Cyrus delivers the most scientifically advanced, powerful, and easy-to-use protein structure prediction and protein design software available. Cyrus is based primarily on the Rosetta molecular modeling and design toolkit first developed at the lab of co-founder David Baker. We are passionate about scientific excellence, operational excellence, and user success.

OUR STORY

Computational biology has made huge leaps forward in the last decade, with the first designs of biologically active proteins by software. This software, Rosetta, was named one of the top-10 scientific breakthroughs of 2016. Rosetta-designed proteins can treat brain cancer, break down gluten in Celiac Disease patients, and block a broad range of flu strains. The Cyrus founders were experienced in using and developing Rosetta at David Baker’s lab. While trying to help others who struggled to learn how to use these powerful tools, they realized that a new interface was needed to shorten the learning curve and bring Rosetta to the thousands of scientists and companies who need it.

Thus Cyrus was born. We sought a name to signify the fact that Cyrus Bench® carries out tasks that were previously thought to be impossible. Cyrus Levinthal’s paradox pointed out that protein structure prediction appears to be an impossible problem to compute – Cyrus software shows a way out of the paradox, allowing our users to do the impossible.

OUR GOALS

Scientific Excellence

Cyrus was founded by scientists and driven by our desire to constantly be at the leading edge of computational biology, with experimentally proven computational tools, like homology modeling. This means that we implement algorithms from a variety of sources, starting with the Rosetta software toolkit and its associated software dependencies, and that we focus on constant methodological improvement and rigorous, peer-reviewed scientific benchmarking.

Operational Excellence

Cyrus is committed to providing the most powerful and reliable bio-molecular computation resource available. We partner with industry-leading firms to provide vast amounts of compute, high uptime, data security, and efficient use of computational resources for our customers. Our team is up-to-the-minute on modern cloud operations, and we are passionate about continued improvement as these tools and resources develop.

User Success

The most powerful algorithms and hundreds of thousands of computers are useless without a set of support resources to help our customers achieve their scientific goals. Our ultimate aim is not only to provide a beautiful rosetta interface, but to create customer success by delivering powerful and delightful tools and supporting their use.

Cyrus was created in part to provide these support resources efficiently and professionally. That means a custom-designed GUI, instructional videos, telephone support, and on-site coaching by industry-leading scientists. Your scientific success — solving new protein structures, creating more active mutants, designing novel protein binding activities, and more — is our goal.

OUR TEAM

Lucas Nivon

Chief Executive Officer

Lucas is trained in computational biophysics and protein engineering. Prior to Cyrus he was a Translational Investigator & Senior Fellow at the Baker lab at UW, developing small-molecule binding proteins and protein design algorithms. Lucas is the founder of PedalAnywhere, an online-only bicycle rental company. Lucas’ scientific work includes a patented computationally designed enzyme, an RNA-dynamics-modeling software toolkit (built during his Ph.D. with Eugene Shakhnovich and Xiaowei Zhuang at Harvard), and algorithm optimization for automation of computational protein design. Harvard A.B., Biochemical Sciences (summa cum laude and Goldwater Scholar) and Ph.D., Biophysics; Hertz Fellow.

Yifan Song

Chief Science Officer

Yifan has been at the forefront of computational protein modeling and biophysics in a variety of fields. Yifan was the lead developer on core Rosetta protein modeling functionality, and the project manager at CCNY for an electrostatics calculation software package, MCCE. He pioneered a number of technical refinements in protein structure energy evaluation currently used in Rosetta. Yifan is a leader in computational protein modeling, with experience ranging from ab initio protein structure prediction to crystallography to protein-protein interaction design and over 20 scientific publications in leading journals. He is a former Translational Investigator & Research Scientist at the Baker lab at the University of Washington. Yifan completed a B.S. in Physics at Fudan University and earned his Ph.D. in Physics at CCNY.

