Lista de obras - Jörg Rahnenführer - Dominio Público Uruguay

A Comprehensive Analysis of Human Gene Expression Profiles Identifies Stromal Immunoglobulin C as a Compatible Prognostic Marker in Human Solid Tumors

article

A Multicriteria Approach to Find Predictive and Sparse Models with Stable Feature Selection for High-Dimensional Data

artículo científico publicado en 2017

A detailed comparison of analysis processes for MCC-IMS data in disease classification-Automated methods can replace manual peak annotations

artículo científico publicado en 2017

A new measure for functional similarity of gene products based on Gene Ontology

artículo científico publicado en 2006

A transcriptome-based classifier to identify developmental toxicants by stem cell testing: design, validation and optimization for histone deacetylase inhibitors

artículo científico publicado en 2015

Altered Stress-Induced Regulation of Genes in Monocytes in Adults with a History of Childhood Adversity

artículo científico publicado en 2016

Analysis of compound synergy in high-throughput cellular screens by population-based lifetime modeling

artículo científico publicado en 2010

Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas.

artículo científico publicado en 2007

Arabidopsis female gametophyte gene expression map reveals similarities between plant and animal gametes

artículo científico publicado en 2010

Assessment of stem cell differentiation based on genome-wide expression profiles

artículo científico publicado en 2018

Automated clustering of ensembles of alternative models in protein structure databases.

artículo científico publicado en 2004

Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.

artículo científico publicado en 2012

Calculating the statistical significance of changes in pathway activity from gene expression data

artículo científico publicado en 2004

Cellular and molecular characterization of early and late retinal stem cells/progenitors: differential regulation of proliferation and context dependent role of Notch signaling.

artículo científico publicado en 2004

Changes in cortical cytoskeletal and extracellular matrix gene expression in prostate cancer are related to oncogenic ERG deregulation.

artículo científico publicado en 2010

Classification with high-dimensional genetic data: assigning patients and genetic features to known classes

artículo científico publicado en 2008

Clinical outcome of patients with lymph node-positive prostate cancer following radical prostatectomy and extended sentinel lymph node dissection

artículo científico publicado en 2014

Clonal cytogenetic progression within intratumorally heterogeneous meningiomas predicts tumor recurrence

artículo científico publicado en 2011

Comparison and Evaluation of Clustering Algorithms for Tandem Mass Spectra.

artículo científico publicado en 2017

Comparison of a teratogenic transcriptome-based predictive test based on human embryonic versus inducible pluripotent stem cells.

artículo científico publicado en 2016

Comparison of scores for bimodality of gene expression distributions and genome-wide evaluation of the prognostic relevance of high-scoring genes.

artículo científico publicado en 2010

Computational methods for the design of effective therapies against drug resistant HIV strains

artículo científico publicado en 2005

Confirmation of human protein interaction data by human expression data

artículo científico publicado en 2005

Conformational analysis of alternative protein structures

artículo científico publicado en 2007

Correspondence of tumor localization with tumor recurrence and cytogenetic progression in meningiomas

artículo científico publicado en 2008

Corrigendum to Normalization of data for viability and relative cell function curves

scientific article published on 01 January 2019

Cost-Constrained feature selection in binary classification: adaptations for greedy forward selection and genetic algorithms

scientific article published on 28 January 2020

Cumulative disease progression models for cross-sectional data: a review and comparison

artículo científico publicado en 2012

D-score: a search engine independent MD-score.

artículo científico publicado en 2013

DISMS2: A flexible algorithm for direct proteome- wide distance calculation of LC-MS/MS runs

artículo científico publicado en 2017

Definition of transcriptome-based indices for quantitative characterization of chemically disturbed stem cell development: introduction of the STOP-Toxukn and STOP-Toxukk tests

artículo científico publicado en 2016

Design principles of concentration-dependent transcriptome deviations in drug-exposed differentiating stem cells.

artículo científico publicado en 2014

Detection of patient subgroups with differential expression in omics data: a comprehensive comparison of univariate measures

artículo científico publicado en 2013

Determination of benchmark concentrations and their statistical uncertainty for cytotoxicity test data and functional in vitro assays

artículo científico publicado en 2019

Development of a neural rosette formation assay (RoFA) to identify neurodevelopmental toxicants and to characterize their transcriptome disturbances

scientific article published on 11 November 2019

EDI3 links choline metabolism to integrin expression, cell adhesion and spreading

artículo científico publicado en 2014

ERBB2 and TOP2A in breast cancer: a comprehensive analysis of gene amplification, RNA levels, and protein expression and their influence on prognosis and prediction.

