List of works - Stefan Wuchty

3D pollination biology using micro‐computed tomography and geometric morphometrics in <i>Theobroma cacao</i>

scientific article published in 2023

A comprehensive Plasmodium falciparum protein interaction map reveals a distinct architecture of a core interactome

scientific article

A draft of protein interactions in the malaria parasite P. falciparum.

scientific article published on 15 February 2007

A network biology approach to unraveling inherited axonopathies

scientific article published in Scientific Reports

A second-generation protein-protein interaction network of Helicobacter pylori

scientific journal article

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

scientific article published on 19 November 2020

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

scientific article published on 01 January 2021

Bacterial protein meta-interactomes predict cross-species interactions and protein function.

scientific article

Beyond degree and betweenness centrality: Alternative topological measures to predict viral targets.

scientific article

CNAReporter: a GenePattern pipeline for the generation of clinical reports of genomic alterations

scientific article

Cancer missense mutations alter binding properties of proteins and their interaction networks

scientific article (publication date: 2013)

Cell-free Determination of Binary Complexes That Comprise Extended Protein-Protein Interaction Networks of Yersinia pestis.

scientific article

Centers of complex networks

scientific article published on 01 July 2003

Collective influencers in protein interaction networks

CombAlign: a protein sequence comparison algorithm considering recombinations

scientific article published on 01 January 2004

Computational Identification of Kinases That Control Axon Growth in Mouse

scientific article published on 02 July 2020

Computational Prediction of Host-Parasite Protein Interactions between P. falciparum and H. sapiens ⬇️

scientific article published on November 17, 2011

Computational large-scale mapping of protein-protein interactions using structural complexes

scientific article published on 24 September 2013

Controllability analysis of molecular pathways points to proteins that control the entire interaction network

scientific article published on 19 February 2020

Controllability in protein interaction networks

scientific article

Deep Learning-Powered Prediction of Human-Virus Protein-Protein Interactions

publication published on 15 April 2022

Epigenomic signatures underpin the axonal regenerative ability of dorsal root ganglia sensory neurons

scientific article published on 07 October 2019

Essentiality and centrality in protein interaction networks revisited

scientific article published on April 2015

Evolution and topology in the yeast protein interaction network

scientific article published on July 2004

Evolutionary cores of domain co-occurrence networks

scientific article

FastMEDUSA: a parallelized tool to infer gene regulatory networks

scientific article

Gene pathways and subnetworks distinguish between major glioma subtypes and elucidate potential underlying biology ⬇️

scientific article published on September 7, 2010

Genome-wide associations of signaling pathways in glioblastoma multiforme

scientific article

Global landscape of cell envelope protein complexes in Escherichia coli.

scientific article published on 27 November 2017

Graph theoretical approach to study eQTL: a case study of Plasmodium falciparum

scientific article published on June 2009

Human communication dynamics in digital footsteps: a study of the agreement between self-reported ties and email networks

scientific article

Identifying causal genes and dysregulated pathways in complex diseases

scientific article

Identifying novel cell cycle proteins in Apicomplexa parasites through co-expression decision analysis

scientific article (publication date: 2014)

Important miRs of pathways in different tumor types

scientific article

Inferring protein-protein interactions from multiple protein domain combinations

scientific article published on January 2009

Interaction and domain networks of yeast

scientific article published on 01 December 2002

Involvement of microRNA families in cancer.

scientific article

Large‐scale mapping of human protein interactome using structural complexes ⬇️

scientific article published on March 1, 2012

Links between critical proteins drive the controllability of protein interaction networks.

scientific article

Local Action with Global Impact: Highly Similar Infection Patterns of Human Viruses and Bacteriophages.

scientific article published on 8 March 2016

MicroRNA miR-1002 Enhances NMNAT-Mediated Stress Response by Modulating Alternative Splicing

scientific article published on 30 August 2019

Modeling information flow in biological networks ⬇️

scientific article published on May 13, 2011

Module cover - a new approach to genotype-phenotype studies.

