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ORFeus is recruiting 15 fully funded PhD researchers to help map the dark proteome, starting in 2027.
At a glance
15 fully funded positions

Each position is a full employment contract with salary and allowances set by the Marie Skłodowska-Curie Actions, including a living allowance, a mobility allowance, and a family allowance where applicable.

Apply to and rank up to three projects

You do not apply to each host institution separately. You submit and rank one application per project, up to at maximum three projects, through our central platform.

Open 1 October 2026, for three weeks

The application window opens on 1 October 2026. The closing date is 22 October 2026.

Positions start around March 2027

The exact start date depends on the project and host institution.

How it works

You do not apply to each host institution separately. You apply and rank up to 3 of the 15 projects and put them in order of preference. Every project you rank will consider you, not only your first choice, so ranking more than one project simply widens your options. After the deadline, each project reviews the candidates who ranked it, and the strongest are invited to interview.

What you will need

The application is designed to be straightforward to complete.

You will be asked for:

  • a few eligibility details;
  • a short experience checklist where for each relevant technique you indicate your level and add one line of evidence;
  • a short motivation for each project you choose, telling us why it fits you;
  • your CV;
  • a recent (official) list of your grades;
  • an optional video;
  • and the names and contact details of two academic referees.

Although we ask you to provide information on two referee contacts when you reach the shortlist stage, we request reference letters only if you reach the full interview stage.

Apply
Shortlist and intro call
Interview with supervisors
Outcome and feedback
15 doctoral projects

The network’s science is carried by 15 connected PhD projects. Each is hosted by a different group, co-supervised across institutions, and linked to a partner. They are designed to feed one another: data and tools from one project become the inputs for several others.

Tag
Rendering of a DNA double helix

University of Southampton (UK)

Predicting hidden genes across species

Can a machine learn to recognize a real microprotein gene from its DNA alone? This project builds AI models that predict which short ORFs are genuinely translated, trained on data from across the network and released as open tools for the wider community.

Supervisor: Owen Rackham

Co-supervisor: Uwe Ohler

Dc02

Max Delbrück Center, Berlin (DE)

Reading translation one molecule at a time

What can single molecules tell us about translation that bulk methods cannot? This project develops new ways to read which ORFs are translated from individual RNA molecules, resolving how different transcript forms carry different proteins.

Supervisor: Uwe Ohler

Co-supervisor: Eivind Valen

Fluorescence micrograph of stained cells

University of Oslo (NO)

Finding rare proteins in a sea of data

Most translation events are common enough to detect in a single experiment, but what about the rare ones? This project mines more than 15,000 public ribosome profiling datasets to find translation events that only appear under specific conditions or in specific species.

Supervisor: Eivind Valen

Co-supervisor: Pasha Baranov

Rack of prepared sample vials

Institute of Cancer Research, London (UK)

Tracking microproteins during infection

When a bacterium infects a cell, both host and pathogen produce microproteins. This project maps that landscape using dual proteomics and ribosome profiling, asking which microproteins shape the course of infection.

Supervisor: Jyoti Choudhary

Co-supervisor: Petra Van Damme

Gloved hands transferring a sample into a tube

University of Freiburg (DE)

Capturing the proteins cells send to each other

Many microproteins are secreted from cells, but current methods largely miss them. This project develops chemical tagging approaches to capture secreted microproteins and identify the cell-surface receptors they bind to.

Supervisor: Simon Elsässer

Co-supervisor: Jyoti Choudhary

Dc06

Hubrecht Institute (KNAW), Utrecht (NL)

Designing molecules to control microproteins

Once you find a microprotein, how do you work out what it does? This project uses computational protein design to create synthetic molecules that bind specific microproteins and switch their activity on or off.

Supervisor: Danny Sahtoe

Co-supervisor: Owen Rackham

Dc07

University of Leeds (UK)

When non-coding RNA makes protein

Long non-coding RNAs were long assumed not to make proteins, but some of them do. This project investigates the rules that govern when and how ribosomes translate these unexpected transcripts, focusing on neuronal development.