Javier Castellanos

Chief Technical Officer

Javier has over 15 years of experience in scientific software development, with deep expertise in Python, C++, High-performance computing, and cloud infrastructure. Prior to Cyrus he was a Translational Investigator at the UW IPD and a Graduate Student the Baker lab at UW. His scientific research was in computational protein design, focusing on the creation of non-natural protein scaffolds. Javier designed software pipeline tools for protein design broadly used in the Baker lab for distributing computing jobs across a large infrastructure. Javier built the Cyrus prototype software deployment and architected and lead development of the current Cyrus Bench platform. Javier earned his Bachelors in Biochemistry at the University of Chile and his Ph.D. in Biomolecular Structure and Design at UW.

David Baker

Scientific Co-Founder & Advisor

David is a Professor at the University of Washington and an HHMI Investigator. David is the originator of the Rosetta software package and is responsible for numerous scientific breakthroughs and “firsts” in computational modeling of protein structures and design of novel proteins. Highlights include:
1) The first reliable prediction of small-protein 3D structures.
2) The design of the first fully de novo protein structure in a computer.
3) The design of the first protein-protein binding interactions in a computer
4) The creation of a specific ligand-binding protein by computational methods.
5) David has published over 330 peer-reviewed scientific papers, including over 20 in Science and Nature alone.

Rosario Caltabiano

Executive VP of Sales

Rosario is a fervent customer advocate and successful professional with a high level of integrity. He brings over fifteen years of experience in sales and management with a consistent and successful growth track record, having worked in small and large companies, including Accelrys, IBM, and Interactive Supercomputing. His strong focus on bringing computationally intensive, scientific software to R&D organizations is a winning formula for Cyrus Biotechnology and its valued customers.
At Accelrys, a leading provider of enterprise scientific software to the Biotech, Chemical and Pharmaceutical industries, Rosario more than doubled his business in just three years, and was the top performer company-wide in 2012. At Interactive Supercomputing, a start-up offering parallel computing software, Rosario’s team acquired 50 new US customers in just two years. At IBM, Alliant Computer Systems and SGI, Rosario had strong exposure to in-silico molecular simulation software and collaborated with scientists and researchers in various technical and sales roles.
He earned a Master’s Degree, Summa Cum Laude, in Electrical Engineering from Universita` degli Studi di Napoli, Italy.

Jake Litwicki

VP Engineering

Jake is a seasoned software engineer and AWS Certified Solutions Architect with experience delivering an array of software solutions for organizations ranging from startups through large organizations including Saint Lukes, Charles Schwab, Corning Museum of Glass and others.

Most recently Jake was the leader of the transformation of Sterling Talent Solutions to a modern DevOps engineering culture across the entire Bellevue office of more than 50 software engineers. As an engineering leader with a passion for software Jake has over 15 years of experience managing software organizations by building and managing teams while still being an active contributor from an architectural and strategic perspective.

David Pearlman

Director of Customer Experience and Senior Fellow

David Pearlman is a pioneer in the field of computational chemistry. He received the first Ph.D. at the University of California, Berkeley to focus on modern computational studies of macromolecules. After graduation, he became a member of the founding team at Biosym Technologies (later Accelrys/Biovia), heading the Discover platform. Later, Dr. Pearlman did post-doctoral work with Peter Kollman at UCSF and was for many years the first author of the widely-used AMBER program. He also published a string of seminal papers in the field of free energy perturbation (FEP). From UCSF, Dr. Pearlman became an early employee of Vertex Pharmaceuticals, where he continued to work and publish on free energy methods, as well on new approaches to NMR refinement, de novo ligand design and ligand scoring. From Vertex, Dr. Pearlman spent a few years providing direction for computational chemistry at The Stanley Center of the Broad Institute before coming to Schrodinger in 2010, where he oversaw the ground-up design and implementation of the biologics software platform that became BioLuminate. In 2017 Dr. Pearlman joined Cyrus Biotechnology as a Senior Fellow and Director of Customer Experience.

