literature Studies (→Preprocessing high-throughput data)
- 11:42, 25 February 2020 (diff | hist) . . (+46) . . Literature Studies (→Preprocessing high-throughput data)
- 11:42, 25 February 2020 (diff | hist) . . (+5) . . Literature Studies (→Preprocessing high-throughput data)
- 11:41, 25 February 2020 (diff | hist) . . (+106) . . Literature Studies (→Preprocessing high-throughput data)
- 11:41, 25 February 2020 (diff | hist) . . (-2) . . Which missing value imputation method to use in expression profiles: a comparative study and two selection schemes (→Citation) (current)
- 11:39, 25 February 2020 (diff | hist) . . (-2) . . Gene set analysis methods: a systematic comparison (→Citation)
- 11:39, 25 February 2020 (diff | hist) . . (-2) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models
- 11:39, 25 February 2020 (diff | hist) . . (+111) . . Literature Studies (→Preprocessing high-throughput data)
- 11:39, 25 February 2020 (diff | hist) . . (-40) . . Gene set analysis methods: a systematic comparison (→Gene set analysis methods: a systematic comparison)
- 11:38, 25 February 2020 (diff | hist) . . (-65) . . MethCP: Differentially Methylated Region Detection with Change Point Models (bioRxiv) (→MethCP: Differentially Methylated Region Detection with Change Point Models) (current)
- 11:38, 25 February 2020 (diff | hist) . . (0) . . Performance of objective functions and optimization procedures for parameter estimation in system biology models
- 11:38, 25 February 2020 (diff | hist) . . (-132) . . DMRcaller: a versatile R/Bioconductor package for detection and visualization of differentially methylated regions in CpG and non-CpG contexts (→DMRcaller: a versatile R/Bioconductor package for detection and visualization of differentially methylated regions in CpG and non-CpG contexts) (current)
- 11:38, 25 February 2020 (diff | hist) . . (-17) . . Literature Studies (→Preprocessing high-throughput data)
- 11:38, 25 February 2020 (diff | hist) . . (-129) . . Defiant: (DMRs: easy, fast, identification and ANnoTation) identifies differentially Methylated regions from iron-deficient rat hippocampus (current)
- 11:37, 25 February 2020 (diff | hist) . . (+17) . . Literature Studies (→Preprocessing high-throughput data)
- 11:37, 25 February 2020 (diff | hist) . . (+1,485) . . N Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline (Created page with " === Citation === Hrydziuszko O., Viant M.R. Missing values in mass spectrometry based metabolomics: an undervalued step in the data processing pipeline (2012). Metabolomics....")
- 11:37, 25 February 2020 (diff | hist) . . (-80) . . DMRfinder: efficiently identifying differentially methylated regions from MethylC-seq data (→DMRfinder: efficiently identifying differentially methylated regions from MethylC-seq data) (current)
- 11:37, 25 February 2020 (diff | hist) . . (-2) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 11:37, 25 February 2020 (diff | hist) . . (-137) . . m Hierarchical optimization for the efficient parametrization of ODE models (→General Information)
- 11:37, 25 February 2020 (diff | hist) . . (0) . . Hybrid optimization method with general switching strategy for parameter estimation (→Paper name)
- 11:37, 25 February 2020 (diff | hist) . . (+1) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
- 11:37, 25 February 2020 (diff | hist) . . (-1) . . Guidelines for Summarizing a Literature Study (→Template code) (current)
- 11:35, 25 February 2020 (diff | hist) . . (+12) . . m Hierarchical optimization for the efficient parametrization of ODE models (→Further comments and aspects)
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- 11:21, 25 February 2020 (diff | hist) . . (0) . . m Hierarchical optimization for the efficient parametrization of ODE models (→Convergence of optimizer)
- 11:03, 25 February 2020 (diff | hist) . . (0) . . A comparison of methods for quantifying prediction uncertainty in systems biology (→Paper name)
- 11:02, 25 February 2020 (diff | hist) . . (+1,570) . . N Which missing value imputation method to use in expression profiles: a comparative study and two selection schemes (Created page with " === Citation === G. N., Shaffer, J. R., Blakesley, R. E., Lotz, M. J., and Tseng, G. C. (2008). Which missing value imputation method to use in expression profiles: a compara...")
