The Vall d´Hebron Institute of Oncology (VHIO) Seeks a “Bioinformatician (Cancer Immunogenomics)”
VHIO has been awarded as a Center of Excellence Severo Ochoa, granted within the subprogram of the Spanish Institutional Strengthening of the State Plan for Scientific and Technical Research & Innovation, recognizes national research centers that demonstrate scientific leadership of excellence and impact at global level. The aid has been funded by the State Agency for Research (Agencia Estatal de Investigación) (CEX2020-001024-S / AEI / 10.13039 / 501100011033)
Reference: Ref. 10-2023
Application deadline: Until position is filled
Number of vacancies: 1
Job description:
The Computational Immunogenomics group led by Francisco Martínez-Jiménez is seeking for a bioinformatician to work on different projects focused on understanding the genomic basis of tumorigenesis and its interplay with the immune system.
The candidate will work with one the largest resources of whole genome sequenced tumor genomes and transcriptomes (currently >6,000 patients, https://database.hartwigmedicalfoundation.nl/). Moreover, in-house data will be generated to assist in the validation of our analyses and to address specific questions that require more targeted analysis.
Research projects may involve, but not limited to:
- The trade off between oncogenicity and immunogenicity of cancer mutations.
- Machine learning models for immunogenicity prediction for cancer variants.
- Detection of clinical biomarkers for non-responders to cancer therapies.
- Implementation of WGS for routine care of cancer patients
We are expecting that the candidate will support ongoing research projects in the group as well as collaborate with biologist, software engineers and medical oncologist of other groups.
Requirements:
- Degree in bioinformatics, computational biology, computer science or similar.
- Experience of at least 1 year (preferably in academic environments).
- Strong knowledge of Unix operating systems.
- Experience with Nextflow and/or Snakemake pipelines.
- Experience in version control programming (e.g. Git) and hosting (e.g. GitHub).
- Experience processing and analyzing cancer genomics data (WGS/WES).
- Knowledge of Python
- Good organization skills.
- Team player.
- Good English communication skills, both oral and written.
Additional skills:
- Knowledge of singularity/docker containers.
- Competent in the use of HPC queue systems (SLURM)
- Experience with Google Cloud Platform.
- Experience with Java will be considered a plus.
Additional information:
Salary to be discussed according to previous experience.
Target starting date, as soon as possible.
For recent and relevant publications, you may check: https://vhio.net/biosketch-francisco-martinez-jimenez/
The vacancy will be available until the position is filled.
Application:
Applicants should send a full Curriculum Vitae and a cover letter to fmartinez@vhio.net including the reference “Ref.10-2023” in the subject line of your email.
Please also attach a minimum of one referee (s) contact to your application.
About VHIO:
Under the leadership of Josep Tabernero, the Vall d’Hebron Institute of Oncology (VHIO), has established itself as a comprehensive cancer center of proven excellence internationally. It is also thanks to VHIO’s optimal organizational structure based on a purely multidisciplinary and translational model that VHIO talents continue to anticipate and tackle the many unresolved questions in combatting this multifaceted and heterogeneous disease.
Located within the Vall d’Hebron Barcelona Hospital Campus, our researchers closely collaborate and interact with Vall d’Hebron physician-scientists. Translational science and clinical research are therefore tightly connected which promotes superb interaction and teamwork which, in turn, accelerates the bench-bedside-bed cycle of knowledge. This privileged environment affords VHIO direct access to patients as well as the entire spectrum of oncology professionals who care for them, and a second-to-none appreciation of how cancer science can translate into more powerful, targeted treatments and better practice for the care of patients.
VHIO’s pioneering model and programs, coupled with its belief in combining strengths through cross-border collaborations, continue to spur advances in reversing cancer resistance, halting metastatic spread, and more effectively treating even the most undruggable tumor types.
VHIO’s translation toward precision oncology: https://www.vhio.net
Vall d’Hebron Institute Oncology (VHIO) endorses the Requirements and Principles of the European Charter for Researchers, the Code of Conduct for the Recruitment of Researchers promoted by the European Commission and follows Equal Opportunities policies.
On 10th April 2018 VHIO was awarded the “HR Excellence in Research” logo. Our Institute was consequently granted permission to use the HR Excellence in Research Award logo as demonstration of its stimulating and favourable work environment in line with the Charter & Code.