scientific article published on January 2013

Multi-university research teams: shifting impact, geography, and stratification in science

scientific article

Peeling the yeast protein network

scientific article

Predicting protein-protein interactions from protein domains using a set cover approach.

scientific article published in January 2007

Prediction of Associations between microRNAs and Gene Expression in Glioma Biology ⬇️

scientific article published on February 16, 2011

Prediction of human-virus protein-protein interactions through a sequence embedding-based machine learning method

scientific article published on 26 December 2019

Promoter conservation in HDACs points to functional implications

scientific article published on 27 July 2019

Promoter/enhancer-based controllability of regulatory networks

scientific article published on 03 March 2022

Protein-protein interactions of human viruses

scientific article published on 26 July 2018

Proteome data improves protein function prediction in the interactome of H. pylori.

scientific article published in February 2018

Regulatory hotspots in the malaria parasite genome dictate transcriptional variation

scientific article

Rich-club phenomenon in the interactome of P. falciparum--artifact or signature of a parasitic life style?

scientific article

Shared Molecular Strategies of the Malaria Parasite P. falciparum and the Human Virus HIV-1 ⬇️

scientific article published on May 17, 2011

Small worlds in RNA structures

scientific article

Stable evolutionary signal in a yeast protein interaction network

scientific article

Structure-based prediction of host-pathogen protein interactions

scientific article

Symmetric Epistasis Estimation (SEE) and its application to dissecting interaction map of Plasmodium falciparum

scientific article

The EHEC-host interactome reveals novel targets for the translocated intimin receptor

scientific article

The Protein Interaction Network of Bacteriophage Lambda with Its Host, Escherichia coli

scientific article

The Team Science Toolkit: enhancing research collaboration through online knowledge sharing

scientific article published in December 2013

The binary protein-protein interaction landscape of Escherichia coli

scientific article

The green peach aphid gut contains host plant microRNAs identified by comprehensive annotation of Brassica oleracea small RNA data

scientific article published on 11 December 2019

The increasing dominance of teams in production of knowledge

scientific article

The interactome of Streptococcus pneumoniae and its bacteriophages show highly specific patterns of interactions among bacteria and their phages

scientific article published on 22 April 2016

The online competition between pro- and anti-vaccination views

scientific article published on 13 May 2020

The road to linking genomics and proteomics of pathogenic bacteria: from binary protein complexes to interaction pathways

Topology and weights in a protein domain interaction network--a novel way to predict protein interactions

scientific article published on 23 May 2006

Viral Organization of Human Proteins ⬇️

scientific article published on August 25, 2010

What is a social tie?

scientific article published on September 2009

Women's connectivity in extreme networks

scientific article

eQTL Epistasis - Challenges and Computational Approaches

scientific article

microRNA regulation in an ancient obligate endosymbiosis

scientific article published on 22 December 2017

List of works by Stefan Wuchty

3D pollination biology using micro‐computed tomography and geometric morphometrics in <i>Theobroma cacao</i>

A comprehensive Plasmodium falciparum protein interaction map reveals a distinct architecture of a core interactome

A draft of protein interactions in the malaria parasite P. falciparum.

A network biology approach to unraveling inherited axonopathies

A second-generation protein-protein interaction network of Helicobacter pylori

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

Bacterial protein meta-interactomes predict cross-species interactions and protein function.

Beyond degree and betweenness centrality: Alternative topological measures to predict viral targets.

CNAReporter: a GenePattern pipeline for the generation of clinical reports of genomic alterations

Cancer missense mutations alter binding properties of proteins and their interaction networks

Cell-free Determination of Binary Complexes That Comprise Extended Protein-Protein Interaction Networks of Yersinia pestis.

