Jordi Carreras Puigvert

Cell Painting: a decade of discovery and innovation in cellular imaging

Seal, Srijit; Trapotsi, Maria-Anna; Spjuth, Ola; Singh, Shantanu et al.

Part of Nature Methods, p. 254-268, 2025

• DOI for Cell Painting: a decade of discovery and innovation in cellular imaging

Discovery of a novel inhibitor of macropinocytosis with antiviral activity

Porebski, Bartlomiej; Christ, Wanda; Corman, Alba; Haraldsson, Martin et al.

Part of Molecular Therapy, p. 3012-3024, 2024

• DOI for Discovery of a novel inhibitor of macropinocytosis with antiviral activity
• Download full text (pdf) of Discovery of a novel inhibitor of macropinocytosis with antiviral activity

The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

Li, Xuexin; Hernandez, Ivo; Koyuncu, Seda; Häggblad, Maria et al.

Part of EBioMedicine, 2024

• DOI for The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ
• Download full text (pdf) of The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

Artificial intelligence for high content imaging in drug discovery

Carreras-Puigvert, Jordi; Spjuth, Ola

Part of Current opinion in structural biology, 2024

• DOI for Artificial intelligence for high content imaging in drug discovery
• Download full text (pdf) of Artificial intelligence for high content imaging in drug discovery

From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability

Seal, Srijit; Carreras-Puigvert, Jordi; Singh, Shantanu; Carpenter, Anne E. et al.

Part of Molecular Biology of the Cell, 2024

• DOI for From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability
• Download full text (pdf) of From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability

Combining molecular and cell painting image data for mechanism of action prediction

Tian, Guangyan; Harrison, Philip J.; Sreenivasan, Akshai P.; Carreras-Puigvert, Jordi et al.

Part of Artificial Intelligence in the Life Sciences, 2023

• DOI for Combining molecular and cell painting image data for mechanism of action prediction
• Download full text (pdf) of Combining molecular and cell painting image data for mechanism of action prediction

Designing microplate layouts using artificial intelligence

Francisco Rodríguez, María Andreína; Carreras-Puigvert, Jordi; Spjuth, Ola

Part of Artificial Intelligence in the Life Sciences, p. 100073-100073, 2023

• DOI for Designing microplate layouts using artificial intelligence

Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data

Seal, Srijit; Yang, Hongbin; Trapotsi, Maria-Anna; Singh, Satvik et al.

Part of Journal of Cheminformatics, 2023

• DOI for Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data
• Download full text (pdf) of Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data

Evaluating the utility of brightfield image data for mechanism of action prediction

Harrison, Philip John; Gupta, Ankit; Rietdijk, Jonne; Wieslander, Håkan et al.

Part of PloS Computational Biology, 2023

• DOI for Evaluating the utility of brightfield image data for mechanism of action prediction
• Download full text (pdf) of Evaluating the utility of brightfield image data for mechanism of action prediction

Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects

Rietdijk, Jonne; Aggarwal, Tanya; Georgiev, Polina; Lapins, Maris et al.

Part of Science of the Total Environment, 2022

• DOI for Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects
• Download full text (pdf) of Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects

Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection

Seal, Srijit; Carreras-Puigvert, Jordi; Trapotsi, Maria-Anna; Yang, Hongbin et al.

Part of Communications Biology, 2022

• DOI for Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection
• Download full text (pdf) of Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection

An Open-Source Modular Framework for Automated Pipetting and Imaging Applications

Ouyang, Wei; Bowman, Richard W; Wang, Haoran; Bumke, Kaspar E et al.

Part of Advanced biology, 2022

• DOI for An Open-Source Modular Framework for Automated Pipetting and Imaging Applications
• Download full text (pdf) of An Open-Source Modular Framework for Automated Pipetting and Imaging Applications

Is brightfield all you need for MoA prediction?

Gupta, Ankit; Harrison, Philip J; Wieslander, Håkan; Rietdijk, Jonne et al.

2022

NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells

Garcia-Gomez, Pedro; Golan, Irene; Dadras, Mahsa Shahidi; Mezheyeuski, Artur et al.

Part of Molecular Oncology, p. 1891-1912, 2022

• DOI for NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells
• Download full text (pdf) of NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells

A phenomics approach for antiviral drug discovery

Rietdijk, Jonne; Tampere, Marianna; Pettke, Aleksandra; Georgiev, Polina et al.

