Functional Genomics Scientist

United States Digital Space LLC; Greater London; On-site; GBP 70,000 - 120,000; Full time

Benefits offered by this job

Learning budget

In-person lab work at King’s Cross

Job summary

Substrate is hiring across three tiers—Lab Technician, Scientist, and Principal Scientist—in London. You will develop, validate, and operate screening workflows at the bench, with automation moving the work toward instrumented execution and data feed into model pipelines.

Based at King’s Cross, you will write SOPs, maintain reproducibility thresholds, and collaborate with automation, software, and AI teams to design autonomous, closed‑loop screens from day one.

Qualifications

• Hands-on bench experience in functional genomics and screening.
• Must be able to write clear SOPs and work with automation teams.

Responsibilities

• Develop, validate, and operate screening workflows at the bench.
• Move workflows toward instrumented execution with automation.
• Collaborate with software/automation teams on protocol design and data integration.
• Maintain reproducibility thresholds and SOPs for scalable operations.

Skills

Cell culture

Hands-on lab work

SOP writing

Cross-disciplinary collaboration

Automation collaboration

Education

PhD in Functional Genomics or related field

Postdoctoral experience

Tools

LIMS familiarity

Automation platforms

Job description

The opportunitySubstrate is building a network of fully autonomous wet labs, cloud-based data production facilities for AI biology, integrated with foundation models to become the critical infrastructure layer for AI-driven biological discovery. Our first node opens in King’s Cross, London, with several integrated workcells and two scientific verticals online by mid-2027. Our customers range from foundation model labs to global pharma.

We are hiring across three tiers — Lab Technician, Scientist, and Principal Scientist in functional genomics. This is the second scientific vertical we are bringing online, alongside protein science. The vertical covers cell line engineering, perturbation library design, screen execution, and bulk and single-cell sequencing readouts, with the resulting data feeding customer pipelines that include foundation model training for virtual cell models. Manual development of the day-1 screening workflow is starting now, and full autonomous execution on workcells is targeted for mid-to-late 2027. You will be the bench scientists who develop, validate, and operate the screens through that transition: running them by hand, setting reproducibility and quality thresholds, working alongside automation engineers as the screens move onto instrumentation, and validating equivalence at every step. The Head of Functional Genomics you will work under is being hired alongside you.

About SubstrateSubstrate is spinning out of Automata, the UK lab automation company that has built the workcell platform our labs run on. Our four co‑founders are Mostafa ElSayed (CEO and founder of Automata), Oli Hoy (formerly VP Customer Experience at Automata), Alexey Morgunov (AI Scientist co‑founder, leading the intelligence software product), and a Founding Biology Lead joining shortly. We are aiming to have ramped up to 32 people by the end of Q1 2027.

We are funded in parallel by a combination of venture funding and government grants. We are not a cloud lab and we are not a CRO. We are an autonomous lab platform with closed‑loop integration available as one operating mode for foundation model partners.

The role

You will be at the bench. The work is to develop, validate, and operate the screens that will eventually run autonomously on Substrate’s workcells. In the first phase, that means manual screen development: cell line preparation, library cloning and QC, lentivirus production, screen execution, sequencing sample prep, and the readout pipeline — all by hand, setting reproducibility and quality thresholds, and proving each step out before it moves onto instrumentation. As the workcells arrive, the work shifts toward instrumented execution, equivalence validation, and the engineering judgement calls that decide which manual steps get automated and which stay in human hands.

We are hiring across three levels:

• Principal Scientists own a slice of the screening workflow end to end: scoping it with the Head, designing the manual protocol, validating it to acceptance thresholds, authoring the SOPs that translate to workcell design, and seeing it through to automated execution.

• Scientists work alongside Principal Scientists at the bench, executing the experiments, contributing to validation work, and growing into protocol authorship over the first year.

• Lab Technicians are the hands‑on execution layer: following established SOPs, preparing reagents and consumables, maintaining equipment, and running routine steps of validated protocols so that Scientists and Principal Scientists can focus on design and troubleshooting decisions.

All three tiers work directly with our automation engineering and software teams on the boundary between scientific protocols and autonomous execution.

What is unusual about the work is that no screen in this vertical is being retrofitted onto automation. Every protocol is designed for AI‑in‑the‑loop execution from the first manual run. The data each screen produces — cell line provenance, library composition, perturbation metadata, sequencing QC, consistency across runs — is treated as a first‑class scientific constraint, because that data feeds directly into foundation model training pipelines for our customers. Your decisions at the bench affect what the orchestrator has to do and what data flows back to model partners.

Who you are

You are a functional genomics scientist who is excited about doing the actual work — designing, running, validating, and iterating on screens at the bench. You are comfortable in the detail. You have done at least one screening modality end to end. The shape of the problem is what attracts you: screens that have to be designed for autonomous execution from day one, in a business where the data the lab produces is itself part of the product.

