3-years PhD Position (PEST-BIN project)

General info

PEST-BIN is a Marie Skłodowska-Curie Innovation Training Network (ITN), funded by the European Commission, Horizon 2020 Program. Commencing its activities in January 2021, the Network will provide PhD training to 15 Early Stage Researchers (ESRs).

As a beneficiary member of the PEST-BIN consortium, AltraBio is looking to hire a PhD student.

Consortium objectives

Antibiotic resistance has been named as one of the greatest threats to global health by the World Health Organization. There are increasing numbers of bacterial infections not responding to known antibiotics. The humanity needs to pioneer disruptive technologies to re-gain the upper hand. To do so, PEST-BIN mobilizes six universities, three research institutes, a hospital and five private companies with one common mission: to pioneer novel technologies to fight bacterial infections. Our network will combine very diverse tools: from nano-engineering, antibiotic discovery and production, via proteomics-based diagnostics to big data analysis using artificial intelligence (AI) – all of which will contribute to new, interdisciplinary technologies. All PEST-BIN ESRs will be trained in an intersectoral environment – experiencing a tight collaboration among academia, healthcare and the private sector.

PhD project description

AltraBio is an SME, founded in Lyon in 2006, expert in the processing, analysis, and interpretation of life science data. AltraBio’s team expertise spans the fields of biology, medicine, statistics and computer sciences. One of AltraBio’s main focuses is on omics technologies with the goal of unlocking the value captured in large-scale-datasets generated in life science experimental studies. AltraBio implements and develops state-of-the-art and innovative methods, customized statistical models, machine learning and data management/visualization tools for the exploration of the data and results. This allows the identification of biomarkers and responsive genes/proteins, the definition of expression signatures and the elucidation of signaling pathways and regulatory networks.

AltraBio’s candidate will develop pipelines adapted to the analysis, integration and interpretation of the proteomics and transcriptomics data generated by the consortium in order to evaluate the diagnostic potential of biosensors and to elucidate the mechanisms of bacterial infection.


AltraBio’s candidate should:

- be a highly motivated computational biologist / bioinformatician (MSc level)

- have experience in the analysis of large-scale biomedical omics data, using statistical methods and machine learning

- demonstrate skills and knowledge in next-generation sequencing data analysis, biostatistics, machine learning, pathway and network analysis

- have expertise in common bioinformatics software packages, tools, and algorithms

- have a cross-disciplinary aptitude, strong organizational and interpersonal skills, and a keen interest in collaborative biomedical research


- Applicants can be of any nationality. PEST-BIN supports a balanced gender representation by promoting genuine equal access opportunities throughout the recruitment process.

- Applicants are required to undertake transnational mobility (i.e. move from one country to another) when taking up their appointment. At the time of recruitment by the host beneficiary, ESRs must not have resided or carried out their main activity (work, studies, etc.) in the country of their host beneficiary for more than 12 months in the 3 years immediately prior to the date of appointment.

- To be considered an ESR, at the time of recruitment by the host the candidates must be in the first four years (full- time equivalent) of their research careers. This is measured from the date when they obtained the degree which formally entitles them to embark on a doctorate (typically a MSc degree).

- Applicants must have a diploma (or obtain a diploma before their employment starts) granting access to doctoral studies (typically an MSc degree).

- Applicants must be able to demonstrate their ability to understand and express themselves in both written and spoken English at a level that is sufficiently high for them to derive the full benefit from the network training.

Benefits and salary

The successful candidates will receive an attractive salary in accordance with the MSCA regulations for Early Stage Researchers (https://ec.europa.eu/research/mariecurieactions/resources/document-libraries/information-note-fellows-innovative-training-networks-itn_en). The exact salary will be confirmed upon appointment and is dependent on the country correction factor (to allow for the difference in cost of living in different EU Member States). The salary includes a living allowance, a mobility allowance and a family allowance (if already married). The guaranteed PhD funding is for 36 months. All ESRs will have e personal career development plan and benefit from continuing education, secondments and training/networking events within PEST-BIN. All ESR will be guided by an academic and non-academic supervisor, experiencing a truly intersectoral working environment.

Documents for application

Please submit your application in English, including a cover letter describing your motivations, a curriculum vitae, and two reference letters. Applications should be sent before January 10, 2020 by email to: genevieve.villemagne@altrabio.com