Principal Scientist, Machine Learning Flagship Pioneering IncPrincipal Scientist, Machine LearningCambridge, MA$208,000–$286,000 / yearTechnical Ownership: Own the build, scaling, benchmarking and maintenance of agentic systems that combine ML and computational biology tools (genomics,biomolecule design,literature mining,system biology, etc) which serve as end-toend systems for accelerating preclinical, translational and clinical R&D. Breadth across domains such as genomics, protein modeling/design, proteomics/mass spec, multi-omics, cheminformatics/docking/ADMET, biophysics/MD, and scientific literature mining, with the ability to connect them using LLM-based agents and agentic workflows.
Scientist II, Analytical Development MannKind CorpScientist II, Analytical DevelopmentBedford, MAMannKind Corporation is a biopharmaceutical company dedicated to transforming chronic disease care through innovative, patient‑centric solutions, developing and commercializing innovative inhaled therapeutics and drug‑device technologies aimed at addressing serious unmet needs across endocrine, cardiorenal, and orphan lung diseases. Through alternative drug formulations and delivery mechanisms, MannKind aims to bring forward differentiated, patient‑centric therapies that expand treatment options to improve outcomes across chronic and rare diseases.
Principal Scientist, TCR Optimization Moderna IncPrincipal Scientist, TCR OptimizationCambridge, MA$142,500–$256,500 / yearWe are proud to have been recognized as a Science Magazine Top Biopharma Employer, a Fast Company Best Workplace for Innovators, and a Great Place to Work in the U.S. If you want to make a difference and join a team that is changing the future of medicine, we invite you to visit modernatx.com/careers to learn more about our current opportunities. The role is well suited for a hands-on scientist who can execute complex experimental workflows, interpret multi-parameter datasets, and contribute to the generation of optimized TCR candidates with the potency, specificity, and developability required for therapeutic advancement.
Scientist I, In Vitro Pharmacology Abiologics IncScientist I, In Vitro PharmacologyBoston, MA$100,000–$126,500 / yearFlagship has been recognized twice on FORTUNE's "Change the World" list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company's annual list of the World's Most Innovative Companies. Many of these companies have addressed humanity's most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.
NewSenior Bioprocess Scientist and Training Manager Bionique ScientificSenior Bioprocess Scientist and Training ManagerChelmsford, Massachusetts$150,000–$165,000The Senior Bioprocess Scientist and Training Manager will be responsible for the day-to-day operations of the Massachusetts Training Center (MTC) including the teaching lab, applications lab, and the equipment demonstration area. Design and execute technology courses that promote the sale of AKB products and services, particularly around Planova Virus Removal Filters, BioOptimal MF-SL TFF filters, and technology used in bioprocessing applications.
NewScientist, Analytical Development and Quality Control Flagship Pioneering, Inc.Scientist, Analytical Development and Quality ControlCambridge, MA USA$96,000–$126,500 / yearThe current Flagship ecosystem comprises 41 transformative companies, including: Axcella Health (NASDAQ: AXLA), Denali Therapeutics (NASDAQ: DNLI), Evelo Biosciences (NASDAQ: EVLO), Foghorn Therapeutics, Indigo Ag, Kaleido Biosciences (NASDAQ: KLDO), Moderna (NASDAQ: MRNA), Rubius Therapeutics (NASDAQ: RUBY), Sana Biotechnology, Seres Therapeutics (NASDAQ: MCRB), and Syros Pharmaceuticals (NASDAQ: SYRS). This candidate will contribute to: building efficient system for testing samples and delivering the data; method development, optimization and qualification to support characterization of novel nucleic acid therapeutics and LNP delivery vehicles.
NewSenior Bioprocess Scientist and Training Manager Asahi Kasei Advance AmericaSenior Bioprocess Scientist and Training ManagerChelmsford, Massachusetts$150,000–$165,000The Senior Bioprocess Scientist and Training Manager will be responsible for the day-to-day operations of the Massachusetts Training Center (MTC) including the teaching lab, applications lab, and the equipment demonstration area. Design and execute technology courses that promote the sale of AKB products and services, particularly around Planova Virus Removal Filters, BioOptimal MF-SL TFF filters, and technology used in bioprocessing applications.
Senior Scientist, Optical Technologies Flagship Pioneering IncSenior Scientist, Optical TechnologiesCambridge, MA$100,000–$180,000 / yearFlagship has been recognized twice on FORTUNE's "Change the World" list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company's annual list of the World's Most Innovative Companies. Many of these companies have addressed humanity's most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.
Senior Scientist, Discovery Technologies Flagship Pioneering IncSenior Scientist, Discovery TechnologiesCambridge, MA$126,000–$181,500 / yearFlagship Labs 129 (FL129) is an early-stage biotechnology startup with an ambitious and exciting mission: to develop a technology to facilitate the data generation necessary for training the next generation of generative chemistry models to unlock the future of small molecule drug discovery. Nice to have: cheminformatics experience, on-DNA and off-DNA hit validation experience with DNA-encoded positive control and library compounds, surface display technologies, droplet-based screening and/or microfluidics, and single-cell or genomics methods.
New(Senior) Scientist, Optical Technologies Flagship Pioneering, Inc.(Senior) Scientist, Optical TechnologiesCambridge, MA USA$100,000–$180,000 / yearFlagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Many of these companies have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.
