AI Scientific Software Engineer - Pipeline Pilot

Dassault Systemes; San Diego (CA); Hybrid; USD 140,000 - 180,000; Full time

Benefits offered by this job

Bonus potential

401K match

Tuition reimbursement

Flexible time off

Job summary

BIOVIA, a Dassault Systèmes company, is seeking an AI Scientific Software Developer to advance MARIE, the AI-powered companion inside PIPELINE PILOT for scientists. This hybrid onsite role is ideally based in San Diego, CA.

You will design prompts, build agentic AI workflows, ensure safety, and collaborate with cross-functional teams to deliver high-quality software using Agile practices. The ideal candidate has a PhD in Life Sciences or CS, 3+ years of software development in AI/ML, and strong

Qualifications

• PhD in Life Sciences or Computer Science with 3+ years software development experience.
• Strong grasp of LLM fundamentals and context windows.
• Experience with Retrieval-Augmented Generation (RAG) systems, semantic search, vector databases.
• Prompt engineering, evaluation, and optimization experience.
• Hands-on with agentic AI frameworks (LangChain, LangGraph, DeepAgents).
• Experience with Agile methodologies (Scrum) and cross-functional collaboration.

Responsibilities

• Develop MARIE AI-powered companion within BIOVIA products, Pipeline Pilot.
• Design, test, and iterate on prompts to improve reasoning and user experience.
• Build and orchestrate agentic AI workflows with tool calls and memory management.
• Implement safeguards for safety, reliability, and ethical grounding.
• Collaborate across engineering, QA, product marketing, and services.

Skills

AI/ML literacy

LLM fundamentals

RAG systems

LangChain frameworks

Agile/Scrum

communication

Education

PhD in Life Sciences or CS

Tools

LangChain

LangGraph

DeepAgents

Pipeline Pilot

MCP

Vector databases

Job description

Roles & Responsibilities

BIOVIA, a wholly owned subsidiary of DASSAULT SYSTEMES, provides a sophisticated enterprise system of modeling, simulation, machine learning, laboratory, quality and process execution, and data management solutions. Our customers use these systems to discover, design, and deliver innovative, sustainable, and competitive products to consumers globally. These capabilities are delivered through software applications and cloud services that empower scientists and engineers to access, understand, and analyze their data to produce quality products.

As an AI Scientific Software Developer, you will support the development of the MARIE AI-powered companion for scientists within BIOVIA products, specifically Pipeline Pilot. This role is a hybrid onsite position most preferably at our San Diego, CA office.

MARIE is a co-scientist that lives within the 3DEXPERIENCE platform-a scientific Virtual Companion that helps scientists navigate complexity with confidence. By reasoning through, orchestrating, and executing multi-step workflows using validated scientific methods, MARIE delivers deterministic, actionable outcomes. Our scientific functionality is a cornerstone of BIOVIA's enterprise solutions for the pharmaceutical, biotechnology, and fine-chemical industries.

You will be building:

• Model & Prompt Engineering: Design, test, and iterate on prompts that improve reasoning, factuality, and user experience.
• Agentic AI Frameworks: Build, manage, and orchestrate agentic workflows involving tool calling, reasoning loops, memory management, skills orchestration, and multi-step task execution.
• AI Safety & Reliability: Implement guardrails, monitoring, and validation mechanisms to ensure AI systems remain safe, reliable, and ethically grounded.
• This position will focus on developing new approaches to scientific software as part of a larger, dynamic development team dedicated to delivering high-quality, on-time software releases using best-of-breed Agile practices.
• The qualified candidate will have an excellent background in Python AI/ML programming, including AI-assisted coding.
• Familiarity with software architecture, design, optimization, and maintenance.
• In addition to being a hands-on engineer, the successful applicant will develop collaborative working relationships with application development, quality assurance, product marketing, technical communications, and technical services teams across the company.

Qualifications - External

• PhD in Life Sciences or Computer Science, with 3+ years of software development experience and relevant experience specifically within the AI/ML development landscape.
• AI/ML Literacy: A strong grasp of LLM fundamentals, including tokens, temperature, top-p, and context windows.
• Experience implementing Retrieval-Augmented Generation (RAG) systems, semantic search, and vector databases.
• Prompt Engineering & Evaluation: Experience designing, optimizing, and evaluating prompts to improve AI behavior, reasoning, and response quality.
• Agentic AI Frameworks: Hands-on experience working with agentic AI frameworks such as LangChain, LangGraph, and DeepAgents, involving tool calling, reasoning loops, memory management, skills orchestration, guardrails, and multi-step task execution.
• Experience using BIOVIA Pipeline Pilot or similar chemical information software.
• Experience with Model Context Protocol (MCP).
• Familiarity with the use cases, processes, and methods used within the pharmaceutical and biotech industries, as well as by cheminformaticists and computational chemists, is a major plus.
• Broad technical knowledge of object-oriented design and implementation, design patterns, and software development methodologies.
• Excellent written and verbal communication skills.
• Strong analytical and organizational skills.
• Strong personal drive to learn leading-edge technologies and excel.
• Experience with Agile development methodologies such as Scrum.

Inclusion statement

In order to provide equal employment and advancement opportunities to all individuals, employment decisions at 3DS are based on merit, qualifications and abilities. 3DS is committed to a policy of non-discrimination and equal opportunity for all employees and qualified applicants without regard to race, color, religion, gender, sex (including pregnancy, childbirth or medical or common conditions related to pregnancy or childbirth), sexual orientation, gender identity, gender expression, marital status, familial status, national origin, ancestry, age (40 and above), disability, veteran status, military service, application for military service, genetic information, receipt of free medical care, or any other characteristic protected under applicable law. 3DS will make reasonable accommodations for qualified individuals with known disabilities, in accordance with applicable law. Qualified applicants with arrest or conviction records will be considered for employment in accordance with applicable state laws and local ordinances. We are committed to fair employment practices and will evaluate all candidates based on their qualifications, regardless of past arrest or conviction history.

Compensation & Benefits

Dassault Systemes offers an excellent salary with potential for bonus, commensurate with experience. Benefits include a choice of plans providing comprehensive coverage for medical, dental, vision care for employee & dependents as well as employee life, short & long term disability, tuition reimbursement, immediate 401K enrollment, 401K match (50 cents on the dollar, up to the first 8% of your eligible compensation that you contribute based on match eligibility criteria), flexible time off policy, and 10 paid holidays.

Salary Pay Transparency

Compensation for the role will be commensurate with experience. The total expected compensation range will be between $140000 and $180000, representing the base salary (or annualized salary based on estimated hourly compensation) and target bonus.