Search filters

List of works by Martina Summer-Kutmon

A bioinformatics workflow to decipher transcriptomic data from vitamin D studies

scientific article published on 01 February 2019

A network biology workflow to study transcriptomics data of the diabetic liver

scientific article

A pathway approach to investigate the function and regulation of SREBPs

scientific article published on 21 March 2013

A protocol for adding knowledge to Wikidata, a case report

scientific article published on 07 April 2020

A protocol for adding knowledge to Wikidata: aligning resources on human coronaviruses ⬇️

January 2021 scholarly article

A resource to explore the discovery of rare diseases and their causative genes

scientific article

Assessing the Contribution of Relative Macrophage Frequencies to Subcutaneous Adipose Tissue

scientific article published on 31 May 2021

Author Correction: A protocol for adding knowledge to Wikidata: aligning resources on human coronaviruses

scientific article published in 2023

Beyond Pathway Analysis: Identification of Active Subnetworks in Rett Syndrome

scientific article published on 21 February 2019

Biological Pathways Leading From ANGPTL8 to Diabetes Mellitus-A Co-expression Network Based Analysis

BridgeDb and Wikidata: a powerful combination generating interoperable open research (BridgeDb)

scientific article published on 07 March 2022

COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms ⬇️

journal article from 'Molecular Systems Biology' published in 2021

Comparison of metabolic states using genome-scale metabolic models

scientific article published on 08 November 2021

Comprehensive bioinformatics analysis of trabecular meshwork gene expression data to unravel the molecular pathogenesis of primary open-angle glaucoma

scientific article published on 14 June 2019

Corrigendum: The BioPAX community standard for pathway data sharing

correction; published 7 December 2010

CyTargetLinker app update: A flexible solution for network extension in Cytoscape

scientific article published on 14 June 2018

CyTargetLinker app update: A flexible solution for network extension in Cytoscape

CyTargetLinker: a cytoscape app to integrate regulatory interactions in network analysis

scientific article (publication date: 2013)

Discovering life's directed metabolic (sub)paths to interpret human biochemical markers using the DSMN tool

scientific article published in January 2024

EFMviz: A COBRA Toolbox extension to visualize Elementary Flux Modes in Genome-Scale Metabolic Models

scientific article published on 12 February 2020

Erratum: Corrigendum: The BioPAX community standard for pathway data sharing

scholarly article published in Nature Biotechnology

Explicit interaction information from WikiPathways in RDF facilitates drug discovery in the Open PHACTS Discovery Platform

Explicit interaction information from WikiPathways in RDF facilitates drug discovery in the Open PHACTS Discovery Platform

Exploring the cellular network of metabolic flexibility in the adipose tissue.

scientific article published on 5 July 2018

From SNPs to pathways: Biological interpretation of type 2 diabetes (T2DM) genome wide association study (GWAS) results

scientific article published in 2018

Glycolysis and Gluconeogenesis

metabolic pathway (mus musculus)

Guiding the choice of informatics software and tools for lipidomics research applications

scientific article published on 21 December 2022

History of rare diseases and their genetic causes - a data driven approach

Identification of Biological Pathways Contributing to Marbling in Skeletal Muscle to Improve Beef Cattle Breeding

scientific article published on 01 January 2019

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

scientific article

Integrated visualization of a multi-omics study of starvation in mouse intestine

scientific article published on 28 March 2014

Integrated visualization of a multi-omics study of starvation in mouse intestine

scientific article

Integrative multiomics analysis of human atherosclerosis reveals a serum response factor-driven network associated with intraplaque hemorrhage

scientific article published on 01 June 2021

Integrative network-based analysis of mRNA and microRNA expression in 1,25-dihydroxyvitamin D3-treated cancer cells

scientific article published on 15 August 2015

Investigating the Molecular Processes behind the Cell-Specific Toxicity Response to Titanium Dioxide Nanobelts

scientific article

Logical modelling reveals the PDC-PDK interaction as the regulatory switch driving metabolic flexibility at the cellular level

scientific article published on 09 September 2019

Managing biological data in pathways and networks ⬇️

doctoral thesis

PathVisio 3: an extendable pathway analysis toolbox

scientific article

Pathway analysis of transcriptomic data shows immunometabolic effects of vitamin D.

scientific article published on 12 December 2017

Pathway information extracted from 25 years of pathway figures

scientific article published on 09 November 2020

Profiling Cellular Processes in Adipose Tissue during Weight Loss Using Time Series Gene Expression

article

Providing gene-to-variant and variant-to-gene database identifier mappings to use with BridgeDb mapping services

Reactome from a WikiPathways Perspective

scientific article (publication date: May 2016)

Sexual Dimorphism, Age, and Fat Mass Are Key Phenotypic Drivers of Proteomic Signatures

scientific article

Stratifying cellular metabolism during weight loss: an interplay of metabolism, metabolic flexibility and inflammation

scientific article published on 03 February 2020

Systems Biology in ELIXIR: modelling in the spotlight

scientific article published on 31 May 2024

TCA Cycle

metabolic pathway (mus musculus)

Ten simple rules for creating reusable pathway models for computational analysis and visualization

scientific article published on 19 August 2021

The BioPAX community standard for pathway data sharing

scientific article (publication date: September 2010)

The Importance of Modularity in Bioinformatics Tools

The Molecular Processes in the Trabecular Meshwork After Exposure to Corticosteroids and in Corticosteroid-Induced Ocular Hypertension

scientific article published on 01 April 2020

The systems biology format converter

scientific article

Understanding signaling and metabolic paths using semantified and harmonized information about biological interactions

scientific article published on 18 April 2022

Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources

scientific article

Visualizing the regulatory role of Angiopoietin-like protein 8 (ANGPTL8) in glucose and lipid metabolic pathways

scientific article

WikiPathways 2024: next generation pathway database

scientific article published on 6 November 2023

WikiPathways App for Cytoscape: Making biological pathways amenable to network analysis and visualization

scientific article (publication date: 11 September 2014)

WikiPathways App for Cytoscape: Making biological pathways amenable to network analysis and visualization

scientific article published in 2014

WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research

scientific article published on 10 November 2017

WikiPathways: building research communities on biological pathways

scientific article (publication date: 2012)

WikiPathways: capturing the full diversity of pathway knowledge

Research paper from 2016 about the WikiPathways database.

WikiPathways: connecting communities ⬇️

scientific article published on 19 November 2020

Paulina is supported by:

About Paulina

Help