List of works - Christopher T. Workman

15-year follow-up of the Second Nordic Mantle Cell Lymphoma trial (MCL2): prolonged remissions without survival plateau

scientific article published on 5 July 2016

A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana

scientific article published on 9 June 2014

A new non-linear normalization method for reducing variability in DNA microarray experiments

scientific article

A random set scoring model for prioritization of disease candidate genes using protein complexes and data-mining of GeneRIF, OMIM and PubMed records

scientific article

A scored human protein-protein interaction network to catalyze genomic interpretation.

scientific article published on 28 November 2016

A systems approach to mapping DNA damage response pathways

scientific article

ATAF1 transcription factor directly regulates abscisic acid biosynthetic gene NCED3 in Arabidopsis thaliana

scientific article published on 29 July 2013

Amino-Linked Ribozymes: Post-Synthetic Conjugation of Half-Ribozymes

Assessing computational tools for the discovery of transcription factor binding sites

scientific article

Author Correction: Robust estimation of bacterial cell count from optical density

scientific article published on 27 October 2020

Back to the Roots: Prediction of Biologically Active Natural Products from Ayurveda Traditional Medicine

scientific article

Bidirectional histone-gene promoters in Aspergillus: characterization and application for multi-gene expression

scientific article published on 09 December 2019

Blood cell gene expression profiling in rheumatoid arthritis. Discriminative genes and effect of rheumatoid factor

scientific article

Body fluid from the parasitic worm Ascaris suum inhibits broad-acting pro-inflammatory programs in dendritic cells

scientific article published on 03 December 2019

Colony morphology and transcriptome profiling of Pseudomonas putida KT2440 and its mutants deficient in alginate or all EPS synthesis under controlled matric potentials

scientific article published on 10 June 2014

Comprehensive profiling of the fission yeast transcription start site activity during stress and media response

scientific article published on 01 February 2019

Correction to: Industrial antifoam agents impair ethanol fermentation and induce stress responses in yeast cells

scientific article published on 25 November 2017

Crystal structures of an A-form duplex with single-adenosine bulges and a conformational basis for site-specific RNA self-cleavage

scientific article

Crystallization and preliminary X-ray diffraction analysis of double-helical RNA octamers

scientific article published on 01 November 1995

DASS: efficient discovery and p-value calculation of substructures in unordered data

scientific article published on 10 October 2006

Differential Protein Pathways in 1,25-Dihydroxyvitamin D3 and Dexamethasone Modulated Tolerogenic Human Dendritic Cells

Differential bacterial capture and transport preferences facilitate co-growth on dietary xylan in the human gut

scientific article published in 2018

Dissecting spatio-temporal protein networks driving human heart development and related disorders

scientific article

Early adaptive developments of Pseudomonas aeruginosa after the transition from life in the environment to persistent colonization in the airways of human cystic fibrosis hosts

scientific article published on 7 April 2010

Enrichment of regulatory signals in conserved non-coding genomic sequence ⬇️

scientific article published on October 1, 2001

Evolutionary dynamics of bacteria in a human host environment

scientific article

Familial co-occurrence of congenital heart defects follows distinct patterns

scientific article published in March 2018

Gene prioritization for livestock diseases by data integration

scientific article

GenePublisher: Automated analysis of DNA microarray data

scientific article

Glucose-Dependent Promoters for Dynamic Regulation of Metabolic Pathways.

scientific article published on 22 May 2018

High-resolution kinetics and modeling of hydrogen peroxide degradation in live cells

scientific article published on 11 October 2016

IL-1 receptor antagonism and muscle gene expression in patients with type 2 diabetes

scientific article published in June 2009

Identification of gene expression patterns in superficial and invasive human bladder cancer.

scientific article published in March 2001

Industrial antifoam agents impair ethanol fermentation and induce stress responses in yeast cells

scientific article published on 10 October 2017

Integrated assessment and prediction of transcription factor binding

scientific article published on 16 June 2006

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

scientific article published in Nature Communications

Integration of biological networks and gene expression data using Cytoscape

scientific article (publication date: 2007)

Integrative analysis for finding genes and networks involved in diabetes and other complex diseases

scientific article (publication date: 2007)

Integrative analysis of miRNA and gene expression reveals regulatory networks in tamoxifen-resistant breast cancer

scientific article (publication date: 30 August 2016)

Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics

scientific article published on 03 December 2019

Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

scientific article published on 4 August 2014

Lysine deacetylase inhibition prevents diabetes by chromatin-independent immunoregulation and β-cell protection

article published in the Proceedings of the National Academy of Sciences of the United States of America

