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.

Ingår i Nature Methods, s. 254-268, 2025

• DOI för 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.

Ingår i Molecular Therapy, s. 3012-3024, 2024

• DOI för Discovery of a novel inhibitor of macropinocytosis with antiviral activity
• Ladda ner fulltext (pdf) av 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.

Ingår i EBioMedicine, 2024

• DOI för The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ
• Ladda ner fulltext (pdf) av 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

Ingår i Current opinion in structural biology, 2024

• DOI för Artificial intelligence for high content imaging in drug discovery
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Biology of the Cell, 2024

• DOI för From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability
• Ladda ner fulltext (pdf) av 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.

Ingår i Artificial Intelligence in the Life Sciences, 2023

• DOI för Combining molecular and cell painting image data for mechanism of action prediction
• Ladda ner fulltext (pdf) av 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

Ingår i Artificial Intelligence in the Life Sciences, s. 100073-100073, 2023

• DOI för 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.

Ingår i Journal of Cheminformatics, 2023

• DOI för Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data
• Ladda ner fulltext (pdf) av 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.

Ingår i PloS Computational Biology, 2023

• DOI för Evaluating the utility of brightfield image data for mechanism of action prediction
• Ladda ner fulltext (pdf) av 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.

Ingår i Science of the Total Environment, 2022

• DOI för Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects
• Ladda ner fulltext (pdf) av 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.

Ingår i Communications Biology, 2022

• DOI för Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection
• Ladda ner fulltext (pdf) av 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.

Ingår i Advanced biology, 2022

• DOI för An Open-Source Modular Framework for Automated Pipetting and Imaging Applications
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Oncology, s. 1891-1912, 2022

• DOI för NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells
• Ladda ner fulltext (pdf) av 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.

Ingår i BMC Biology, 2021

• DOI för A phenomics approach for antiviral drug discovery
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Oncology, s. 148-165, 2021

• DOI för Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
• Ladda ner fulltext (pdf) av 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.

Ingår i PLoS biology, 2021

• DOI för A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors
• Ladda ner fulltext (pdf) av 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.

Ingår i Nature Communications, 2017

• DOI för A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
• Ladda ner fulltext (pdf) av 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

Ingår i PLOS ONE, 2016

• DOI för 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.

Ingår i iScience, 2026

• DOI för A host-centric morphological profiling approach to identify repurposed antiviral drugs
• Ladda ner fulltext (pdf) av 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.

Ingår i Nature Communications, 2026

• DOI för Counting cells can accurately predict small-molecule bioactivity benchmarks
• Ladda ner fulltext (pdf) av 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.

Ingår i ARTIFICIAL INTELLIGENCE IN THE LIFE SCIENCES, 2026

• DOI för The time dimension matters: Improving mode of action classification with live-cell imaging
• Ladda ner fulltext (pdf) av 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.

Ingår i Communications Biology, 2026

• DOI för A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics
• Ladda ner fulltext (pdf) av 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.

Ingår i Nature reviews. Drug discovery, s. 521-542, 2025

• DOI för 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.

Ingår i iScience, 2026

• DOI för A host-centric morphological profiling approach to identify repurposed antiviral drugs
• Ladda ner fulltext (pdf) av 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.

Ingår i Nature Communications, 2026

• DOI för Counting cells can accurately predict small-molecule bioactivity benchmarks
• Ladda ner fulltext (pdf) av 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.

Ingår i ARTIFICIAL INTELLIGENCE IN THE LIFE SCIENCES, 2026

• DOI för The time dimension matters: Improving mode of action classification with live-cell imaging
• Ladda ner fulltext (pdf) av 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.

Ingår i Communications Biology, 2026

• DOI för A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Therapy, s. 3012-3024, 2024

• DOI för Discovery of a novel inhibitor of macropinocytosis with antiviral activity
• Ladda ner fulltext (pdf) av 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.

Ingår i EBioMedicine, 2024

• DOI för The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPARγ
• Ladda ner fulltext (pdf) av 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

Ingår i Current opinion in structural biology, 2024

• DOI för Artificial intelligence for high content imaging in drug discovery
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Biology of the Cell, 2024

• DOI för From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability
• Ladda ner fulltext (pdf) av 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.

Ingår i Artificial intelligence in the life sciences, 2023

• DOI för Combining molecular and cell painting image data for mechanism of action prediction
• Ladda ner fulltext (pdf) av 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

Ingår i Artificial Intelligence in the Life Sciences, 2023

• DOI för Designing microplate layouts using artificial intelligence
• Ladda ner fulltext (pdf) av 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.

Ingår i Artificial Intelligence in the Life Sciences, 2023

• DOI för Combining molecular and cell painting image data for mechanism of action prediction
• Ladda ner fulltext (pdf) av 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

Ingår i Artificial Intelligence in the Life Sciences, s. 100073-100073, 2023

• DOI för 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.

Ingår i Journal of Cheminformatics, 2023

• DOI för Merging bioactivity predictions from cell morphology and chemical fingerprint models using similarity to training data
• Ladda ner fulltext (pdf) av 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.

Ingår i PloS Computational Biology, 2023

• DOI för Evaluating the utility of brightfield image data for mechanism of action prediction
• Ladda ner fulltext (pdf) av 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.

Ingår i Frontiers in Toxicology, 2023

• DOI för Development of new approach methods for the identification and characterization of endocrine metabolic disruptors: a PARC project
• Ladda ner fulltext (pdf) av 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.

Ingår i Science of the Total Environment, 2022

• DOI för Morphological profiling of environmental chemicals enables efficient and untargeted exploration of combination effects
• Ladda ner fulltext (pdf) av 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.

Ingår i Communications Biology, 2022

• DOI för Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection
• Ladda ner fulltext (pdf) av 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.

Ingår i Advanced biology, 2022

• DOI för An Open-Source Modular Framework for Automated Pipetting and Imaging Applications
• Ladda ner fulltext (pdf) av 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.

Ingår i FEBS Open Bio, s. 1896-1908, 2022

• DOI för New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Oncology, s. 1891-1912, 2022

• DOI för NOX4 regulates TGF beta-induced proliferation and self-renewal in glioblastoma stem cells
• Ladda ner fulltext (pdf) av 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.

Ingår i BMC Biology, 2021

• DOI för A phenomics approach for antiviral drug discovery
• Ladda ner fulltext (pdf) av 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.

Ingår i Molecular Oncology, s. 148-165, 2021

• DOI för Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
• Ladda ner fulltext (pdf) av 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.

Ingår i PLoS biology, 2021

• DOI för A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors
• Ladda ner fulltext (pdf) av 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.

Ingår i Nature Communications, 2017

• DOI för A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
• Ladda ner fulltext (pdf) av 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

Ingår i PLOS ONE, 2016

• DOI för 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.

Ingår i Nature reviews. Drug discovery, s. 521-542, 2025

• DOI för 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.

Ingår i Nature Methods, s. 254-268, 2025

• DOI för 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