Supervisor: Julie Aspden

Co-supervisor: M. Mar Albà

Dc08

Hospital del Mar Research Institute (HMRIB-CERCA), Barcelona (ES)

Using evolution to predict function

Evolution leaves traces. If a microprotein has been conserved across species, it is more likely to matter. This project uses evolutionary analysis and functional screens to predict which newly discovered microproteins are biologically important.

Supervisor: M. Mar Albà

Co-supervisor: Simon Elsässer

Dc09

Hubrecht Institute (KNAW), Utrecht (NL)

Translation, one cell at a time

Different cells in the same tissue can translate the same gene differently. This project develops a new method that combines CRISPR editing with single-cell ribosome profiling to study translation regulation one cell at a time.

Supervisor: Alexander van Oudenaarden

Co-supervisor: Julie Aspden

Dc10

Ghent University (BE)

Mapping microprotein function by stability

How does removing a single microprotein change the behavior of a whole proteome? This project uses thermal proteome profiling in bacteria to measure how protein stability and interactions shift when a microprotein is absent, building a functional map of the microproteome.

Supervisor: Petra Van Damme

Co-supervisor: Danny Sahtoe

Coloured scanning electron micrograph of cells

University of Dundee (UK)

Hidden proteins in HPV-driven cancer

HPV rewrites the host cell’s RNA landscape, and some of the resulting hybrid transcripts may encode new proteins. This project maps non-canonical translation in HPV-driven cancers and tests whether the resulting peptides can be recognized by the immune system.

Supervisor: Nicola Ternette

Co-supervisor: Sebastiaan van Heesch

Dc12

University College Cork (IE)

How genetic variants change translation

Common genetic variants can change which proteins a cell makes, even outside the known gene catalog. This project studies how variation in non-coding regions alters translation, and which of these changes are relevant in cancer.

Supervisor: Pasha Baranov

Co-supervisor: Alexander van Oudenaarden

Dc13

Princess Máxima Center, Utrecht (NL)

Wrong amino acids, new immune targets

What happens when cancer cells start reading their genome in unexpected ways? This project studies how tumour cells switch on a hidden layer of protein coding under stress, and what the resulting dark proteome means for cancer biology and immunotherapy. The work runs alongside ILLUMINE, the Cancer Grand Challenges project on the dark proteome.

Supervisor: Sebastiaan van Heesch

Co-supervisor: Reuven Agami

Dc14

Netherlands Cancer Institute (NKI-AVL), Amsterdam (NL)

Finding the switches in antigen display

For a microprotein to become an immune target, the cell must process and display it on its surface. This project uses CRISPR screens to find the factors that control this display, identifying regulators that could be targeted to make tumours more visible to the immune system.

Supervisor: Reuven Agami

Co-supervisor: Michal Bassani-Sternberg

Dc15

University of Lausanne (CH)

Teaching the immune system to see hidden proteins

Which hidden peptides actually reach the cell surface and stay there long enough for the immune system to find them? This project combines immunopeptidomics with machine learning to predict which cryptic peptides make credible targets for cancer immunotherapy.

Supervisor: Michal Bassani-Sternberg

Co-supervisor: Uwe Ohler

Start your application

You will continue in Teamtailor, our application system.

How we handle your application data 

Frequently asked questions
Am I eligible?

You qualify if you do not already hold a PhD, will have a master's degree (or an equivalent qualification that gives access to doctoral study) by the time you start, and meet the mobility rule. The mobility rule means you must not have lived, worked or studied in the country of your chosen host institution for more than 12 months in the three years before your recruitment date. Short stays such as holidays do not count. Applicants of any nationality are welcome.

Can I apply if I already have a PhD?

