Job Description

Senior Scientist – Computational siRNA Lead Development

Remote, Boston, USA, Dublin, IRE, Stevenage, UK

Full-time

Permanent employee

Role Summary

Role Summary

We are seeking a highly experienced and hands-on scientist to lead computational siRNA design and selectivity assessment efforts. This role will work closely with an experienced Bioinformatician to build and implement in-house workflows that integrate oligonucleotide chemistry, transcriptomic profiling, and predictive modelling to enable robust lead nomination.

The ideal candidate combines deep RNAi mechanistic expertise with strong computational skills, a track record of advancing oligonucleotide therapeutics in a drug discovery setting and thrives when collaborating with an R&D team.

Key Responsibilities

siRNA Design & Optimisation

· Work closely with a Senior Bioinformatician to review and interpret computationally generated siRNA designs.
· Apply core RNAi principles—including thermodynamic asymmetry, strand bias, RISC loading, seed-region effects, and target accessibility—to evaluate candidate sequences.
· Translate computational design outputs into actionable experimental strategies.
· Guide sequence selection decisions based on potency, selectivity, and developability considerations.

Oligonucleotide Chemistry Integration

· Apply deep knowledge of oligonucleotide chemistry, including modified nucleotides (2’-O-Me, 2’-F, LNA), backbone modifications (PS), and conjugation strategies (e.g., GalNAc, lipid-based delivery).
· Partner with chemistry teams on structure–activity relationship (SAR) studies, including novel chemistries.
· Integrate chemical architecture and screening data into lead optimisation decisions.

Transcriptomics & Off-Target Assessment

· Design and analyse bulk and single-cell RNA-seq experiments to quantify on-target knockdown and off-target effects.
· Execute transcriptome-wide selectivity profiling approaches (e.g., concentration-response digital gene expression).
· Distinguish hybridization-dependent and hybridization-independent effects.
· Develop analytical frameworks to assess seed-mediated, partial complementarity, and chemistry-driven off-target mechanisms.
· Conduct cross-species selectivity analyses to support translational development.

Data & Sequence Management

· Lead the organization and maintenance of internal siRNA sequence datasets and associated screening results.
· Implement and maintain sequence databases and visualisation tools that enable exploration of sequence features, transcriptomic results, and screening data.
· Ensure data traceability and accessibility across discovery programs.
· Establish best practices in computational reproducibility and workflow automation.

Person Specification

Person Specification

• Ph.D. in Computational Biology, Bioinformatics, Molecular Biology, or related discipline.
• Extensive industry experience in drug discovery with significant depth in RNA-targeted therapeutics (siRNA, ASO, splice-switching oligonucleotides).
• Demonstrated hands-on expertise in transcriptome-wide off-target analysis.
• Deep understanding of RNAi biology and oligonucleotide chemistry.
• Strong programming skills in Python and/or R.
• Experience building and implementing computational workflows in a research environment.

Values and Culture

Values and Culture

Aerska is a values-driven organisation, guided by the belief that “we live in each other’s shelter”, reflecting our deep sense of interdependence and collaboration. Every member of the team is expected to embody our shared values:

• Walk on Air: Pursue bold ideas with ambition to solve meaningful problems that create real impact
• Time is Neurons: Every moment counts for patients – act with urgency and care, making data-driven decisions without compromise.
• Win or Learn: Embrace curiosity, adapt quickly and continuously improve
• We Before Me: Seek diverse perspectives, collaborate with humility, openness and respect, and prioritise collective success above individual advancement.

About us

Aerska is a biotechnology company pioneering RNA medicines to treat, delay, and prevent diseases of the brain. We are leveraging advances in ‘brain shuttles’ to enable targeted delivery of next-generation RNAi therapeutics to the CNS. By silencing the genes that cause harm, Aerska aims to preserve the minds, protect the memories, and enable our loved ones to live longer, healthier lives.

We are entering an exciting period of growth and are seeking talented individuals who want to be part of a mission-driven company redefining how brain diseases are treated. Joining now means helping shape a fast-growing organisation with the potential to change millions of lives.

Job Tags

Remote job, Permanent employment, Full time, Live in

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