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Artificial Intelligence Scientist

Orchestrating gene expression — a faster route to market Full transcriptome characterization of drug candidates offers a complete profile of opportunities and risks.

Transcripta Bio

Employee count: 11-50

United States only

Overview

Rarebase is an early-stage biotechnology public benefit corporation based in Palo Alto, California working to advance personalized medicine for the thousands of genetic diseases that have no effective treatments. We operate at the intersection of technology and biology, collaborating closely with patient communities to ensure that drug discovery and development is aligned with our shared goals - to bring effective treatments to the clinic as quickly and safely as possible.

Our Function™ drug and target discovery platform integrates cellular modeling of disease with functional genomics, high throughput screening, high content imaging and computational biology to identify molecules that address the underlying biology of genetic diseases. To support Function’s rapid growth, we are building a next-generation automated lab and are recruiting a San Francisco Bay Area-based scientific team to be intimately involved in its development.

Rarebase is backed by top-tier institutional investors, pharma and biotech angel investors, families personally affected by rare disease, and others that truly care about our mission to re-invent therapeutic development for genetic diseases. Our advisors are leaders in the biotech and genetic disease community.

The Opportunity

We’re looking for an Artificial Intelligence Scientist to lead the development of new AI systems to predict therapies for rare diseases, and assist in the design, execution and scale-up of an optimized experimental-computational platform identifying compounds for pediatric neurological disorders, among others.

The ideal candidate will have experience with existing and emerging artificial intelligence algorithms and possess the skills to quickly develop approaches for new applications.

This individual in this role will work closely with the broader discovery team of computational biologists, data engineers and scientists to build and optimize the analysis and modeling pipeline to support our work.

As an early member of Rarebase’s computational biology team, you will be joining a biotech startup that has long term stability but yet is very much in formation, providing many opportunities for significant growth and impact. You will also work alongside a multidisciplinary team and an outstanding team of scientists focused on conducting inventive and innovative science that will lead to the discovery of novel medicines.

What you’ll do

  • Apply your expertise with AI and machine learning to develop robust, validated predictive models of therapeutic response from diverse biological datasets

  • Create novel pipelines and/or algorithms to identify optimal therapies

  • Contribute creatively to the company’s strategy, helping drive new discovery for rare diseases

  • Champion ideas for new approaches to prediction and process automation

  • Collaborate closely with the broader computational team including bioinformatics scientists, computer vision / image specialists, computational neuroscientists, and data engineers, and the science team (neuroscientists, high-throughput biologists, clinical design experts)

  • Communicate data and scientific results to both internal and external audiences with a high degree of sophistication.

What you’ll bring

  • PhD in Computer Science, Data Science, Electrical Engineering, Computational Biology, Bioengineering, Systems Engineering, or related disciplines

  • 5+ years of hands-on experience working with AI methods in an industrial, clinical or academic setting

  • Track record of developing and implementing novel AI algorithms

  • Track record of handling mixed, very high-dimensional data types (e.g., time-series, images, sequencing data, continuous/categorical, meta-data)

  • Track record of versatile programming experience and tool design

  • Experience with life-long learning approaches

  • Experience programming in Python and ability to quickly learn new languages and tools

  • Knowledgeable about version control, code documentation and best practices

  • Experience with Explainable AI (XAI), FAIR practices, and automating the design of test/training sets a plus

  • Experience mining and integrating databases and developing data visualizations a plus

  • Experience working in therapeutic discovery, rare diseases, developmental biology or neuroscience is a plus

  • Excellent communication and interpersonal skills with an ability to work both independently and in a team environment

  • A relentless drive and curiosity coupled with great resilience and adaptability

What we offer

  • An opportunity to work closely with a cutting-edge, interdisciplinary technology team and patient organizations on translational research

  • Premium health and dental insurance

  • Competitive salary and equity in a growing, well-funded startup

  • Generous vacation policy

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Job type

Full Time

Experience level

Senior

Location requirements

Hiring timezones

Worldwide

About Transcripta Bio

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Orchestrating gene expression — a faster route to market

Full transcriptome characterization of drug candidates offers a complete profile of opportunities and risks.

Transcripta’s screening platform and Conductor AI predictive model unlock the value of gene expression to discover and qualify novel candidates.

Our Drug-Gene Atlas is the missing link between the worlds of molecular chemistry and the cellular transcriptome

Transcripta has the Rosetta Stone to systematically decode the rules by which drugs affect the expression of genes within the human body. We can discover and de-risk novel therapies on repeat, bringing them to market years faster and with less risk than conventional discovery methods.

Surveying a drug’s entire therapeutic target space in a single shot

Our proprietary FUNCTION-seq assay is optimized for high-throughput characterization of the full human transcriptome. With measurements of 20,000 genes per experimental condition, it provides unprecedented information about the biological effects of every drug candidate.

Biological signatures of efficacy, off-target activity, impact on pathways, and toxicity profiles are readily available simultaneously, providing clarity and speed in decision making. As an unbiased assay, FUNCTION-seq is like testing a drug against all targets simultaneously, making it an ideal assay to find new applications of existing compounds and to deeply characterize novel compounds.

Predicting gene expression from molecular structure

Our Conductor AI modeling suite predicts gene expression changes caused by compounds based on their molecular structure. First, we use Conductor AI to execute billions-scale virtual screening campaigns. Then we identify structures that modulate gene expression toward desired transcriptomic signatures. Finally, we synthesize the compounds and confirm them in our lab.

Throughout, we optimize for molecules with therapeutic effects while also predicting off-target activity and toxicity markers. Our predictive transcriptomic approach quantifies biological risk factors early in discovery, complementing physiochemical property prediction. By directly predicting changes in gene expression, Conductor AI is able to illuminate diverse chemical structures with therapeutic potential, enabling faster and broader exploration of chemical space to discover favorable molecules.

Unprecedented Speed & Scale

Our Drug-Gene Atlas superpowers drug discovery and time to market. We screen compounds in our high-throughput lab across the whole transcriptome with parallel discovery and full profiles of every compound. These profiles surface risk factors like off-target activity and toxicity preemptively, providing an opportunity to optimize around these hazards.

Then in virtual screening with Conductor AI, novel compounds can be predicted where benefits are dialed in and risks are screened out.

Our dataset creates a more efficient discovery pipeline, integrating with data sources to identify fast paths to market including genetically-defined rare and orphan designated indications. And our approach extends to transcriptional repression and other modalities, identifying differentiated approaches to go after high-priority targets and diseases in larger disease areas. The result is that Transcripta can discover dozens of treatments at 10X capital efficiency and with higher certainty.

A faster path to the clinic begins at Transcripta.

Employee benefits

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Healthcare benefits

Premium health, dental, and vision insurance

Equity benefits

Competitive salary and equity in a growing, well-funded startup

Generous vacation

Generous vacation policy, with company shut down between Christmas and New Years

Company retreats

Based in California, we are building this team remote-first – after the pandemic we will offer frequent team off-sites

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Transcripta Bio

Company size

11-50

Founded in

2020

Chief executive officer

Onno Faber

Employees live in

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