List of works - Falk Schreiber

2.5D visualisation of overlapping biological networks

scientific article published on 10 November 2008

A brief history of COMBINE

A generic algorithm for layout of biological networks

scientific article published on 12 November 2009

A unified framework for estimating parameters of kinetic biological models

scientific article published on 27 March 2015

Addressing <i>barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology</i>

An Integration and Analysis Pipeline for Systems Biology in Crop Plant Metabolism

article

An engineer's view on regulation of seed development

scientific article published on 17 April 2010

Apomictic and sexual ovules of Boechera display heterochronic global gene expression patterns

scientific article published on 19 March 2010

Author Correction: COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms

scientific article published on 17 July 2020

BioNetLink - an architecture for working with network data

scientific article

Bioinformatics strategies for the analysis of lipids

scientific article published in January 2009

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

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

scientific article published on 05 May 2020

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

journal article from 'Molecular Systems Biology' published in 2021

CentiLib: comprehensive analysis and exploration of network centralities ⬇️

scientific article published on March 5, 2012

Combined noninvasive imaging and modeling approaches reveal metabolic compartmentation in the barley endosperm

article

Computational miRNomics - Integrative Approaches

scientific article published on 13 June 2017

Conversion of KEGG metabolic pathways to SBGN maps including automatic layout

scientific article published on 16 August 2013

Creating interactive, web-based and data-enriched maps with the Systems Biology Graphical Notation.

scientific article

Creating views on integrated multidomain data ⬇️

scientific article published on May 6, 2011

DBE2 - management of experimental data for the VANTED system

scientific article published on July 26, 2011

Das Informationssystem MetaCrop zur Unterstützung systembiologischer Forschung an Kulturpflanzen

Dynamic 13C/1H NMR imaging uncovers sugar allocation in the living seed

scientific article published on 28 April 2011

Editing, validating and translating of SBGN maps

scientific article published on 13 July 2010

Editorial

scientific article published in March 2013

Elementary flux modes, flux balance analysis, and their application to plant metabolism

scientific article published in January 2014

Erratum: The Systems Biology Graphical Notation

scholarly article published in Nature Biotechnology

Evidence of a key role for photosynthetic oxygen release in oil storage in developing soybean seeds

scientific article published in September 2005

Exploration of biological network centralities with CentiBiN.

scientific article

Exploration of networks using overview+detail with constraint-based cooperative layout

scientific article published in November 2008

Extraction and Prediction of Biomedical Database Identifier Using Neural Networks towards Data Network Construction

FBA-SimVis: interactive visualization of constraint-based metabolic models

scientific article

Flux balance analysis as an alternative method to estimate fluxes without labeling

scientific article published on 01 January 2014

Flux balance analysis of barley seeds: a computational approach to study systemic properties of central metabolism

scientific article published on 05 November 2008

Flux visualization using VANTED/FluxMap

scientific article published in January 2014

FluxMap: A VANTED add-on for the visual exploration of flux distributions in biological networks ⬇️

scientific article published on May 1, 2012

HTPheno: an image analysis pipeline for high-throughput plant phenotyping.

scientific article

Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell

scientific article published on 11 July 2018

IDPredictor: predict database links in biomedical database

scientific article published on 26 June 2012

IDPredictor: predict database links in biomedical database

scientific article

Immersive analytics: An overview

scientific article published in 2022

Integrating data from biological experiments into metabolic networks with the DBE information system

scientific article published in January 2005

Integration and virtual reality exploration of biomedical data with CmPI and VANTED

scientific article published in 2016

Integration of -omics data and networks for biomedical research with VANTED.

scientific article

Integrative analysis of metabolic models - from structure to dynamics

scientific article

JIB.tools 2.0 - A Bioinformatics Registry for Journal Published Tools with Interoperability to bio.tools

scientific article published on 08 January 2020

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

scientific article published on 9 August 2018

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

article by Dagmar Waltemath et al published 15 March 2014 in Standards in genomic sciences