Part of BMC Biology, 2021

• DOI for A phenomics approach for antiviral drug discovery
• Download full text (pdf) of A phenomics approach for antiviral drug discovery

Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells

Hühn, Daniela; Martí‐Rodrigo, Pablo; Mouron, Silvana; Hansel, Catherine et al.

Part of Molecular Oncology, p. 148-165, 2021

• DOI for Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
• Download full text (pdf) of Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells

A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors

Corman, Alba; Kanellis, Dimitris C.; Michalska, Patrycja; Häggblad, Maria et al.

Part of PLoS biology, 2021

• DOI for A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors
• Download full text (pdf) of A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors

A workflow for high-throughput screening, data analysis, processing, and hit identification

Hansel, Catherine S.; Yousefian, Schayan; Klemm, Anna H.; Carreras-Puigvert, Jordi

2020

A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family

Carreras-Puigvert, Jordi; Zitnik, Marinka; Jemth, Ann-Sofie; Carter, Megan et al.

Part of Nature Communications, 2017

• DOI for A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
• Download full text (pdf) of A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family

PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data

Matuszewski, Damian J.; Wählby, Carolina; Carreras-Puigvert, Jordi; Sintorn, Ida-Maria

Part of PLOS ONE, 2016

• DOI for PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data

A host-centric morphological profiling approach to identify repurposed antiviral drugs

Asp, Elin; Rietdijk, Jonne; Tampere, Marianna; Axelsson, Hanna et al.

Part of iScience, 2026

• DOI for A host-centric morphological profiling approach to identify repurposed antiviral drugs
• Download full text (pdf) of A host-centric morphological profiling approach to identify repurposed antiviral drugs

Counting cells can accurately predict small-molecule bioactivity benchmarks

Seal, Srijit; Dee, William; Shah, Adit; Cerisier, Natacha et al.

Part of Nature Communications, 2026

• DOI for Counting cells can accurately predict small-molecule bioactivity benchmarks
• Download full text (pdf) of Counting cells can accurately predict small-molecule bioactivity benchmarks

The time dimension matters: Improving mode of action classification with live-cell imaging

Forsgren, Edvin; Rietdijk, Jonne; Holmberg, David; Juneblad, Julia et al.

Part of ARTIFICIAL INTELLIGENCE IN THE LIFE SCIENCES, 2026

• DOI for The time dimension matters: Improving mode of action classification with live-cell imaging
• Download full text (pdf) of The time dimension matters: Improving mode of action classification with live-cell imaging

A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics

Slager, Justin; Gatto, Francesca; Frey, Benjamin; Shi, Wenyang et al.

Part of Communications Biology, 2026

• DOI for A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics
• Download full text (pdf) of A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics

Computational drug repurposing: approaches, evaluation of in silico resources and case studies

Tanoli, Ziaurrehman; Fernández-Torras, Adrià; Özcan, Umut Onur; Kushnir, Aleksandr et al.

Part of Nature reviews. Drug discovery, p. 521-542, 2025

• DOI for Computational drug repurposing: approaches, evaluation of in silico resources and case studies

A host-centric morphological profiling approach to identify repurposed antiviral drugs

Asp, Elin; Rietdijk, Jonne; Tampere, Marianna; Axelsson, Hanna et al.

Part of iScience, 2026

• DOI for A host-centric morphological profiling approach to identify repurposed antiviral drugs
• Download full text (pdf) of A host-centric morphological profiling approach to identify repurposed antiviral drugs

Counting cells can accurately predict small-molecule bioactivity benchmarks

Seal, Srijit; Dee, William; Shah, Adit; Cerisier, Natacha et al.

Part of Nature Communications, 2026

• DOI for Counting cells can accurately predict small-molecule bioactivity benchmarks
• Download full text (pdf) of Counting cells can accurately predict small-molecule bioactivity benchmarks

The time dimension matters: Improving mode of action classification with live-cell imaging

Forsgren, Edvin; Rietdijk, Jonne; Holmberg, David; Juneblad, Julia et al.

Part of ARTIFICIAL INTELLIGENCE IN THE LIFE SCIENCES, 2026

• DOI for The time dimension matters: Improving mode of action classification with live-cell imaging
• Download full text (pdf) of The time dimension matters: Improving mode of action classification with live-cell imaging

A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics

Slager, Justin; Gatto, Francesca; Frey, Benjamin; Shi, Wenyang et al.