Major differences between human atopic dermatitis and murine models, as determined by using global transcriptomic profiling

scientific article

Mapping condition-dependent regulation of lipid metabolism in Saccharomyces cerevisiae

scientific article

Meta-analysis derived atopic dermatitis (MADAD) transcriptome defines a robust AD signature highlighting the involvement of atherosclerosis and lipid metabolism pathways

scientific article published on 12 October 2015

Meta-analysis of heterogeneous data sources for genome-scale identification of risk genes in complex phenotypes

scientific article

MicroRNA profiling in ocular adnexal lymphoma: a role for MYC and NFKB1 mediated dysregulation of microRNA expression in aggressive disease

scientific article published on 5 August 2013

Minimising immunohistochemical false negative ER classification using a complementary 23 gene expression signature of ER status

scientific article

Modifiable risk factors promoting neurodegeneration is associated with two novel brain degradation markers measured in serum

scientific article published on 09 May 2017

Morpholino-Linked Ribozymes: A Convergent Synthetic Approach

scientific article published in 1996

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast

scientific article

Neural network predicts sequence of TP53 gene based on DNA chip

scientific article published in August 2002

Novel insights into the global proteome responses of insulin-producing INS-1E cells to different degrees of endoplasmic reticulum stress

scientific article

Obesity and Bariatric Surgery Drive Epigenetic Variation of Spermatozoa in Humans.

scientific article published on 6 December 2015

Oxidative stress response pathways: Fission yeast as archetype

scientific article published on 27 February 2014

Post-synthetically Ligated Ribozymes: An Alternative Approach to Iterative Solid-Phase Synthesis

Prediction of Human Protein Function from Post-translational Modifications and Localization Features

scientific article (publication date: June 2002)

Protease Activity Profiling of Snake Venoms Using High-Throughput Peptide Screening

scholarly article by Konstantinos Kalogeropoulos et al published 19 March 2019 in Toxins

Protein-induced changes during the maturation process of human dendritic cells: A 2-D DIGE approach

Proteome analysis demonstrates profound alterations in human dendritic cell nature by TX527, an analogue of vitamin D

article

Quantification of oxidative stress phenotypes based on high-throughput growth profiling of protein kinase and phosphatase knockouts.

scientific article

RAIN: RNA-protein Association and Interaction Networks

scientific article published on 10 January 2017

RNA-protein interactions: an overview

scientific article published on January 2014

Reconstructing Dynamic Promoter Activity Profiles from Reporter Gene Data

scientific article published on 19 February 2018

Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using "-omics" techniques ⬇️

scientific article published on 23 April 2011

Robust estimation of bacterial cell count from optical density

scientific article published on 17 September 2020

Skeletal muscle enhancer interactions identify genes controlling whole-body metabolism

scientific article published on 01 June 2020

Small Intestinal Tuft Cell Activity Associates With Energy Metabolism in Diet-Induced Obesity

scientific article published on 28 May 2021

Strategies for structuring interdisciplinary education in Systems Biology: an European perspective.

scientific article

Synthetic promoter library for modulation of actinorhodin production in Streptomyces coelicolor A3(2). ⬇️

scientific article

Systematic inference of indirect transcriptional regulation by protein kinases and phosphatases

scientific article published on 22 June 2022

The SH2 domain interaction landscape

scientific article

The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary β-mannans

scientific article published on 22 February 2019

The identification and functional annotation of RNA structures conserved in vertebrates.

scientific article published on 9 May 2017

Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: a three factor design

scientific article

Transcriptome dynamics of Pseudomonas putida KT2440 under water stress

scientific article published on 2 December 2011

Validation and refinement of gene-regulatory pathways on a network of physical interactions

scientific article

enoLOGOS: a versatile web tool for energy normalized sequence logos

scientific article

miR-18b overexpression identifies mantle cell lymphoma patients with poor outcome and improves the MIPI-B prognosticator

scientific article

List of works by Christopher T. Workman

15-year follow-up of the Second Nordic Mantle Cell Lymphoma trial (MCL2): prolonged remissions without survival plateau

A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana

A new non-linear normalization method for reducing variability in DNA microarray experiments

A random set scoring model for prioritization of disease candidate genes using protein complexes and data-mining of GeneRIF, OMIM and PubMed records

A scored human protein-protein interaction network to catalyze genomic interpretation.

A systems approach to mapping DNA damage response pathways

ATAF1 transcription factor directly regulates abscisic acid biosynthetic gene NCED3 in Arabidopsis thaliana

Amino-Linked Ribozymes: Post-Synthetic Conjugation of Half-Ribozymes

Assessing computational tools for the discovery of transcription factor binding sites

Author Correction: Robust estimation of bacterial cell count from optical density

Back to the Roots: Prediction of Biologically Active Natural Products from Ayurveda Traditional Medicine

Bidirectional histone-gene promoters in Aspergillus: characterization and application for multi-gene expression

Blood cell gene expression profiling in rheumatoid arthritis. Discriminative genes and effect of rheumatoid factor

Body fluid from the parasitic worm Ascaris suum inhibits broad-acting pro-inflammatory programs in dendritic cells

Colony morphology and transcriptome profiling of Pseudomonas putida KT2440 and its mutants deficient in alginate or all EPS synthesis under controlled matric potentials

