Lista de obras - Jesper Tegnér - Dominio Público Uruguay

A Decomposition Method for Global Evaluation of Shannon Entropy and Local Estimations of Algorithmic Complexity

artículo científico publicado en 2018

A Review of Graph and Network Complexity from an Algorithmic Information Perspective

artículo científico publicado en 2018

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data

artículo científico publicado en 2012

A minimal unified model of disease trajectories captures hallmarks of multiple sclerosis

artículo científico publicado en 2017

A perspective on bridging scales and design of models using low-dimensional manifolds and data-driven model inference

artículo científico publicado en 2016

A vision and strategy for the virtual physiological human in 2010 and beyond.

artículo científico publicado en 2010

A vision and strategy for the virtual physiological human: 2012 update.

artículo científico publicado en 2013

Accelerating translational research by clinically driven development of an informatics platform--a case study

artículo científico publicado en 2014

Adaptive input data transformation for improved network reconstruction with information theoretic algorithms

artículo científico publicado en 2016

An Algorithmic Information Calculus for Causal Discovery and Reprogramming Systems

artículo científico publicado en 2019

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man

An atlas of combinatorial transcriptional regulation in mouse and man

artículo científico publicado en 2010

An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform

artículo científico publicado en 2013

An integrative analysis reveals coordinated reprogramming of the epigenome and the transcriptome in human skeletal muscle after training

artículo científico publicado en 2014

ApoB100-LDL acts as a metabolic signal from liver to peripheral fat causing inhibition of lipolysis in adipocytes

artículo científico publicado en 2008

Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders

artículo científico publicado en 2015

Biomedical research in a Digital Health Framework

artículo científico publicado en 2014

Blood levels of dual-specificity phosphatase-1 independently predict risk for post-operative morbidities causing prolonged hospitalization after coronary artery bypass grafting

artículo científico publicado en 2011

Bridging the gap between systems biology and medicine

artículo científico

Building gene regulatory networks from single-cell ATAC-seq and RNA-seq using Linked Self-Organizing Maps

article

Carotid plaque age is a feature of plaque stability inversely related to levels of plasma insulin

artículo científico publicado en 2011

Challenges in the Multivariate Analysis of Mass Cytometry Data: The Effect of Randomization

scientific article published on 06 November 2019

Chronic Obstructive Pulmonary Disease heterogeneity: challenges for health risk assessment, stratification and management

artículo científico publicado en 2014

Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression

artículo científico publicado en 2019

Comment on "Epigenetics in the pathogenesis of RA".

artículo científico publicado en 2017

Comparative Analysis of Protocols to Induce Human CD4+Foxp3+ Regulatory T Cells by Combinations of IL-2, TGF-beta, Retinoic Acid, Rapamycin and Butyrate

artículo científico publicado en 2016

Computational Modeling Under Uncertainty: Challenges and Opportunities

Corrigendum to "Methods of information theory and algorithmic complexity for network biology" [Semin. Cell Dev. Biol. 51 (2016) 32-43].

artículo científico publicado en 2016

Data Integration: Towards Understanding Biological Complexity

Data integration in the era of omics: current and future challenges

artículo científico publicado en 2014

Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder

artículo científico publicado en 2020

Detecting multivariate differentially expressed genes

artículo científico publicado en 2007

Detection of compound mode of action by computational integration of whole-genome measurements and genetic perturbations

artículo científico publicado en 2006

Editorial overview

Electrotonic signals along intracellular membranes may interconnect dendritic spines and nucleus

artículo científico publicado en 2008

Epigenetic alterations in autoimmune disease

artículo científico publicado en 2011

Evaluating network inference methods in terms of their ability to preserve the topology and complexity of genetic networks

artículo científico publicado en 2016

Evidence of highly regulated genes (in-Hubs) in gene networks of Saccharomyces cerevisiae

artículo científico publicado en 2008

Feedforward regulation of Myc coordinates lineage-specific with housekeeping gene expression during B cell progenitor cell differentiation

article

From Systems Understanding to Personalized Medicine: Lessons and Recommendations Based on a Multidisciplinary and Translational Analysis of COPD.

artículo científico

From comorbidities of chronic obstructive pulmonary disease to identification of shared molecular mechanisms by data integration

artículo científico publicado en 2016

Fronto-parietal connection asymmetry regulates working memory distractibility

artículo científico publicado en 2007

Functional genomics analysis of vitamin D effects on CD4+ T cells in vivo in experimental autoimmune encephalomyelitis .