artículo científico publicado en 2010

ERBB2 induces an antiapoptotic expression pattern of Bcl-2 family members in node-negative breast cancer.

artículo científico publicado en 2010

Ep-CAM RNA expression predicts metastasis-free survival in three cohorts of untreated node-negative breast cancer

artículo científico publicado en 2010

Epsin Family Member 3 and Ribosome-Related Genes Are Associated with Late Metastasis in Estrogen Receptor-Positive Breast Cancer and Long-Term Survival in Non-Small Cell Lung Cancer Using a Genome-Wide Identification and Validation Strategy

artículo científico publicado en 2016

Estimating HIV evolutionary pathways and the genetic barrier to drug resistance

artículo científico publicado en 2005

Estimating cancer survival and clinical outcome based on genetic tumor progression scores

artículo científico publicado en 2005

Evaluation of Adjusted and Unadjusted Indirect Comparison Methods in Benefit Assessment. A Simulation Study for Time-to-event Endpoints

artículo científico publicado en 2017

Expression of aurora kinase A is associated with metastasis-free survival in node-negative breast cancer patients

artículo científico publicado en 2012

Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer

artículo científico

From smoking guns to footprints: mining for critical events of toxicity pathways in transcriptome data

artículo científico publicado en 2015

From transient transcriptome responses to disturbed neurodevelopment: role of histone acetylation and methylation as epigenetic switch between reversible and irreversible drug effects.

artículo científico publicado en 2014

GOTax: investigating biological processes and biochemical activities along the taxonomic tree.

artículo científico publicado en 2007

Gelsolin Is Associated with Longer Metastasis-free Survival and Reduced Cell Migration in Estrogen Receptor-positive Breast Cancer.

artículo científico publicado en 2015

Glycerol-3-phosphate Acyltransferase 1 Promotes Tumor Cell Migration and Poor Survival in Ovarian Carcinoma.

artículo científico publicado en 2017

Glycerophospholipid profile in oncogene-induced senescence

artículo científico publicado en 2011

Going from where to why--interpretable prediction of protein subcellular localization

artículo científico publicado en 2010

Hepatotoxicity of piperazine designer drugs: up-regulation of key enzymes of cholesterol and lipid biosynthesis

artículo científico

Human Pluripotent Stem Cell Based Developmental Toxicity Assays for Chemical Safety Screening and Systems Biology Data Generation

artículo científico publicado en 2015

Human embryonic stem cell-derived test systems for developmental neurotoxicity: a transcriptomics approach

artículo científico publicado en 2012

Hybrid clustering for microarray image analysis combining intensity and shape features

artículo científico publicado en 2004

Hyperdiploidy defines a distinct cytogenetic entity of meningiomas

scientific article published on 17 January 2007

Identification of sample annotation errors in gene expression datasets

artículo científico publicado en 2015

Identification of transcriptome signatures and biomarkers specific for potential developmental toxicants inhibiting human neural crest cell migration.

artículo científico publicado en 2015

Image analysis for cDNA microarrays

artículo científico publicado en 2005

Impact of intratumoral heterogeneity of breast cancer tissue on quantitative metabolomics using high-resolution magic angle spinning 1 H NMR spectroscopy

artículo científico publicado en 2017

Impairment of human neural crest cell migration by prolonged exposure to interferon-beta.

artículo científico publicado en 2017

Improved scoring of functional groups from gene expression data by decorrelating GO graph structure

artículo científico publicado en 2006

In vitro - in vivo correlation of gene expression alterations induced by liver carcinogens.

artículo científico publicado en 2012

Indirect Comparisons in Benefit Assessment

artículo científico publicado en 2015

Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer.

artículo científico publicado en 2017

Interferon-inducible guanylate binding protein (GBP2) is associated with better prognosis in breast cancer and indicates an efficient T cell response

artículo científico publicado en 2012

LIPG-promoted lipid storage mediates adaptation to oxidative stress in breast cancer

artículo científico publicado en 2019

Learning multiple evolutionary pathways from cross-sectional data

artículo científico publicado en 2005

Loss of circadian clock gene expression is associated with tumor progression in breast cancer.

