Bioinformatics PhD - Genomics Specialist - AI Trainer

Obsidian; San Diego (CA); On-site; USD 90,000 - 130,000; Full time

Job summary

Obsidian in San Diego seeks a Bioinformatics & Computational Single-Cell Genomics Expert to design graduate-level problems using real scientific software, run simulations, and guide AI models through complex workflows. You will craft challenging tasks around cell-type annotation, trajectory inference, and multi-omic integration while iterating on difficulty with cutting-edge models.

The role emphasizes hands-on coding with Scanpy, Scvelo, Squidpy, and Gudhi, and requires strong Python skills,

Qualifications

• Graduate-level training in a relevant STEM field (MS, PhD, or equivalent)
• Proven proficiency with at least one of the listed scientific software libraries
• Strong Python skills for problem setups, oracle functions, and validators
• Ability to work independently and refine problem designs based on feedback
• Comfortable with Linux/terminal environment and remote compute sandboxes
• Available for at least 15–20 hours per week

Responsibilities

• Create problems requiring skilled use of specialized scientific software
• Design problems around multi-step workflows and strategic questioning
• Test problems against state-of-the-art AI models and refine difficulty
• Interact with the evaluation loop to ensure target difficulty is met

Skills

Python

Graduate-level training

Independent work

Problem design

Scientific reasoning

Education

MS or PhD in a relevant STEM field

Tools

scanpy

scvelo

squidpy

gudhi

Job description

Bioinformatics & Computational Single-Cell Genomics Expert

About the Project

We're building a large-scale benchmark to test how well advanced AI systems can solve hard scientific and engineering problems. As a task designer, you'll create challenging computational problems that check whether AI can use real scientific software to do research-level work — running simulations, interpreting results, designing experiments, and uncovering hidden information from data.

This isn't a typical data-labeling job. You'll design original, graduate-level problems based on real scientific workflows, test them against cutting-edge AI models, and fine-tune them until the difficulty is just right.

What You'll Do

You'll create problems that require skilled use of specialized scientific software. Some will ask the AI to compute exact answers from a fully defined setup — testing whether it can correctly carry out complex, multi-step workflows. Others will be harder: the AI must plan a series of queries or experiments to uncover information that isn't directly visible, which means thinking strategically about what to measure, how to read partial results, and how to narrow down the possibilities efficiently.

Each problem goes through a testing loop against state-of-the-art AI models, and you'll refine it until it hits the target difficulty.

Domains & Tools We're Hiring For

We're especially interested in experts with deep, hands-on experience in:

Bioinformatics & Single-Cell Genomics — working with tools like scanpy, scvelo, squidpy, and gudhi for single-cell RNA-seq analysis, trajectory inference, spatial transcriptomics, and topological data analysis. You should be comfortable designing problems around cell-type annotation, pseudotime ordering, multi-omic integration, spatial variable gene identification, and persistence-based analysis pipelines. This is our highest-throughput domain and where we're scaling first.

Experience with other specialized software in this domain will also be considered.

What Makes a Strong Candidate

You have graduate-level expertise (MS or PhD preferred) in the domain above, with real hands-on experience using these tools — not just theoretical knowledge. You've written code using these libraries to solve actual research problems, and you understand where they break, what their edge cases are, and what makes a problem genuinely hard rather than just complicated.

Beyond domain expertise, the best candidates think like puzzle designers: building problems where the challenge comes from smart reasoning rather than raw computation, where several approaches seem plausible but only careful analysis reveals the right one, and where surface-level pattern matching won't get you to the answer.

Requirements

• Graduate-level training in a relevant STEM field (MS, PhD, or equivalent research experience)

• Proven proficiency with at least one of the listed scientific software libraries, shown through research publications, open-source contributions, or professional work

• Strong Python skills — you'll be writing problem setups, oracle functions, and solution validators

• Ability to work independently and refine problem designs based on feedback

• Comfortable working in a Linux/terminal environment with remote compute sandboxes

• Available for at least 15–20 hours per week

Nice to Have

• Experience across multiple listed domains or tools

• Familiarity with benchmark or evaluation design

• Background in scientific teaching or exam/problem-set design

• Experience with computational reproducibility and containerized environments