artículo científico publicado en 2017

Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells

artículo científico publicado en 2021

Harmonization of quality metrics and power calculation in multi-omic studies

scientific article published on 18 June 2020

High-specificity bioinformatics framework for epigenomic profiling of discordant twins reveals specific and shared markers for ACPA and ACPA-positive rheumatoid arthritis

artículo científico publicado en 2016

Human C-reactive protein slows atherosclerosis development in a mouse model with human-like hypercholesterolemia

artículo científico publicado en 2007

Identification of novel markers in rheumatoid arthritis through integrated analysis of DNA methylation and microRNA expression

artículo científico publicado en 2013

Immunometabolic Network Interactions of the Kynurenine Pathway in Cutaneous Malignant Melanoma

artículo científico publicado en 2020

Impact of genetic risk loci for multiple sclerosis on expression of proximal genes in patients

artículo científico publicado en 2018

Implementation of the CDC translational informatics platform--from genetic variants to the national Swedish Rheumatology Quality Register

artículo científico publicado en 2013

Importance of mitochondrial P(O2) in maximal O2 transport and utilization: a theoretical analysis

artículo científico publicado en 2013

In Vitro Differentiation of Human CD4+FOXP3+ Induced Regulatory T Cells (iTregs) from Naïve CD4+ T Cells Using a TGF-β-containing Protocol

artículo científico publicado en 2016

Inferring causal molecular networks: empirical assessment through a community-based effort

artículo científico publicado en 2016

Integrated approaches to uncovering transcription regulatory networks in mammalian cells

artículo científico publicado en 2008

Introduction to Data Types in Epigenomics

List of Contributors

Low-algorithmic-complexity entropy-deceiving graphs

artículo científico publicado en 2017

Mechanism for top-down control of working memory capacity

scholarly article

Methods of information theory and algorithmic complexity for network biology

artículo científico publicado en 2016

Methylome characterization of CD4+ T cells in multiple sclerosis — Establishing a role for miR-21 in autoimmune disease

scholarly article by Sabrina Ruhrmann et al published October 2014 in Journal of Neuroimmunology

Monozygotic twins discordant for common variable immunodeficiency reveal impaired DNA demethylation during naïve-to-memory B-cell transition

artículo científico publicado en 2015

Multi-organ expression profiling uncovers a gene module in coronary artery disease involving transendothelial migration of leukocytes and LIM domain binding 2: the Stockholm Atherosclerosis Gene Expression (STAGE) study

artículo científico publicado en 2009

Network Biology Empowering Detection and Understanding of Interactions Between Genetic Factors in Development of Complex Phenotypes

article

Neuroswarm: A Methodology to Explore the Constraints that Function Imposes on Simulation Parameters in Large-Scale Networks of Biological Neurons

Non-HLA genes PTPN22, CDK6 and PADI4 are associated with specific autoantibodies in HLA-defined subgroups of rheumatoid arthritis

artículo científico publicado en 2014

Normalization of circulating microRNA expression data obtained by quantitative real-time RT-PCR

artículo científico publicado en 2015

On reliable discovery of molecular signatures

artículo científico publicado en 2009

Optimization in Biology Parameter Estimation and the Associated Optimization Problem

Oxygen pathway modeling estimates high reactive oxygen species production above the highest permanent human habitation

artículo científico publicado en 2014

ParkDB: a Parkinson's disease gene expression database

artículo científico publicado en 2011

Pediatric systems medicine: evaluating needs and opportunities using congenital heart block as a case study

artículo científico publicado en 2013

Pre-B cell to macrophage transdifferentiation without significant promoter DNA methylation changes

artículo científico publicado en 2011

Predicting Causal Relationships from Biological Data: Applying Automated Causal Discovery on Mass Cytometry Data of Human Immune Cells

artículo científico publicado en 2017

Prediction of novel virus–host interactions by integrating clinical symptoms and protein sequences

artículo científico publicado en 2020

Predictive medicine: outcomes, challenges and opportunities in the Synergy-COPD project

artículo científico publicado en 2014

Proposals for enhanced health risk assessment and stratification in an integrated care scenario

artículo científico publicado en 2016

Reverse engineering of gene networks with LASSO and nonlinear basis functions

artículo científico publicado en 2009

SCENERY: a web application for (causal) network reconstruction from cytometry data.