No. MSCA Doctoral Networks are designed for researchers who have not yet obtained a doctoral degree. If you already hold a PhD and are interested in the research areas covered by ORFeus, you are welcome to contact us about other possible collaborations.

What exactly is the mobility rule?

The mobility rule is an MSCA eligibility requirement. At the time of recruitment, you must not have resided or carried out your main activity (work, studies) in the country of your host institution for more than 12 months in the 36 months immediately before your recruitment date. Short stays such as holidays, conferences or language courses do not count. The rule is assessed per project, so you may be eligible for a project in one country but not another.

Can I apply from outside Europe?

Yes. ORFeus is open to applicants of any nationality, from any country. You will need to meet the general eligibility criteria including the mobility rule. If you are recruited, your host institution will support you with visa and work permit arrangements where needed.

How does ranking work?

You choose up to three of the 15 projects and rank them in order of preference. Every project you rank will consider your application, not only your first choice. You do not have to rank three; rank only the projects you would genuinely accept. Ranking more than one project widens your options without reducing your chances for your top choice.

What background do I need?

The 15 projects span a wide range of disciplines, from computational biology and AI to proteomics, structural biology, evolutionary genomics and immunology. Each project description lists the specific expertise that is most relevant. You do not need to have experience in all of them. What matters is a strong foundation in your area and a genuine interest in learning across disciplines.

Do I need to speak the local language?

English is the working language of the entire network. All training events, supervision meetings, and network activities are conducted in English. Some host institutions may offer or encourage local language courses, but fluency in the local language is not a requirement for any position.

Is it funded, and what is the salary?

Yes. Every position is a full employment contract, fully funded by the European Union through the Marie Skłodowska-Curie Actions. The salary includes a living allowance, a mobility allowance, and a family allowance where applicable. The exact gross amount depends on the host country.

How long is the position?

Each position runs for 36 months (three years). In some cases an extension may be possible depending on the policies of the host institution.

Is this a full-time position?

Yes. The fellowship requires a full-time commitment. You are expected to dedicate yourself entirely to your research project and the network's training program for the duration of the contract.

What is the timeline?

Applications open 1 October 2026 and close on 22 October 2026. Shortlisting and interviews follow in late 2026, decisions are communicated late 2026 to early 2027, and positions start in March 2027. The exact start date depends on the project and host institution.

What happens after I apply?

We confirm receipt of your application. After the deadline, each project reviews the candidates who ranked it. The strongest candidates are shortlisted and invited to a short introductory call, followed by an interview with the project's supervisors. Everyone is informed of the outcome, and candidates who are shortlisted or interviewed receive individual feedback.

Do I need reference letters now?

No. After reaching the shortlist stage, you will be asked to provide information on up to two reference contacts through the hiring platform. At that point, these contacts will be asked to confirm if they can act as referee. If you then reach the full interview stage, we will ask them for their input.

What about visas and work permits?

If you are recruited, your host institution will guide you through the visa and work permit process. We recommend starting this as early as possible once you receive an offer, as administrative timelines vary by country. Make sure to check the specific requirements for your host country well in advance.

What is an MSCA Doctoral Network?

A Marie Skłodowska-Curie Actions Doctoral Network is an EU-funded program that brings together universities, research institutes and companies to train doctoral researchers through connected PhD projects on a shared research topic. Each researcher is employed at a host institution but trains across the whole network through schools, workshops, and secondments at partner organizations.

Will I need to attend all the network training events?

Yes. The network-wide schools, workshops, and other training activities are a core part of the program and are mandatory for all doctoral researchers. They are designed to complement your individual research project. All training costs, including travel and accommodation for network events, are covered.

What is a secondment?

A secondment is a period you spend working at another organization in the network, typically an industry partner at a different institution. ORFeus includes a mandatory industry secondment of around three months and a shorter academic secondment of around four weeks (primarily virtual). Secondments are fully funded and planned with your supervisors to fit your project and career goals.