Mental-Map Preserving Visualisation of Partitioned Networks in Vanted

scientific article published on 14 June 2019

Meta-All: a system for managing metabolic pathway information

scientific article

MetaCrop 2.0: managing and exploring information about crop plant metabolism.

scientific article

MetaCrop: a detailed database of crop plant metabolism.

scientific article published on 11 October 2007

Metabolic Architecture of the Cereal Grain and Its Relevance to Maximize Carbon Use Efficiency

scientific article

Metabolomics, Standards, and Metabolic Modeling for Synthetic Biology in Plants

scientific article

Modularization of biochemical networks based on classification of Petri net t-invariants

scientific article

Multiscale metabolic modeling: dynamic flux balance analysis on a whole-plant scale

scientific article published on 07 August 2013

Novel developments of the MetaCrop information system for facilitating systems biological approaches

scientific article published on 25 March 2010

Nutrilyzer: A Tool for Deciphering Atomic Stoichiometry of Differentially Expressed Paralogous Proteins

scientific article published in June 2012

Nutrilyzer: a tool for deciphering atomic stoichiometry of differentially expressed paralogous proteins

scientific article

OPTIMAS-DW: a comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize

scientific article (publication date: 29 December 2012)

Path2Models: large-scale generation of computational models from biochemical pathway maps

scientific article

Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative

scientific article (publication date: 2015)

Quantitative Multilevel Analysis of Central Metabolism in Developing Oilseeds of Oilseed Rape during in Vitro Culture.

scientific article published on 5 May 2015

Software support for SBGN maps: SBGN-ML and LibSBGN.

scientific article

Specifications of Standards in Systems and Synthetic Biology

scientific article published on 04 September 2015

Specifications of Standards in Systems and Synthetic Biology

scientific article published in June 2015

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016.

scientific article published on 18 December 2016

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016.

scientific article published in September 2016

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017.

scientific article published on 29 March 2018

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019

scientific article published on 13 July 2019

Specifications of standards in systems and synthetic biology: status and developments in 2020

scientific article published on 29 June 2020

Specifications of standards in systems and synthetic biology: status and developments in 2021

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022

scientific article published in March 2023

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024

Stereoscopic Space Map – Semi-immersive Configuration of 3D-stereoscopic Tours in Multi-display Environments

scholarly article

Structural analysis of metabolic networks based on flux centrality.

scientific article

Systems Biology Graphical Notation: Activity Flow language Level 1

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.

scientific article published on 04 September 2015

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.

scientific article

Systems Biology Graphical Notation: Entity Relationship language Level 1

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.

scientific article published on 04 September 2015

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.

scientific article

Systems Biology Graphical Notation: Process Description language Level 1

Systems Biology Graphical Notation: Process Description language Level 1 Version 2.0.

scientific article published on 13 June 2019

The Metabolic Signature of Biomass Formation in Barley.

scientific article

The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE)

scientific article published on 29 June 2020

Toward Community Standards and Software for Whole-Cell Modeling

scientific article

Translation of SBGN maps: Process Description to Activity Flow

scientific article

VANTED v2: a framework for systems biology applications

scientific article

VANTED: a system for advanced data analysis and visualization in the context of biological networks

scientific article

Visual analysis of transcriptome data in the context of anatomical structures and biological networks

scientific article (publication date: 2012)

List of works by Falk Schreiber

2.5D visualisation of overlapping biological networks

A brief history of COMBINE

A generic algorithm for layout of biological networks

A unified framework for estimating parameters of kinetic biological models

Addressing <i>barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology</i>

An Integration and Analysis Pipeline for Systems Biology in Crop Plant Metabolism

An engineer's view on regulation of seed development

Apomictic and sexual ovules of Boechera display heterochronic global gene expression patterns

Author Correction: COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms

BioNetLink - an architecture for working with network data

Bioinformatics strategies for the analysis of lipids

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

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

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

CentiLib: comprehensive analysis and exploration of network centralities ⬇️

Combined noninvasive imaging and modeling approaches reveal metabolic compartmentation in the barley endosperm

Computational miRNomics - Integrative Approaches

Conversion of KEGG metabolic pathways to SBGN maps including automatic layout

Creating interactive, web-based and data-enriched maps with the Systems Biology Graphical Notation.

