Senior Bioinformatics Engineer, AI Applications - Keplogic

About Us

Keplogic develops enterprise-grade AI agents for the life sciences. Our flagship product, Kepler AI, is a bioinformatics agent designed to accelerate scientific discovery. As biology becomes increasingly data-driven, wet-lab teams generate data faster than bioinformatics groups can analyze it, with week-long turnarounds throttling iteration and delaying key scientific decisions. Kepler AI bridges this gap by enabling scientists to conduct bioinformatics analyses on terabyte scale, multi-modal, messy data through natural language and receive rigorous answers in minutes, not weeks, through autonomous bioinformatics agents.

Today we’re powering research at several well-known biotech and pharma companies as well as academic labs, accelerating decisions that drive new medicines. Join us as we solve challenging problems and revolutionize life sciences research!

The Role

As a founding Senior Bioinformatics Engineer, AI Applications, you’ll closely work with leading biotech/pharma customers and research labs, learning about their workflows and needs, and integrating Kepler AI into their organization. You will also gather crucial feedback and requirements from wet lab scientists and bioinformaticians, and translate them into product ideas and implementation plans for the core Kepler AI platform. This is a role with a high degree of autonomy, end-to-end ownership, and potential for leadership – you will wear many hats from bioinformatics scientist to software engineer to product manager, and shape the culture of our fast‑growing, mission‑driven startup.

What You’ll Do

• Translate customer needs into product requirements – You will be the main point of contact for one or more life science customers – you will partner directly with bench scientists & bioinformaticians, and think deeply about how to integrate the customer’s systems and Kepler AI

• Develop, test, and verify bioinformatics workflows – You will be the main person developing the bioinformatics workflows that are running at the customer’s organization – you will need to learn the science and intuition behind each workflow, measure and evaluate its effectiveness, and rapidly make improvements.

• Design and implement delightful software that fulfills customer needs and augments the Kepler AI platform. Whether a new data connector or pioneering an analysis workflow, you will be writing crucial code that unlocks the core value of Kepler for customers.

• Build an AI native company: help us design an agent-friendly product development cycle and infrastructure, and shape a constantly self-improving company. You will be living and breathing AI, and help shape the future of work.

Technical Requirements

Required

• Bachelor’s degree or above in Computer Science, Computational Biology, Bioinformatics, or equivalent professional experience.

• 3+ years professional experience with Python for software development

• 3+ years professional experience with Python/R for data science – pandas, matplotlib, numpy, scikit-learn, etc.

• 3+ years professional experience with one or more common bioinformatics analysis modalities – bulk and single-cell RNAseq, genomics, proteomics analysis. Familiarity with statistical methods.

• Hands-on experience with common bioinformatics tools (e.g. GATK, STAR, DESeq2), data sources (Ensembl, GEO, ENCODE, etc), and pipelining languages (e.g. Nextflow, Snakemake). Specific items not required here, just for illustrative purposes.

• Fluency with Git workflows, automated CI/CD pipelines, and test-driven development

• Proven ability to communicate scientific and technical concepts to different audiences

Preferred / Bonus

• Familiarity with LLM concepts and APIs (OpenAI completion/responses APIs, function calls, etc.)

• Background in biological and bioinformatics research.

• Hands‑on experience with cloud infrastructure AWS, Docker, Kubernetes, and Infrastructure as Code (Terraform preferred)

You Might Thrive Here If You…

• Highly autonomous and take ownership and responsibility for outcomes: drives and keeps track of work to 100% completion without the need f