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Personalized signaling models for personalized treatments

Molecular systems biology, 2020-01, Vol.16 (1), p.e9042-n/a

2020

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Integrated intra‐ and intercellular signaling knowledge for multicellular omics analysis

Molecular systems biology, 2021-03, Vol.17 (3), p.e9923-n/a

2021

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Enablers and challenges of spatial omics, a melting pot of technologies

Molecular systems biology, 2023-11, Vol.19 (11), p.e10571-n/a

2023

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Integrating knowledge and omics to decipher mechanisms via large‐scale models of signaling networks

Molecular systems biology, 2022-07, Vol.18 (7), p.e11036-n/a

2022

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Pan‐Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival

Molecular systems biology, 2023-03, Vol.19 (3), p.e10631-n/a

2023

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Causal integration of multi‐omics data with prior knowledge to generate mechanistic hypotheses

Molecular systems biology, 2021-01, Vol.17 (1), p.e9730-n/a

2021

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Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies

Molecular systems biology, 2020-02, Vol.16 (2), p.e8664-n/a

2020

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Single‐cell biology: what does the future hold?

Molecular systems biology, 2023-07, Vol.19 (7), p.e11799-n/a

2023

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OmniPath: guidelines and gateway for literature-curated signaling pathway resources

Nature methods, 2016-12, Vol.13 (12), p.966-967

2016

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Dysregulated mesenchymal PDGFR‐β drives kidney fibrosis

EMBO molecular medicine, 2020-03, Vol.12 (3), p.e11021-n/a

2020

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A Rapidly Reversible Chemical Dimerizer System to Study Lipid Signaling in Living Cells

Angewandte Chemie International Edition, 2014-06, Vol.53 (26), p.6720-6723

International ed. in English, 2014

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A methodology for the structural and functional analysis of signaling and regulatory networks

BMC bioinformatics, 2006-02, Vol.7 (1), p.56-56, Article 56

2006

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Benchmark and integration of resources for the estimation of human transcription factor activities

Genome research, 2019-08, Vol.29 (8), p.1363-1375

2019

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Consensus Transcriptional Landscape of Human End-Stage Heart Failure

Journal of the American Heart Association, 2021-04, Vol.10 (7), p.e019667-e019667

2021

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Transfer of regulatory knowledge from human to mouse for functional genomics analysis

Biochimica et biophysica acta. Gene regulatory mechanisms, 2020-06, Vol.1863 (6), p.194431-194431, Article 194431

2020

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Why do pathway methods work better than they should?

FEBS letters, 2020-12, Vol.594 (24), p.4189-4200

2020

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Computational drug repurposing against SARS-CoV-2 reveals plasma membrane cholesterol depletion as key factor of antiviral drug activity

PLoS computational biology, 2022-04, Vol.18 (4), p.e1010021-e1010021

2022

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Logic Modeling in Quantitative Systems Pharmacology

CPT: pharmacometrics and systems pharmacology, 2017-08, Vol.6 (8), p.499-511

2017

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Elucidating essential kinases of endothelin signalling by logic modelling of phosphoproteomics data

Molecular systems biology, 2019-08, Vol.15 (8), p.e8828-n/a

2019

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Modeling Cell-Cell Interactions from Spatial Molecular Data with Spatial Variance Component Analysis

Cell reports (Cambridge), 2019-10, Vol.29 (1), p.202-211.e6

2019

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Explainable multiview framework for dissecting spatial relationships from highly multiplexed data

Genome Biology, 2022-04, Vol.23 (1), p.97-31, Article 97

2022

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Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies

Molecular systems biology, 2020-06, Vol.16 (6), p.e9690-n/a

2020

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A microfluidics platform for combinatorial drug screening on cancer biopsies

Nature communications, 2018-06, Vol.9 (1), p.2434-13, Article 2434

2018

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Perturbation-response genes reveal signaling footprints in cancer gene expression

Nature communications, 2018-01, Vol.9 (1), p.20-20, Article 20

2018

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Transcriptomic Cross‐Species Analysis of Chronic Liver Disease Reveals Consistent Regulation Between Humans and Mice

Hepatology communications, 2022-01, Vol.6 (1), p.161-177

2022

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Personalized signaling models for personalized treatments

Integrated intra‐ and intercellular signaling knowledge for multicellular omics analysis

Enablers and challenges of spatial omics, a melting pot of technologies

Integrating knowledge and omics to decipher mechanisms via large‐scale models of signaling networks

Pan‐Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival

Causal integration of multi‐omics data with prior knowledge to generate mechanistic hypotheses

Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies

Single‐cell biology: what does the future hold?

OmniPath: guidelines and gateway for literature-curated signaling pathway resources

Dysregulated mesenchymal PDGFR‐β drives kidney fibrosis

A Rapidly Reversible Chemical Dimerizer System to Study Lipid Signaling in Living Cells

A methodology for the structural and functional analysis of signaling and regulatory networks

Benchmark and integration of resources for the estimation of human transcription factor activities

Consensus Transcriptional Landscape of Human End-Stage Heart Failure

Transfer of regulatory knowledge from human to mouse for functional genomics analysis

Why do pathway methods work better than they should?

Computational drug repurposing against SARS-CoV-2 reveals plasma membrane cholesterol depletion as key factor of antiviral drug activity

Logic Modeling in Quantitative Systems Pharmacology

Elucidating essential kinases of endothelin signalling by logic modelling of phosphoproteomics data

Modeling Cell-Cell Interactions from Spatial Molecular Data with Spatial Variance Component Analysis

Explainable multiview framework for dissecting spatial relationships from highly multiplexed data

Patient‐specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies

A microfluidics platform for combinatorial drug screening on cancer biopsies

Perturbation-response genes reveal signaling footprints in cancer gene expression

Transcriptomic Cross‐Species Analysis of Chronic Liver Disease Reveals Consistent Regulation Between Humans and Mice

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