artículo científico publicado en 2017

STATegra EMS: an Experiment Management System for complex next-generation omics experiments

artículo científico publicado en 2014

STATegra, a comprehensive multi-omics dataset of B-cell differentiation in mouse

artículo científico publicado en 2019

STATegra: Multi-Omics Data Integration - A Conceptual Scheme With a Bioinformatics Pipeline

artículo científico publicado en 2021

Signaling networks in MS: a systems-based approach to developing new pharmacological therapies

artículo científico publicado en 2014

Symmetry and Correspondence of Algorithmic Complexity over Geometric, Spatial and Topological Representations

artículo científico publicado en 2018

Synergy-COPD: a systems approach for understanding and managing chronic diseases

artículo científico publicado en 2014

Systems Medicine: from molecular features and models to the clinic in COPD.

artículo científico publicado en 2014

Systems Toxicology: Systematic Approach to Predict Toxicity

artículo científico publicado en 2016

Systems biology of innate immunity

artículo científico publicado en 2006

Systems medicine and integrated care to combat chronic noncommunicable diseases

artículo científico publicado en 2011

Temporally irregular mnemonic persistent activity in prefrontal neurons of monkeys during a delayed response task

artículo científico publicado en 2003

The Thermodynamics of Network Coding, and an Algorithmic Refinement of the Principle of Maximum Entropy

scientific article published on 03 June 2019

The dynamical stability of reverberatory neural circuits

artículo científico publicado en 2002

The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation

artículo científico publicado en 2015

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

artículo científico publicado en 2009

The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells

Thematic review series: systems biology approaches to metabolic and cardiovascular disorders. Multi-organ whole-genome measurements and reverse engineering to uncover gene networks underlying complex traits

artículo científico publicado en 2006

Transcription Regulatory Networks Analysis Using CAGE

Transcriptional network dynamics in macrophage activation

artículo científico

Transcriptional profiling uncovers a network of cholesterol-responsive atherosclerosis target genes

artículo científico publicado en 2008

VEGF-B promotes cancer metastasis through a VEGF-A-independent mechanism and serves as a marker of poor prognosis for cancer patients

artículo científico publicado en 2015

Workflow for generating competing hypothesis from models with parameter uncertainty

artículo científico publicado en 2011

Lista de obras de Jesper Tegnér

A Decomposition Method for Global Evaluation of Shannon Entropy and Local Estimations of Algorithmic Complexity

A Review of Graph and Network Complexity from an Algorithmic Information Perspective

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data

A minimal unified model of disease trajectories captures hallmarks of multiple sclerosis

A perspective on bridging scales and design of models using low-dimensional manifolds and data-driven model inference

A vision and strategy for the virtual physiological human in 2010 and beyond.

A vision and strategy for the virtual physiological human: 2012 update.

Accelerating translational research by clinically driven development of an informatics platform--a case study

Adaptive input data transformation for improved network reconstruction with information theoretic algorithms

An Algorithmic Information Calculus for Causal Discovery and Reprogramming Systems

An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man

An atlas of combinatorial transcriptional regulation in mouse and man

An evaluation of analysis pipelines for DNA methylation profiling using the Illumina HumanMethylation450 BeadChip platform

An integrative analysis reveals coordinated reprogramming of the epigenome and the transcriptome in human skeletal muscle after training

ApoB100-LDL acts as a metabolic signal from liver to peripheral fat causing inhibition of lipolysis in adipocytes

Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders

Biomedical research in a Digital Health Framework

Blood levels of dual-specificity phosphatase-1 independently predict risk for post-operative morbidities causing prolonged hospitalization after coronary artery bypass grafting

Bridging the gap between systems biology and medicine

Building gene regulatory networks from single-cell ATAC-seq and RNA-seq using Linked Self-Organizing Maps

Carotid plaque age is a feature of plaque stability inversely related to levels of plasma insulin

Challenges in the Multivariate Analysis of Mass Cytometry Data: The Effect of Randomization

Chronic Obstructive Pulmonary Disease heterogeneity: challenges for health risk assessment, stratification and management

Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression

Comment on "Epigenetics in the pathogenesis of RA".

Comparative Analysis of Protocols to Induce Human CD4+Foxp3+ Regulatory T Cells by Combinations of IL-2, TGF-beta, Retinoic Acid, Rapamycin and Butyrate

Computational Modeling Under Uncertainty: Challenges and Opportunities

Corrigendum to "Methods of information theory and algorithmic complexity for network biology" [Semin. Cell Dev. Biol. 51 (2016) 32-43].