artículo científico publicado en 2014

Mechanical strain mimicking breathing amplifies alterations in gene expression induced by SiO2 NPs in lung epithelial cells

scientific article published on 16 August 2019

Metabolic profiling of ob/ob mouse fatty liver using HR-MAS 1H-NMR combined with gene expression analysis reveals alterations in betaine metabolism and the transsulfuration pathway

artículo científico publicado en 2016

Model selection for mixtures of mutagenetic trees

artículo científico publicado en 2006

Model-based optimization of subgroup weights for survival analysis

scientific article published on 01 July 2019

Modelling nonstationary gene regulatory processes

artículo científico publicado en 2010

Molecular biological determinations of meningioma progression and recurrence

artículo científico publicado en 2014

Mtreemix: a software package for learning and using mixture models of mutagenetic trees

artículo científico publicado en 2005

No longer confidential: estimating the confidence of individual regression predictions

artículo científico publicado en 2012

Normalization of data for viability and relative cell function curves

artículo científico publicado en 2018

Optimal strategies for sequential validation of significant features from high-dimensional genomic data

artículo científico publicado en 2012

P06.06PROGNOSIS OF MENINGIOMAS IN THE 1970S AND TODAY.

artículo científico publicado en 2014

Patients with high-grade gliomas harboring deletions of chromosomes 9p and 10q benefit from temozolomide treatment

artículo científico publicado en 2005

Peek a peak: a glance at statistics for quantitative label-free proteomics.

artículo científico publicado en 2010

Polymorphisms in the IGF1 signalling pathway including the myostatin gene are associated with left ventricular mass in male athletes

artículo científico publicado en 2009

Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions

scientific article published on 18 May 2009

Prediction of human drug-induced liver injury (DILI) in relation to oral doses and blood concentrations

artículo científico publicado en 2019

Probabilistic Consensus Scoring Improves Tandem Mass Spectrometry Peptide Identification

Profiling cancer testis antigens in non-small-cell lung cancer

artículo científico publicado en 2016

Prognostic Impact of Tumor Cell Programmed Death Ligand 1 Expression and Immune Cell Infiltration in NSCLC

artículo científico publicado en 2019

Prognostic impact of COX-2 in non-small cell lung cancer: a comprehensive compartment-specific evaluation of tumor and stromal cell expression

artículo científico publicado en 2014

Prognostic influence of pre-operative C-reactive protein in node-negative breast cancer patients

artículo científico publicado en 2014

Prognostic significance of interferon regulating factor 4 (IRF4) in node-negative breast cancer.

artículo científico publicado en 2017

Protein phosphatase and TRAIL receptor genes as new candidate tumor genes on chromosome 8p in prostate cancer

artículo científico publicado en 2008

Reaching the limits of prognostication in non-small cell lung cancer: an optimized biomarker panel fails to outperform clinical parameters.

artículo científico publicado en 2017

Reef calcifiers are adapted to episodic heat stress but vulnerable to sustained warming.

artículo científico publicado en 2017

Relevance of the incubation period in cytotoxicity testing with primary human hepatocytes

article

Retention time alignment algorithms for LC/MS data must consider non-linear shifts

artículo científico publicado en 2009

Retinal properties and potential of the adult mammalian ciliary epithelium stem cells

artículo científico publicado en 2005

Robust selection of cancer survival signatures from high-throughput genomic data using two-fold subsampling

artículo científico publicado en 2014

Role of thioredoxin reductase 1 and thioredoxin interacting protein in prognosis of breast cancer

artículo científico publicado en 2010

Rtreemix: an R package for estimating evolutionary pathways and genetic progression scores

artículo científico publicado en 2008

Stability analysis of mixtures of mutagenetic trees

artículo científico publicado en 2008

Statistical analysis of MCC-IMS data for two group comparisons-an exemplary study on two devices

scientific article published on 04 June 2019

Stem Cell Transcriptome Responses and Corresponding Biomarkers That Indicate the Transition from Adaptive Responses to Cytotoxicity.

artículo científico

Stem Cell-Derived Immature Human Dorsal Root Ganglia Neurons to Identify Peripheral Neurotoxicants

artículo científico publicado en 2016

Subtype-specific prognostic impact of different immune signatures in node-negative breast cancer.