You write good SOPs. You hold yourself and your colleagues to clear reproducibility thresholds. You are pragmatic about being hands‑on in the early phase, with cadence that will be heavy in the manual development phase and ease as protocols move onto instrumentation. You enjoy working at the boundary with non‑biologist colleagues — automation engineers, software engineers, AI researchers — and you do not require them to be scientifically fluent before you will collaborate with them.

We are hiring across three tiers — Lab Technician, Scientist, and Principal Scientist. The shape of the work is hands‑on bench science at all levels, with collaboration into automation and software. The difference is depth of ownership, design authority, and team responsibility.

MUST HAVE for all three tiers

Hands‑on cell culture experience, including CL2 wet‑lab work with mammalian cell lines.

• Hands‑on experience in at least one component of pooled screening: cell line preparation, library cloning and QC, lentivirus production, screen execution, or sequencing sample prep.

• Comfortable executing protocols at the bench through manual, semi‑automated, and instrumented phases.

• Track record of working alongside non‑scientist colleagues (automation, software, computational) on a shared workflow.

MUST HAVE – Lab Technician

Relevant hands‑on lab experience (including A‑level lab work, apprenticeships, or technician roles) is the primary consideration.

• Comfortable following written SOPs precisely and flagging deviations. You do not need to design experiments, but you do need to execute them reliably and communicate clearly when something looks off.

• Hands‑on familiarity with basic wet lab techniques: pipetting, buffer preparation, sample handling, and equipment maintenance. Experience in a cell biology, genomics, or molecular biology lab setting is helpful but not required.

• Comfortable working in a fast‑paced, early‑stage environment where protocols are still being written. You are methodical, safety‑conscious, and do not take shortcuts.

MUST HAVE – Scientist

Three or more years of post‑PhD or equivalent industry experience in functional genomics, cell biology, or molecular biology with a screening‑adjacent focus.

• Strong hands‑on competence in cell culture and in at least one of: library cloning, lentivirus production, single‑cell capture, or NGS sample prep.

• Ready to grow into protocol authorship and SOP ownership over the first 12 months.

MUST HAVE – Principal Scientist

Seven or more years of experience in functional genomics or related disciplines (target validation, perturbation screening), with at least one screening modality (CRISPR knockout, CRISPRi knockdown, or analogous) run end to end: cell line preparation, library design, screen execution, sequencing readout, and hit calling.

• SOP and protocol authorship that other scientists have run successfully.

• Has supervised at least one junior scientist or technician.

NICE TO HAVE

• Hands‑on experience in cell line engineering, particularly iPSC differentiation or CRISPR‑edited stable cell line generation.

• Direct experience moving screens from manual workflows onto lab automation platforms.

• Familiarity with structured experimental data capture, LIMS, ELN, or analogous data infrastructure.

• Experience working with computational or AI/ML colleagues on closed‑loop perturbation programmes.

• Background at an AI‑native biotech or foundation model company.

Why this is unusual

Most functional genomics bench roles in industry sit either inside a pharma R&D group (slow iteration, internal customers only), inside a CRO (external customers, faster iteration, but optimised for service throughput rather than scientific decisions about screen design), or inside an AI‑native biotech (fast iteration, but a single internal customer in the company’s own pipeline). This is none of the three. You will be developing screens that have to be automation‑ready from the first manual experiment, working alongside foundation model labs on closed‑loop programmes that do not have a precedent in any of those settings, and contributing to the proprietary dataset programme that turns the lab itself into a commercial asset.

It is also a functional genomics role with significant software and AI surface area. The way you design and run screens affects what the orchestrator has to do, what data flows back to model partners, and which manual judgements get re‑engineered out of the workflow. Some scientists find that energising; some find it outside their lane. Worth knowing in advance which one you are.

Compensation and equity

We pay competitively against the London market for functional genomics scientists at venture‑backed companies, with bands calibrated to seniority and to the specific scope of the role. We will discuss numbers with serious candidates after first conversations.

Options on the standard four‑year vest with a one‑year cliff. The specific quantum varies by seniority and we will discuss it with serious candidates.

How we work

Working pattern is in‑person and lab‑based. You will be at our King’s Cross site most days; that’s where the experiments are. Some flexibility for desk‑based work — protocol writing, data analysis, reading — but the cadence is set by the science.

30 days annual leave

A learning budget you can use for conferences, courses, books, and time. The founding team operates on a weekly cadence with a Monday planning meeting and a Friday close, and a quarterly offsite. We are direct with each other, we write things down, and we expect to be challenged.

The team you will join

You will report to the Head of Functional Genomics, who is being hired alongside this team. Until they are in seat, your interim manager is Alexey Morgunov, our science and AI focused co‑founder. You will work most closely with the other functional genomics scientists at the bench, with the Lab Technicians who execute alongside you, with the protein science team across the other vertical, and with the software and automation engineering teams on the boundary between scientific protocols and autonomous execution.

You are joining a vertical that is being built from scratch. Substrate is currently three co‑founders growing to roughly 32 people by the end of Q1 2027.

Substrate is an equal opportunity employer

Substrate is an equal opportunity employer. We make hiring decisions on merit, scope‑fit, and the strength of the working relationship we expect to build with each hire. Applications welcome from candidates of any background.