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- 11:01, 25 February 2020 (diff | hist) . . (-105) . . Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems
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- 10:58, 25 February 2020 (diff | hist) . . (-1) . . Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis (→Paper name)
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- 10:56, 25 February 2020 (diff | hist) . . (+1,518) . . N Recursive partitioning for missing data imputation in the presence of interaction effects. (Created page with " === Citation === Doove, L., Buuren, S. V., and Dusseldorp, E. (2014). Recursive partitioning for missing data imputation in the presence of interaction effects. Computational...")
- 10:55, 25 February 2020 (diff | hist) . . (+145) . . Hierarchical optimization for the efficient parametrization of ODE models (→Computational Efficiency)
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- 10:51, 25 February 2020 (diff | hist) . . (+428) . . N Performance of objective functions and optimization procedures for parameter estimation in system biology models (Created page with "__NUMBEREDHEADINGS__ == Performance of objective functions and optimisation procedures for parameter estimation in system biology models == Andrea Degasperi, Dirk Fey & Boris...")
- 10:51, 25 February 2020 (diff | hist) . . (-3) . . Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics. (→General information)
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- 10:48, 25 February 2020 (diff | hist) . . (+31) . . Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics. (→General information)
- 10:48, 25 February 2020 (diff | hist) . . (+388) . . N Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis (Created page with "__NUMBEREDHEADINGS__ == Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis == Paul Stapor, Fabian Fro¨ hlich1, and Jan Hasenau...")
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- 10:45, 25 February 2020 (diff | hist) . . (+140) . . Parameter Estimation and Variable Selection for Big Systems of Linear Ordinary Differential Equations: A Matrix-Based Approach (→Paper name)
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- 10:43, 25 February 2020 (diff | hist) . . (+259) . . N Efficient computation of steady states in large-scale ODE models of biochemical reaction networks (Created page with "== Paper name == Lines, Glenn Terje, et al. "Efficient computation of steady states in large-scale ODE models of biochemical reaction networks." IFAC-PapersOnLine 52.26 (2019)...")
- 10:42, 25 February 2020 (diff | hist) . . (-5) . . Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics. (→General information)
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- 10:41, 25 February 2020 (diff | hist) . . (+4) . . Hierarchical optimization for the efficient parametrization of ODE models (→Summary)
- 10:41, 25 February 2020 (diff | hist) . . (+174) . . N Parameter Estimation and Variable Selection for Big Systems of Linear Ordinary Differential Equations: A Matrix-Based Approach (Created page with "== Paper name == Authors, title, year, journal, volume, pages etc in any possible citation style. [https://doi.org/10.1371/journal.pone.0074335: Permanent link to the paper]")
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- 10:40, 25 February 2020 (diff | hist) . . (+223) . . N Benchmark problems for dynamic modeling of intracellular processes (Created page with "== Paper name == Hass, Helge, et al. "Benchmark problems for dynamic modeling of intracellular processes." Bioinformatics 35.17 (2019): 3073-3082. [https://doi.org/10.1093/bi...")
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- 10:39, 25 February 2020 (diff | hist) . . (+1,509) . . N Prevention, diagnosis and treatment of high-throughput sequencing data pathologies (Created page with "__NUMBEREDHEADINGS__ == General information == Zhou X, Rokas A. Prevention, diagnosis and treatment of high‐throughput sequencing data pathologies. Molecular ecology. 2014 A...") (current)
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- 10:37, 25 February 2020 (diff | hist) . . (+248) . . N Fast derivatives of likelihood functionals for ODE based models using adjoint-state method (Created page with "__NUMBEREDHEADINGS__ == Paper name == Melicher, V., Haber, T. & Vanroose, W. [https://doi.org/10.1007/s00180-017-0765-8 Fast derivatives of likelihood functionals for ODE base...")
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- 10:29, 25 February 2020 (diff | hist) . . (+1,601) . . N Identification and Correction of Additive and Multiplicative Spatial Biases in Experimental High-Throughput Screening (Created page with "__NUMBEREDHEADINGS__ == General information == Mazoure B, Caraus I, Nadon R, Makarenkov V. Identification and Correction of Additive and Multiplicative Spatial Biases in Exper...") (current)
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