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List of works by Ruth Isserlin

A Call for Systematic Research on Solute Carriers

scientific article (publication date: 30 July 2015)

A draft map of the human proteome

scientific article (publication date: 29 May 2014)

A lentiviral functional proteomics approach identifies chromatin remodeling complexes important for the induction of pluripotency

scientific article

Analysis of domain correlations in yeast protein complexes

scientific article published in August 2004

AutoAnnotate: A Cytoscape app for summarizing networks with semantic annotations

scientific article published on 15 July 2016

Cardioprotective Signature of Short-Term Caloric Restriction

scientific article

Comparative proteomics profiling of a phospholamban mutant mouse model of dilated cardiomyopathy reveals progressive intracellular stress responses

scientific article

Constitutively active calcineurin induces cardiac endoplasmic reticulum stress and protects against apoptosis that is mediated by α-crystallin-B ⬇️

scientific article published on October 11, 2010

Delineation of two clinically and molecularly distinct subgroups of posterior fossa ependymoma

scientific article

Discovery of novel disease-specific and membrane-associated candidate markers in a mouse model of multiple sclerosis

scientific article published on 20 December 2013

Dynamic interplay between locus-specific DNA methylation and hydroxymethylation regulates distinct biological pathways in prostate carcinogenesis.

scientific article published on 15 March 2016

Dynamics of the cell-free DNA methylome of metastatic prostate cancer during androgen-targeting treatment

scientific article published on 01 August 2020

Ectopic miR-125a Expression Induces Long-Term Repopulating Stem Cell Capacity in Mouse and Human Hematopoietic Progenitors

scientific article

Enrichment Map - a Cytoscape app to visualize and explore OMICs pathway enrichment results

scientific article published on July 2014

Enrichment map: a network-based method for gene-set enrichment visualization and interpretation

scientific article

Exercise-responsive phosphoproteins in the heart

scientific article

Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression

scientific article published on 27 March 2019

Global phosphoproteomic profiling reveals perturbed signaling in a mouse model of dilated cardiomyopathy

scientific article published on 14 October 2016

Global proteomic profiling and enrichment maps of dilated cardiomyopathy

scientific article published in January 2013

Integration of biological networks and gene expression data using Cytoscape

scientific article (publication date: 2007)

Integrative Cancer Pharmacogenomics to Infer Large-Scale Drug Taxonomy

scientific article

Integrative network analysis of signaling in human CD34(+) hematopoietic progenitor cells by global phosphoproteomic profiling using TiO2 enrichment combined with 2D LC-MS/MS and pathway mapping

scientific article published on 6 March 2013

Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery.

scientific article published on June 2008

Large-scale characterization and analysis of the murine cardiac proteome

scientific article published on April 2009

Large-scale label-free phosphoproteomics: from technology to data interpretation

scientific article

Mammary molecular portraits reveal lineage-specific features and progenitor cell vulnerabilities

scientific article published on 19 June 2018

Metabolomic profiling in liver of adiponectin-knockout mice uncovers lysophospholipid metabolism as an important target of adiponectin action.

scientific article published on 27 April 2015

Nine steps to proteomic wisdom: A practical guide to using protein‐protein interaction networks and molecular pathways as a framework for interpreting disease proteomic profiles ⬇️

scientific article published on August 17, 2007

PSICQUIC and PSISCORE: accessing and scoring molecular interactions

scientific article (publication date: 29 June 2011)

Pathway analysis of dilated cardiomyopathy using global proteomic profiling and enrichment maps

scientific article

Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap

scientific article published on 01 February 2019

Pathway enrichment analysis of -omics data

Phosphoproteomic network analysis in the sea urchin Strongylocentrotus purpuratus reveals new candidates in egg activation

scientific article published on 29 July 2015

RCy3: Network biology using Cytoscape from within R

scientific article published on 18 October 2019

SeqHound: biological sequence and structure database as a platform for bioinformatics research

scientific article

Single-cell transcriptomic profiling of the aging mouse brain

scientific article published on 24 September 2019

Social Network: a Cytoscape app for visualizing co-authorship networks

scientific article published on 5 August 2015

Structure-templated predictions of novel protein interactions from sequence information

scientific article

Systems analysis reveals down-regulation of a network of pro-survival miRNAs drives the apoptotic response in dilated cardiomyopathy

scientific article published on 31 October 2014

The Biomolecular Interaction Network Database and related tools 2005 update

scientific article

The Biomolecular Interaction Network Database in PSI-MI 2.5.

scientific article

Too many roads not taken

scientific article

Unbiased phosphoproteomic method identifies the initial effects of a methacrylic acid copolymer on macrophages

scientific article

Visualizing gene-set enrichment results using the Cytoscape plug-in enrichment map

scientific article published on 01 January 2011

WordCloud: a Cytoscape plugin to create a visual semantic summary of networks

scientific article

miR-126 Regulates Distinct Self-Renewal Outcomes in Normal and Malignant Hematopoietic Stem Cells

scientific article published on 20 January 2016

miR-126 Regulates Distinct Self-Renewal Outcomes in Normal and Malignant Hematopoietic Stem Cells.

scientific article published on April 2016

netDx: Interpretable patient classification using integrated patient similarity networks

netDx: Software for building interpretable patient classifiers by multi-'omic data integration using patient similarity networks

scientific article published on 22 January 2021

netDx: interpretable patient classification using integrated patient similarity networks

scientific article published on 14 March 2019

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