Data Integration: Towards Understanding Biological Complexity

Data integration in the era of omics: current and future challenges

Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder

Detecting multivariate differentially expressed genes

Detection of compound mode of action by computational integration of whole-genome measurements and genetic perturbations

Editorial overview

Electrotonic signals along intracellular membranes may interconnect dendritic spines and nucleus

Epigenetic alterations in autoimmune disease

Evaluating network inference methods in terms of their ability to preserve the topology and complexity of genetic networks

Evidence of highly regulated genes (in-Hubs) in gene networks of Saccharomyces cerevisiae

Feedforward regulation of Myc coordinates lineage-specific with housekeeping gene expression during B cell progenitor cell differentiation

From Systems Understanding to Personalized Medicine: Lessons and Recommendations Based on a Multidisciplinary and Translational Analysis of COPD.

From comorbidities of chronic obstructive pulmonary disease to identification of shared molecular mechanisms by data integration

Fronto-parietal connection asymmetry regulates working memory distractibility

Functional genomics analysis of vitamin D effects on CD4+ T cells in vivo in experimental autoimmune encephalomyelitis .

Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells

Harmonization of quality metrics and power calculation in multi-omic studies

High-specificity bioinformatics framework for epigenomic profiling of discordant twins reveals specific and shared markers for ACPA and ACPA-positive rheumatoid arthritis

Human C-reactive protein slows atherosclerosis development in a mouse model with human-like hypercholesterolemia

Identification of novel markers in rheumatoid arthritis through integrated analysis of DNA methylation and microRNA expression

Immunometabolic Network Interactions of the Kynurenine Pathway in Cutaneous Malignant Melanoma

Impact of genetic risk loci for multiple sclerosis on expression of proximal genes in patients

Implementation of the CDC translational informatics platform--from genetic variants to the national Swedish Rheumatology Quality Register

Importance of mitochondrial P(O2) in maximal O2 transport and utilization: a theoretical analysis

In Vitro Differentiation of Human CD4+FOXP3+ Induced Regulatory T Cells (iTregs) from Naïve CD4+ T Cells Using a TGF-β-containing Protocol

Inferring causal molecular networks: empirical assessment through a community-based effort

Integrated approaches to uncovering transcription regulatory networks in mammalian cells

Introduction to Data Types in Epigenomics

List of Contributors

Low-algorithmic-complexity entropy-deceiving graphs

Mechanism for top-down control of working memory capacity

Methods of information theory and algorithmic complexity for network biology

Methylome characterization of CD4+ T cells in multiple sclerosis — Establishing a role for miR-21 in autoimmune disease

Monozygotic twins discordant for common variable immunodeficiency reveal impaired DNA demethylation during naïve-to-memory B-cell transition

Multi-organ expression profiling uncovers a gene module in coronary artery disease involving transendothelial migration of leukocytes and LIM domain binding 2: the Stockholm Atherosclerosis Gene Expression (STAGE) study

Network Biology Empowering Detection and Understanding of Interactions Between Genetic Factors in Development of Complex Phenotypes

Neuroswarm: A Methodology to Explore the Constraints that Function Imposes on Simulation Parameters in Large-Scale Networks of Biological Neurons

Non-HLA genes PTPN22, CDK6 and PADI4 are associated with specific autoantibodies in HLA-defined subgroups of rheumatoid arthritis

Normalization of circulating microRNA expression data obtained by quantitative real-time RT-PCR

On reliable discovery of molecular signatures

Optimization in Biology Parameter Estimation and the Associated Optimization Problem

Oxygen pathway modeling estimates high reactive oxygen species production above the highest permanent human habitation

ParkDB: a Parkinson's disease gene expression database

Pediatric systems medicine: evaluating needs and opportunities using congenital heart block as a case study

Pre-B cell to macrophage transdifferentiation without significant promoter DNA methylation changes

Predicting Causal Relationships from Biological Data: Applying Automated Causal Discovery on Mass Cytometry Data of Human Immune Cells

Prediction of novel virus–host interactions by integrating clinical symptoms and protein sequences

Predictive medicine: outcomes, challenges and opportunities in the Synergy-COPD project

Proposals for enhanced health risk assessment and stratification in an integrated care scenario

Reverse engineering of gene networks with LASSO and nonlinear basis functions

SCENERY: a web application for (causal) network reconstruction from cytometry data.