Part of Communications Biology, 2026

• DOI for A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics
• Download full text (pdf) of A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics

Discovery of a novel inhibitor of macropinocytosis with antiviral activity

Porebski, Bartlomiej; Christ, Wanda; Corman, Alba; Haraldsson, Martin et al.

Part of Molecular Therapy, p. 3012-3024, 2024

• DOI for Discovery of a novel inhibitor of macropinocytosis with antiviral activity
• Download full text (pdf) of Discovery of a novel inhibitor of macropinocytosis with antiviral activity

The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

Li, Xuexin; Hernandez, Ivo; Koyuncu, Seda; Häggblad, Maria et al.

Part of EBioMedicine, 2024

• DOI for The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ
• Download full text (pdf) of The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ

Artificial intelligence for high content imaging in drug discovery

Carreras-Puigvert, Jordi; Spjuth, Ola

Part of Current opinion in structural biology, 2024

• DOI for Artificial intelligence for high content imaging in drug discovery
• Download full text (pdf) of Artificial intelligence for high content imaging in drug discovery

From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability

Seal, Srijit; Carreras-Puigvert, Jordi; Singh, Shantanu; Carpenter, Anne E. et al.

Part of Molecular Biology of the Cell, 2024

• DOI for From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability
• Download full text (pdf) of From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability

Combining molecular and cell painting image data for mechanism of action prediction

Tian, Guangyan; Harrison, Philip J.; Sreenivasan, Akshai P.; Carreras-Puigvert, Jordi et al.

Part of Artificial intelligence in the life sciences, 2023

• DOI for Combining molecular and cell painting image data for mechanism of action prediction
• Download full text (pdf) of Combining molecular and cell painting image data for mechanism of action prediction

Designing microplate layouts using artificial intelligence

Francisco Rodríguez, María Andreína; Carreras-Puigvert, Jordi; Spjuth, Ola

Part of Artificial Intelligence in the Life Sciences, 2023

• DOI for Designing microplate layouts using artificial intelligence
• Download full text (pdf) of Designing microplate layouts using artificial intelligence

Combining molecular and cell painting image data for mechanism of action prediction

Tian, Guangyan; Harrison, Philip J.; Sreenivasan, Akshai P.; Carreras-Puigvert, Jordi et al.

Part of Artificial Intelligence in the Life Sciences, 2023

• DOI for Combining molecular and cell painting image data for mechanism of action prediction
• Download full text (pdf) of Combining molecular and cell painting image data for mechanism of action prediction

Designing microplate layouts using artificial intelligence

Francisco Rodríguez, María Andreína; Carreras-Puigvert, Jordi; Spjuth, Ola

Part of Artificial Intelligence in the Life Sciences, p. 100073-100073, 2023

• DOI for Designing microplate layouts using artificial intelligence

Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data

Seal, Srijit; Yang, Hongbin; Trapotsi, Maria-Anna; Singh, Satvik et al.

Part of Journal of Cheminformatics, 2023

• DOI for Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data
• Download full text (pdf) of Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data

Evaluating the utility of brightfield image data for mechanism of action prediction

Harrison, Philip John; Gupta, Ankit; Rietdijk, Jonne; Wieslander, Håkan et al.

Part of PloS Computational Biology, 2023

• DOI for Evaluating the utility of brightfield image data for mechanism of action prediction
• Download full text (pdf) of Evaluating the utility of brightfield image data for mechanism of action prediction

Development of new approach methods for the identification and characterization of endocrine metabolic disruptors: a PARC project

Braeuning, Albert; Balaguer, Patrick; Bourguet, William; Carreras-Puigvert, Jordi et al.

Part of Frontiers in Toxicology, 2023

• DOI for Development of new approach methods for the identification and characterization of endocrine metabolic disruptors: a PARC project
• Download full text (pdf) of Development of new approach methods for the identification and characterization of endocrine metabolic disruptors: a PARC project

Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects

Rietdijk, Jonne; Aggarwal, Tanya; Georgiev, Polina; Lapins, Maris et al.

Part of Science of the Total Environment, 2022

• DOI for Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects
• Download full text (pdf) of Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects

Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection

Seal, Srijit; Carreras-Puigvert, Jordi; Trapotsi, Maria-Anna; Yang, Hongbin et al.