New(Senior) Scientist, Agentic Systems for Pipeline Strategy Flagship Pioneering, Inc.(Senior) Scientist, Agentic Systems for Pipeline StrategyCambridge, MA USA$115,000–$209,000 / yearThis role will serve as PI's in-house expert in clinical and commercial strategy, and will lead the codification of therapeutic pipeline strategy as agentic capabilities: translating the judgment that today lives in the heads of senior strategic and translational leaders into autonomous systems that identify, evaluate, and prioritize opportunities to create new medicines at a level of scale and rigor that humans alone cannot achieve. . Own the "legitimate patient need" problem end-to-end: define what it means for an agentic tool to identify and value a real, underserved patient need, what a product that addresses it looks like, and build the evaluations, ground-truth sets, and feedback loops that make agent outputs trustworthy enough to inform pipeline decisions. .
New(Senior) Scientist, Multimodal Biological Reasoning Flagship Pioneering, Inc.(Senior) Scientist, Multimodal Biological ReasoningCambridge, MA USA$136,000–$264,000 / yearFlagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Pioneering Intelligence is seeking a Senior Scientist for Flagship's ambitious efforts to build polyintelligent AI systems that unify human scientific expertise, machine intelligence, and nature’s biological signals into multi-modal, multi-scale reasoning engines for biology.
New(Senior) Scientist, Computational Neuroscience Flagship Pioneering, Inc.(Senior) Scientist, Computational NeuroscienceCambridge, MA USA$132,000–$259,000 / yearFlagship has been recognized twice on FORTUNE’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies, and has been twice named to Fast Company’s annual list of the World’s Most Innovative Companies. Many of the companies Flagship has founded have addressed humanity’s most urgent challenges: vaccinating billions of people against COVID-19, curing intractable diseases, improving human health, preempting illness, and feeding the world by improving the resiliency and sustainability of agriculture.
NewPrincipal Scientist, Machine Learning - Multimodal Biological Reasoning Flagship Pioneering, Inc.Principal Scientist, Machine Learning - Multimodal Biological ReasoningCambridge, MA USA$216,000–$297,000 / yearSource and shape portfolio use cases: interface with Flagship teams and portfolio company end-users to identify use cases, source data assets, define success criteria, and create end-user feedback loops for reasoning engines that are scientifically meaningful, tractable, and answer high-value questions with real world application. Guide technical architecture through a biological lens: guide multi-modal, multi-scale model design and ensure the system can ingest and reason over modalities relevant to mechanism-of-action reasoning, target discovery, perturbation biology, pathway reasoning, protein function, and autonomous discovery workflows.
New(Senior) Scientist, Machine Learning Flagship Pioneering, Inc.(Senior) Scientist, Machine LearningCambridge, MA USA$180,000–$258,500 / yearExperience developing rigorous model evaluation frameworks, benchmarks, and validation strategies for molecular ML or scientific machine learning applications and an ability to curate, clean, integrate, and analyze complex, large-scale scientific datasets from multiple sources. Develop scalable featurization and modeling pipelines for large molecular datasets, including quantum chemistry outputs, conformer ensembles, protein-ligand interaction data, covalent reactivity data, and experimental chemoproteomics data.
NewSr. Principal Scientist / Director, DMPK & Bioanalytical Sciences Flagship Pioneering, Inc.Sr. Principal Scientist / Director, DMPK & Bioanalytical SciencesCambridge, MA USA$179,000–$236,000 / yearThe company’s initial therapeutic programs are designed to restore full-length protein production in diseases caused by premature termination codons (PTCs), collectively referred to as Stop Codon Disease, which affects approximately 10% of people with a rare genetic disease. Reporting to the Chief Scientific Officer, this role leads DMPK and bioanalytical strategy across nonclinical and clinical programs, operating as a hands-on scientific leader.
NewPrincipal Scientist, Machine Learning Flagship Pioneering, Inc.Principal Scientist, Machine LearningCambridge, MA USA$208,000–$286,000 / yearBreadth across domains such as genomics, protein modeling/design, proteomics/mass spec, multi-omics, cheminformatics/docking/ADMET, biophysics/MD, and scientific literature mining, with the ability to connect them using LLM-based agents and agentic workflows. We are seeking a Principal Scientist (Embedded ML/Computational) to lead AI/ML and computational projects that accelerate pharmaceutical R&D across the preclinical, translational, and clinical continuum, working closely with Pioneering Medicines (PM) and across Flagship’s platform companies as part of the company origination process.
NewSenior Scientist, Immunology Flagship Pioneering, Inc.Senior Scientist, ImmunologyCambridge, MA USA$126,000–$181,500 / yearThese companies include Moderna (MRNA), Syros Pharmaceuticals (SYRS), Seres Therapeutics (NASDAQ:MCRB), Generate Biomedicines, Tessera Tx, Evelo Biosciences (EVLO), and Indigo Agriculture. Independently design and execute complex in vitro assays to evaluate CAR-T cell function, including multi-color flow cytometry, cytotoxicity assays and other functional readouts.
Senior Scientist, Immunology Flagship Pioneering IncSenior Scientist, ImmunologyCambridge, MA$126,000–$181,500 / yearThese companies include Moderna (MRNA), Syros Pharmaceuticals (SYRS), Seres Therapeutics (NASDAQ:MCRB), Generate Biomedicines, Tessera Tx, Evelo Biosciences (EVLO), and Indigo Agriculture. Company Summary: Serif Biomedicines is a privately held, early-stage biotechnology company developing a novel approach to gene therapy that can address currently untreatable diseases.
AI Research Scientist - PhD - AI Trainer MercorAI Research Scientist - PhD - AI TrainerBoston, MassachusettsRemote$66–$84 / hourFor details about the interview process and platform information, please check: https://talent.docs.mercor.com/welcome. Strong command of graduate-level CS theory , algorithms , systems design , and/or machine learning .