Centers of complex networks

Collective influencers in protein interaction networks

CombAlign: a protein sequence comparison algorithm considering recombinations

Computational Identification of Kinases That Control Axon Growth in Mouse

Computational Prediction of Host-Parasite Protein Interactions between P. falciparum and H. sapiens ⬇️

Computational large-scale mapping of protein-protein interactions using structural complexes

Controllability analysis of molecular pathways points to proteins that control the entire interaction network

Controllability in protein interaction networks

Deep Learning-Powered Prediction of Human-Virus Protein-Protein Interactions

Epigenomic signatures underpin the axonal regenerative ability of dorsal root ganglia sensory neurons

Essentiality and centrality in protein interaction networks revisited

Evolution and topology in the yeast protein interaction network

Evolutionary cores of domain co-occurrence networks

FastMEDUSA: a parallelized tool to infer gene regulatory networks

Gene pathways and subnetworks distinguish between major glioma subtypes and elucidate potential underlying biology ⬇️

Genome-wide associations of signaling pathways in glioblastoma multiforme

Global landscape of cell envelope protein complexes in Escherichia coli.

Graph theoretical approach to study eQTL: a case study of Plasmodium falciparum

Human communication dynamics in digital footsteps: a study of the agreement between self-reported ties and email networks

Identifying causal genes and dysregulated pathways in complex diseases

Identifying novel cell cycle proteins in Apicomplexa parasites through co-expression decision analysis

Important miRs of pathways in different tumor types

Inferring protein-protein interactions from multiple protein domain combinations

Interaction and domain networks of yeast

Involvement of microRNA families in cancer.

Large‐scale mapping of human protein interactome using structural complexes ⬇️

Links between critical proteins drive the controllability of protein interaction networks.

Local Action with Global Impact: Highly Similar Infection Patterns of Human Viruses and Bacteriophages.

MicroRNA miR-1002 Enhances NMNAT-Mediated Stress Response by Modulating Alternative Splicing

Modeling information flow in biological networks ⬇️

Module cover - a new approach to genotype-phenotype studies.

Multi-university research teams: shifting impact, geography, and stratification in science

Peeling the yeast protein network

Predicting protein-protein interactions from protein domains using a set cover approach.

Prediction of Associations between microRNAs and Gene Expression in Glioma Biology ⬇️

Prediction of human-virus protein-protein interactions through a sequence embedding-based machine learning method

Promoter conservation in HDACs points to functional implications

Promoter/enhancer-based controllability of regulatory networks

Protein-protein interactions of human viruses

Proteome data improves protein function prediction in the interactome of H. pylori.

Regulatory hotspots in the malaria parasite genome dictate transcriptional variation

Rich-club phenomenon in the interactome of P. falciparum--artifact or signature of a parasitic life style?

Shared Molecular Strategies of the Malaria Parasite P. falciparum and the Human Virus HIV-1 ⬇️

Small worlds in RNA structures

Stable evolutionary signal in a yeast protein interaction network

Structure-based prediction of host-pathogen protein interactions

Symmetric Epistasis Estimation (SEE) and its application to dissecting interaction map of Plasmodium falciparum

The EHEC-host interactome reveals novel targets for the translocated intimin receptor

The Protein Interaction Network of Bacteriophage Lambda with Its Host, Escherichia coli

The Team Science Toolkit: enhancing research collaboration through online knowledge sharing

The binary protein-protein interaction landscape of Escherichia coli

The green peach aphid gut contains host plant microRNAs identified by comprehensive annotation of Brassica oleracea small RNA data

The increasing dominance of teams in production of knowledge

The interactome of Streptococcus pneumoniae and its bacteriophages show highly specific patterns of interactions among bacteria and their phages

The online competition between pro- and anti-vaccination views

The road to linking genomics and proteomics of pathogenic bacteria: from binary protein complexes to interaction pathways

Topology and weights in a protein domain interaction network--a novel way to predict protein interactions

Viral Organization of Human Proteins ⬇️

What is a social tie?

Women's connectivity in extreme networks

eQTL Epistasis - Challenges and Computational Approaches

microRNA regulation in an ancient obligate endosymbiosis