artículo científico publicado en 2017

Survival models with preclustered gene groups as covariates

artículo científico publicado en 2011

Test systems of developmental toxicity: state-of-the art and future perspectives.

artículo científico publicado en 2013

The G Protein-Coupled Bile Acid Receptor TGR5 (Gpbar1) Modulates Endothelin-1 Signaling in Liver

scientific article published on 19 November 2019

The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling

artículo científico publicado en 2014

The prognostic relevance of tumour-infiltrating plasma cells and immunoglobulin kappa C indicates an important role of the humoral immune response in non-small cell lung cancer

artículo científico publicado en 2013

TiMEx: a waiting time model for mutually exclusive cancer alterations

artículo científico publicado en 2015

Toxicogenomics directory of chemically exposed human hepatocytes

artículo científico publicado en 2014

Toxicogenomics directory of rat hepatotoxicants in vivo and in cultivated hepatocytes

artículo científico publicado en 2018

Unsupervised technique for robust target separation and analysis of DNA microarray spots through adaptive pixel clustering.

artículo científico publicado en 2002

Variable selection for disease progression models: methods for oncogenetic trees and application to cancer and HIV.

artículo científico publicado en 2017

YLoc--an interpretable web server for predicting subcellular localization

artículo científico publicado en 2010

p15 promoter methylation - a novel prognostic marker in glioblastoma patients.

artículo científico publicado en 2009

Lista de obras de Jörg Rahnenführer

A Comprehensive Analysis of Human Gene Expression Profiles Identifies Stromal Immunoglobulin C as a Compatible Prognostic Marker in Human Solid Tumors

A Multicriteria Approach to Find Predictive and Sparse Models with Stable Feature Selection for High-Dimensional Data

A detailed comparison of analysis processes for MCC-IMS data in disease classification-Automated methods can replace manual peak annotations

A new measure for functional similarity of gene products based on Gene Ontology

A transcriptome-based classifier to identify developmental toxicants by stem cell testing: design, validation and optimization for histone deacetylase inhibitors

Altered Stress-Induced Regulation of Genes in Monocytes in Adults with a History of Childhood Adversity

Analysis of compound synergy in high-throughput cellular screens by population-based lifetime modeling

Application of oncogenetic trees mixtures as a biostatistical model of the clonal cytogenetic evolution of meningiomas.

Arabidopsis female gametophyte gene expression map reveals similarities between plant and animal gametes

Assessment of stem cell differentiation based on genome-wide expression profiles

Automated clustering of ensembles of alternative models in protein structure databases.

Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.

Calculating the statistical significance of changes in pathway activity from gene expression data

Cellular and molecular characterization of early and late retinal stem cells/progenitors: differential regulation of proliferation and context dependent role of Notch signaling.

Changes in cortical cytoskeletal and extracellular matrix gene expression in prostate cancer are related to oncogenic ERG deregulation.

Classification with high-dimensional genetic data: assigning patients and genetic features to known classes

Clinical outcome of patients with lymph node-positive prostate cancer following radical prostatectomy and extended sentinel lymph node dissection

Clonal cytogenetic progression within intratumorally heterogeneous meningiomas predicts tumor recurrence

Comparison and Evaluation of Clustering Algorithms for Tandem Mass Spectra.

Comparison of a teratogenic transcriptome-based predictive test based on human embryonic versus inducible pluripotent stem cells.

Comparison of scores for bimodality of gene expression distributions and genome-wide evaluation of the prognostic relevance of high-scoring genes.

Computational methods for the design of effective therapies against drug resistant HIV strains

Confirmation of human protein interaction data by human expression data

Conformational analysis of alternative protein structures

Correspondence of tumor localization with tumor recurrence and cytogenetic progression in meningiomas

Corrigendum to Normalization of data for viability and relative cell function curves

Cost-Constrained feature selection in binary classification: adaptations for greedy forward selection and genetic algorithms

Cumulative disease progression models for cross-sectional data: a review and comparison

D-score: a search engine independent MD-score.

DISMS2: A flexible algorithm for direct proteome- wide distance calculation of LC-MS/MS runs

Definition of transcriptome-based indices for quantitative characterization of chemically disturbed stem cell development: introduction of the STOP-Toxukn and STOP-Toxukk tests

Design principles of concentration-dependent transcriptome deviations in drug-exposed differentiating stem cells.

