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Charles Lawrie

1 year ago

PhD Position: Integrated Multi-Omic and Spectroscopic Identification of Novel Blood CAR-T Biomarkers via Machine Learning (BIOCART) University of Udine in Italy

Degree Level

PhD

Field of study

Oncology

Funding

Funded PhD Project (Students Worldwide)

Deadline

Expired

Country flag

Country

Italy

University

University of Udine

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Keywords

Oncology
Computer Science
Machine Learning
Biomarker Research
Biomedical Engineering
Biology
Spectroscopy
Computational Biology
Health Science
Lymphoma
Neurotoxicology
Cancer Therapy
Glycomics
Dna Methylation
Mirna
Omics
Data Harmonization
Bioinformatic

About this position

This PhD position, hosted at IIS Biogipuzkoa Health Research Centre in Donostia-San Sebastián, Spain, is part of the INT2ACT Doctoral Network and affiliated with the University of Udine. The project, BIOCART, aims to identify novel blood-based biomarkers in CAR-T–treated patients with relapsed or refractory B-cell lymphomas. CAR-T therapy has revolutionized treatment for these patients, but resistance and toxicities such as cytokine release syndrome and neurotoxicity remain significant challenges.

The project addresses the urgent clinical need for biomarkers to better predict and manage these toxicities and monitor disease progression. Unlike previous studies that relied on single omic approaches and small cohorts, BIOCART employs a comprehensive multi-omics strategy, including cfDNA, miRNA, methylomics, glycomics, and spectroscopy, in a large, prospective, international, multicenter study. Blood samples are collected at multiple time points before and after CAR-T infusion, and the resulting data are used to develop and train machine learning pipelines capable of integrating and harmonizing multi-omics datasets. The goal is to identify biomarkers for early treatment response, disease progression, and therapy-related toxicities.

The developed algorithms and biomarkers will be validated in an independent cohort of 120 patients. The PhD student will focus on bioinformatics analyses, data fusion, and the development of new computational tools for data harmonization. The host laboratory, led by Prof. Charles Lawrie, is well-equipped with facilities for cell culture, flow cytometry, microscopy, genomics, histology, and clinical trials, and maintains strong connections with oncology medical services.

The project includes secondments to collaborating groups in China (Prof. Lei Zhang, SSIAT, Shanghai University) and Spain (Dr. Marc Weber, Flomics Biotech SL, Barcelona), so willingness to travel is essential.

Applicants must have a Master’s degree in a relevant field, not already hold a doctoral degree, and comply with the mobility rule. Experience in bioinformatics, computational biology, and programming (Python, R, C++) is advantageous, as is knowledge of machine learning. Proficiency in English is required.

Funding is provided through the INT2ACT Doctoral Network, with details available on the recruitment web page. The application deadline is January 31, 2026. For more information, visit the INT2ACT website or contact Dr. Charles Lawrie.

Funding details

Funded PhD Project (Students Worldwide)

What's required

Applicants must hold a Master’s degree in Bioinformatics, Computational Biology, Mathematics, Biotechnology or a related field and must not already possess a doctoral degree. Candidates must comply with the mobility rule: not having resided or carried out their main activity in Spain for more than 12 months in the 36 months prior to recruitment. Experience in bioinformatics and/or computational biology, especially with large-scale omics datasets, is advantageous. Intermediate proficiency in at least one programming language (Python, R, C++) and basic knowledge of machine learning or deep learning algorithms are beneficial. Proficiency in English is required, demonstrated by an English test (IELTS, TOEFL, Cambridge English) unless exempted by nationality or prior English-taught degree. Good oral and written communication skills are expected.

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Professors

Professor at INT2ACT

University Name
Country flag

Italy

Research Interests

Biology

Health Science

Oncology

Biomedical Engineering

Computer Science

Dr. at INT2ACT

University Name
Country flag

Italy

Research Interests

Biology

Health Science

Oncology

Biomedical Engineering

Materials Science

Dr. at INT2ACT

University Name
Country flag

Italy

Research Interests

Cell Biology

Health Science

Biology

Biomedical Engineering

Bioinformatic

Dr. at INT2ACT

University Name
Country flag

Italy

Research Interests

Computer Science

Health Science

Biology

Machine Learning

Bioinformatic