Part of Communications Biology, 2022

• DOI for Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection
• Download full text (pdf) of Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection

An Open-Source Modular Framework for Automated Pipetting and Imaging Applications

Ouyang, Wei; Bowman, Richard W; Wang, Haoran; Bumke, Kaspar E et al.

Part of Advanced biology, 2022

• DOI for An Open-Source Modular Framework for Automated Pipetting and Imaging Applications
• Download full text (pdf) of An Open-Source Modular Framework for Automated Pipetting and Imaging Applications

New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens

Colicchia, Valeria; Häggblad, Maria; Sirozh, Oleksandra; Porebski, Bartlomiej et al.

Part of FEBS Open Bio, p. 1896-1908, 2022

• DOI for New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens
• Download full text (pdf) of New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens

NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells

Garcia-Gomez, Pedro; Golan, Irene; Dadras, Mahsa Shahidi; Mezheyeuski, Artur et al.

Part of Molecular Oncology, p. 1891-1912, 2022

• DOI for NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells
• Download full text (pdf) of NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells

A phenomics approach for antiviral drug discovery

Rietdijk, Jonne; Tampere, Marianna; Pettke, Aleksandra; Georgiev, Polina et al.

Part of BMC Biology, 2021

• DOI for A phenomics approach for antiviral drug discovery
• Download full text (pdf) of A phenomics approach for antiviral drug discovery

Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells

Hühn, Daniela; Martí‐Rodrigo, Pablo; Mouron, Silvana; Hansel, Catherine et al.

Part of Molecular Oncology, p. 148-165, 2021

• DOI for Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
• Download full text (pdf) of Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells

A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors

Corman, Alba; Kanellis, Dimitris C.; Michalska, Patrycja; Häggblad, Maria et al.

Part of PLoS biology, 2021

• DOI for A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors
• Download full text (pdf) of A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors

A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family

Carreras-Puigvert, Jordi; Zitnik, Marinka; Jemth, Ann-Sofie; Carter, Megan et al.

Part of Nature Communications, 2017

• DOI for A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
• Download full text (pdf) of A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family

PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data

Matuszewski, Damian J.; Wählby, Carolina; Carreras-Puigvert, Jordi; Sintorn, Ida-Maria

Part of PLOS ONE, 2016

• DOI for PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data

Computational drug repurposing: approaches, evaluation of in silico resources and case studies

Tanoli, Ziaurrehman; Fernández-Torras, Adrià; Özcan, Umut Onur; Kushnir, Aleksandr et al.

Part of Nature reviews. Drug discovery, p. 521-542, 2025

• DOI for Computational drug repurposing: approaches, evaluation of in silico resources and case studies

Cell Painting: a decade of discovery and innovation in cellular imaging

Seal, Srijit; Trapotsi, Maria-Anna; Spjuth, Ola; Singh, Shantanu et al.

Part of Nature Methods, p. 254-268, 2025

• DOI for Cell Painting: a decade of discovery and innovation in cellular imaging

Is brightfield all you need for MoA prediction?

Gupta, Ankit; Harrison, Philip J; Wieslander, Håkan; Rietdijk, Jonne et al.

2022

Exploring the evolution of cellular morphological changes after drug administration based on brightfield image data

Harrison, Philip J.; Rietdijk, Jonne; Holmberg, David; Carreras-Puigvert, Jordi et al.

AROS: Open Source Lab Automation Enables Fully Automated CellPainting

Dahlö, Martin; Larsson, Anders; Rosén, Dan; Francisco Rodríguez, María Andreína et al.

Novel anti-cancer agents targeting NAT2 loss in colorectal cancer

Rameika, Natallia; Tsiara, Ioanna; Haberek, Wawrzyniec; Akcan, Ece et al.

Assessment of Environmental Chemicals Using Morphological Profiling of Cells

Rietdijk, Jonne; Hernandez Valenzuela, Sofia; Georgieva, Polina; Carreras-Puigvert, Jordi et al.

A Systematic Host-Centric Approach to Identifying Repurposed Drugs for Viral Infections

Asp, Elin; Rietdijk, Jonne; Tampere, Marianna; Axelsson, Hanna et al.

A workflow for high-throughput screening, data analysis, processing, and hit identification

Hansel, Catherine S.; Yousefian, Schayan; Klemm, Anna H.; Carreras-Puigvert, Jordi

2020