Detection of patient subgroups with differential expression in omics data: a comprehensive comparison of univariate measures

Determination of benchmark concentrations and their statistical uncertainty for cytotoxicity test data and functional in vitro assays

Development of a neural rosette formation assay (RoFA) to identify neurodevelopmental toxicants and to characterize their transcriptome disturbances

EDI3 links choline metabolism to integrin expression, cell adhesion and spreading

ERBB2 and TOP2A in breast cancer: a comprehensive analysis of gene amplification, RNA levels, and protein expression and their influence on prognosis and prediction.

ERBB2 induces an antiapoptotic expression pattern of Bcl-2 family members in node-negative breast cancer.

Ep-CAM RNA expression predicts metastasis-free survival in three cohorts of untreated node-negative breast cancer

Epsin Family Member 3 and Ribosome-Related Genes Are Associated with Late Metastasis in Estrogen Receptor-Positive Breast Cancer and Long-Term Survival in Non-Small Cell Lung Cancer Using a Genome-Wide Identification and Validation Strategy

Estimating HIV evolutionary pathways and the genetic barrier to drug resistance

Estimating cancer survival and clinical outcome based on genetic tumor progression scores

Evaluation of Adjusted and Unadjusted Indirect Comparison Methods in Benefit Assessment. A Simulation Study for Time-to-event Endpoints

Expression of aurora kinase A is associated with metastasis-free survival in node-negative breast cancer patients

Factor interaction analysis for chromosome 8 and DNA methylation alterations highlights innate immune response suppression and cytoskeletal changes in prostate cancer

From smoking guns to footprints: mining for critical events of toxicity pathways in transcriptome data

From transient transcriptome responses to disturbed neurodevelopment: role of histone acetylation and methylation as epigenetic switch between reversible and irreversible drug effects.

GOTax: investigating biological processes and biochemical activities along the taxonomic tree.

Gelsolin Is Associated with Longer Metastasis-free Survival and Reduced Cell Migration in Estrogen Receptor-positive Breast Cancer.

Glycerol-3-phosphate Acyltransferase 1 Promotes Tumor Cell Migration and Poor Survival in Ovarian Carcinoma.

Glycerophospholipid profile in oncogene-induced senescence

Going from where to why--interpretable prediction of protein subcellular localization

Hepatotoxicity of piperazine designer drugs: up-regulation of key enzymes of cholesterol and lipid biosynthesis

Human Pluripotent Stem Cell Based Developmental Toxicity Assays for Chemical Safety Screening and Systems Biology Data Generation

Human embryonic stem cell-derived test systems for developmental neurotoxicity: a transcriptomics approach

Hybrid clustering for microarray image analysis combining intensity and shape features

Hyperdiploidy defines a distinct cytogenetic entity of meningiomas

Identification of sample annotation errors in gene expression datasets

Identification of transcriptome signatures and biomarkers specific for potential developmental toxicants inhibiting human neural crest cell migration.

Image analysis for cDNA microarrays

Impact of intratumoral heterogeneity of breast cancer tissue on quantitative metabolomics using high-resolution magic angle spinning 1 H NMR spectroscopy

Impairment of human neural crest cell migration by prolonged exposure to interferon-beta.

Improved scoring of functional groups from gene expression data by decorrelating GO graph structure

In vitro - in vivo correlation of gene expression alterations induced by liver carcinogens.

Indirect Comparisons in Benefit Assessment

Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer.

Interferon-inducible guanylate binding protein (GBP2) is associated with better prognosis in breast cancer and indicates an efficient T cell response

LIPG-promoted lipid storage mediates adaptation to oxidative stress in breast cancer

Learning multiple evolutionary pathways from cross-sectional data

Loss of circadian clock gene expression is associated with tumor progression in breast cancer.

Mechanical strain mimicking breathing amplifies alterations in gene expression induced by SiO2 NPs in lung epithelial cells

Metabolic profiling of ob/ob mouse fatty liver using HR-MAS 1H-NMR combined with gene expression analysis reveals alterations in betaine metabolism and the transsulfuration pathway

Model selection for mixtures of mutagenetic trees

Model-based optimization of subgroup weights for survival analysis

Modelling nonstationary gene regulatory processes

Molecular biological determinations of meningioma progression and recurrence

Mtreemix: a software package for learning and using mixture models of mutagenetic trees

No longer confidential: estimating the confidence of individual regression predictions

Normalization of data for viability and relative cell function curves