Creating views on integrated multidomain data ⬇️

DBE2 - management of experimental data for the VANTED system

Das Informationssystem MetaCrop zur Unterstützung systembiologischer Forschung an Kulturpflanzen

Dynamic 13C/1H NMR imaging uncovers sugar allocation in the living seed

Editing, validating and translating of SBGN maps

Editorial

Elementary flux modes, flux balance analysis, and their application to plant metabolism

Erratum: The Systems Biology Graphical Notation

Evidence of a key role for photosynthetic oxygen release in oil storage in developing soybean seeds

Exploration of biological network centralities with CentiBiN.

Exploration of networks using overview+detail with constraint-based cooperative layout

Extraction and Prediction of Biomedical Database Identifier Using Neural Networks towards Data Network Construction

FBA-SimVis: interactive visualization of constraint-based metabolic models

Flux balance analysis as an alternative method to estimate fluxes without labeling

Flux balance analysis of barley seeds: a computational approach to study systemic properties of central metabolism

Flux visualization using VANTED/FluxMap

FluxMap: A VANTED add-on for the visual exploration of flux distributions in biological networks ⬇️

HTPheno: an image analysis pipeline for high-throughput plant phenotyping.

Heuristic Modeling and 3D Stereoscopic Visualization of a Chlamydomonas reinhardtii Cell

IDPredictor: predict database links in biomedical database

IDPredictor: predict database links in biomedical database

Immersive analytics: An overview

Integrating data from biological experiments into metabolic networks with the DBE information system

Integration and virtual reality exploration of biomedical data with CmPI and VANTED

Integration of -omics data and networks for biomedical research with VANTED.

Integrative analysis of metabolic models - from structure to dynamics

JIB.tools 2.0 - A Bioinformatics Registry for Journal Published Tools with Interoperability to bio.tools

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

Mental-Map Preserving Visualisation of Partitioned Networks in Vanted

Meta-All: a system for managing metabolic pathway information

MetaCrop 2.0: managing and exploring information about crop plant metabolism.

MetaCrop: a detailed database of crop plant metabolism.

Metabolic Architecture of the Cereal Grain and Its Relevance to Maximize Carbon Use Efficiency

Metabolomics, Standards, and Metabolic Modeling for Synthetic Biology in Plants

Modularization of biochemical networks based on classification of Petri net t-invariants

Multiscale metabolic modeling: dynamic flux balance analysis on a whole-plant scale

Novel developments of the MetaCrop information system for facilitating systems biological approaches

Nutrilyzer: A Tool for Deciphering Atomic Stoichiometry of Differentially Expressed Paralogous Proteins

Nutrilyzer: a tool for deciphering atomic stoichiometry of differentially expressed paralogous proteins

OPTIMAS-DW: a comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize

Path2Models: large-scale generation of computational models from biochemical pathway maps

Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative

Quantitative Multilevel Analysis of Central Metabolism in Developing Oilseeds of Oilseed Rape during in Vitro Culture.

Software support for SBGN maps: SBGN-ML and LibSBGN.

Specifications of Standards in Systems and Synthetic Biology

Specifications of Standards in Systems and Synthetic Biology

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016.

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016.

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017.

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019

Specifications of standards in systems and synthetic biology: status and developments in 2020

Specifications of standards in systems and synthetic biology: status and developments in 2021

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024

Stereoscopic Space Map – Semi-immersive Configuration of 3D-stereoscopic Tours in Multi-display Environments

Structural analysis of metabolic networks based on flux centrality.

Systems Biology Graphical Notation: Activity Flow language Level 1

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.