Comprehensive profiling of the fission yeast transcription start site activity during stress and media response

Correction to: Industrial antifoam agents impair ethanol fermentation and induce stress responses in yeast cells

Crystal structures of an A-form duplex with single-adenosine bulges and a conformational basis for site-specific RNA self-cleavage

Crystallization and preliminary X-ray diffraction analysis of double-helical RNA octamers

DASS: efficient discovery and p-value calculation of substructures in unordered data

Differential Protein Pathways in 1,25-Dihydroxyvitamin D3 and Dexamethasone Modulated Tolerogenic Human Dendritic Cells

Differential bacterial capture and transport preferences facilitate co-growth on dietary xylan in the human gut

Dissecting spatio-temporal protein networks driving human heart development and related disorders

Early adaptive developments of Pseudomonas aeruginosa after the transition from life in the environment to persistent colonization in the airways of human cystic fibrosis hosts

Enrichment of regulatory signals in conserved non-coding genomic sequence ⬇️

Evolutionary dynamics of bacteria in a human host environment

Familial co-occurrence of congenital heart defects follows distinct patterns

Gene prioritization for livestock diseases by data integration

GenePublisher: Automated analysis of DNA microarray data

Glucose-Dependent Promoters for Dynamic Regulation of Metabolic Pathways.

High-resolution kinetics and modeling of hydrogen peroxide degradation in live cells

IL-1 receptor antagonism and muscle gene expression in patients with type 2 diabetes

Identification of gene expression patterns in superficial and invasive human bladder cancer.

Industrial antifoam agents impair ethanol fermentation and induce stress responses in yeast cells

Integrated assessment and prediction of transcription factor binding

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

Integration of biological networks and gene expression data using Cytoscape

Integrative analysis for finding genes and networks involved in diabetes and other complex diseases

Integrative analysis of miRNA and gene expression reveals regulatory networks in tamoxifen-resistant breast cancer

Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics

Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

Lysine deacetylase inhibition prevents diabetes by chromatin-independent immunoregulation and β-cell protection

Major differences between human atopic dermatitis and murine models, as determined by using global transcriptomic profiling

Mapping condition-dependent regulation of lipid metabolism in Saccharomyces cerevisiae

Meta-analysis derived atopic dermatitis (MADAD) transcriptome defines a robust AD signature highlighting the involvement of atherosclerosis and lipid metabolism pathways

Meta-analysis of heterogeneous data sources for genome-scale identification of risk genes in complex phenotypes

MicroRNA profiling in ocular adnexal lymphoma: a role for MYC and NFKB1 mediated dysregulation of microRNA expression in aggressive disease

Minimising immunohistochemical false negative ER classification using a complementary 23 gene expression signature of ER status

Modifiable risk factors promoting neurodegeneration is associated with two novel brain degradation markers measured in serum

Morpholino-Linked Ribozymes: A Convergent Synthetic Approach

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast

Neural network predicts sequence of TP53 gene based on DNA chip

Novel insights into the global proteome responses of insulin-producing INS-1E cells to different degrees of endoplasmic reticulum stress

Obesity and Bariatric Surgery Drive Epigenetic Variation of Spermatozoa in Humans.

Oxidative stress response pathways: Fission yeast as archetype

Post-synthetically Ligated Ribozymes: An Alternative Approach to Iterative Solid-Phase Synthesis

Prediction of Human Protein Function from Post-translational Modifications and Localization Features

Protease Activity Profiling of Snake Venoms Using High-Throughput Peptide Screening

Protein-induced changes during the maturation process of human dendritic cells: A 2-D DIGE approach

Proteome analysis demonstrates profound alterations in human dendritic cell nature by TX527, an analogue of vitamin D

Quantification of oxidative stress phenotypes based on high-throughput growth profiling of protein kinase and phosphatase knockouts.

RAIN: RNA-protein Association and Interaction Networks

RNA-protein interactions: an overview

Reconstructing Dynamic Promoter Activity Profiles from Reporter Gene Data

Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using "-omics" techniques ⬇️

Robust estimation of bacterial cell count from optical density

Skeletal muscle enhancer interactions identify genes controlling whole-body metabolism

Small Intestinal Tuft Cell Activity Associates With Energy Metabolism in Diet-Induced Obesity

Strategies for structuring interdisciplinary education in Systems Biology: an European perspective.

Synthetic promoter library for modulation of actinorhodin production in Streptomyces coelicolor A3(2). ⬇️

Systematic inference of indirect transcriptional regulation by protein kinases and phosphatases

The SH2 domain interaction landscape

The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary β-mannans

The identification and functional annotation of RNA structures conserved in vertebrates.

Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: a three factor design

Transcriptome dynamics of Pseudomonas putida KT2440 under water stress

Validation and refinement of gene-regulatory pathways on a network of physical interactions

enoLOGOS: a versatile web tool for energy normalized sequence logos

miR-18b overexpression identifies mantle cell lymphoma patients with poor outcome and improves the MIPI-B prognosticator