Chad Waite

Board Member

Chad is a Managing Director at OVP Venture Partners, where he has raised seven funds, with $750M currently under management. Chad has 28 years of experience investing across sectors as diverse as IT, clean tech, and digital biology. The firm has invested in over 130 companies, with 53 exits, including 23 IPOs. Notable successes include WatchGuard, Seattle Genetics, and Rosetta Inpharmatics.
Chad‘s additional investments include Accelerator, Adapx, Airgo Networks, Boston Beer, CellPro, Complete Genomics, Corixa, Loudeye Technologies, NanoString, SignalSoft, Verdezyne, Verity. He currently serves on the Board of Directors of Adapx, NanoString, NexGenia, Talyst and Verdezyne. Prior to joining OVP in 1987, Chad was a General Partner at Hambrecht & Quist Venture Partners where he focused on investments in IT and life sciences. Prior to H&Q, he was in marketing and sales management at Cobe Laboratories, Inc. in its cardiovascular medical products division. Chad is a member of the Oregon Health Sciences University (OHSU) BSIF Advisory Board and a member of the University of Washington’s Technology Transfer Advisory Board.

Gus Tai

Board Member

Gus Tai is a general partner at Trinity Ventures, where he specializes in funding early-stage companies and supporting entrepreneurs at the time of company formation. A Forbes Midas List recipient, Gus has backed a number of pioneering companies including Blue Nile (IPO), Bulletproof Coffee, Callisto Media, Markforged, 10% Happier, MaxPoint (IPO), Photobucket (acquired by Fox Interactive Media), Trion Worlds, Truaxis (acquired by MasterCard) and Zulily (IPO). Gus holds a BA in Applied Mathematics from Harvard University and a MS and MBA from MIT’s Department of Materials Science and Engineering and Sloan School of Management, respectively.

Eric Bell

Board Member

Eric is Managing Director of SpringRock Ventures. Before co-founding SpringRock, Eric headed the health care investment effort for the Invention Development Fund at Intellectual Ventures (IV). Prior to IV, Eric had spent most of his career in venture capital; he was an investment professional responsible for early and mid-stage health care investments at Vulcan Capital and at Tredegar Investments. Eric has also been Director of Business Development with Corixa Corporation, a biotechnology company in Seattle, WA. Prior to business school, Eric had worked for a start-up medical device company developing a home hemodialysis machine, Aksys, Ltd. (AKSY). Eric has an M.B.A. from the Wharton School at the University of Pennsylvania, an M.S.E. in Biomedical Engineering from the University of Pennsylvania, and a B.S. in Mechanical Engineering from Worcester Polytechnic Institute.

Eric Larsen

Board Observer

Eric Larsen is an experienced entrepreneur and executive in finance, technology, and business operations. He began his career at Andersen Consulting, led the technology team at Quellos , and subsequently held a senior role in the Aladdin Product Group at BlackRock. He is currently an active investor and Entrepreneur in Residence at the UW. He works as an advisor with emerging Northwest companies seeking to scale and has led multiple fund raising rounds.
At Quellos he built the world-class research, operations and customer management system Quasar, a key strategic advantage for Quellos, scaling from 17 employees with $324M in assets to 350 employees and $25B. He also led Financial Risk Management and advised emerging hedge funds via Quellos Financial Ventures. BlackRock, the largest asset manager in the world with over $4 trillion in AUM, acquired Quellos’ hedge fund business in 2007 and Eric lead the development of Quasar into BlackRock’s internal core Aladdin CRM with over 5000 users. At BlackRock Eric served on the Global Operating Committee, oversaw the global redesign of BlackRock’s websites, and launched the Client Analytics group in 2014.
Eric earned CFA designation in 2001, his MBA with honors in Finance from DePaul University, and his undergraduate degree at University of Illinois in Electrical Engineering.

Carl Gordon

Board Observer

Carl L. Gordon, Ph.D., CFA, is a founding Partner and Co-Head of Global Private Equity at OrbiMed. He was a senior biotechnology analyst at Mehta and Isaly from 1995 to 1997. He was a Fellow at The Rockefeller University from 1993 to 1995. Carl received a Ph.D. in Molecular Biology from the Massachusetts Institute of Technology (1993) and a Bachelor of Arts Degree from Harvard College (1987). Carl was included on the Forbes Midas List of top venture capital investors numerous times from 2014 to 2018.

SCIENTIFIC ADVISORY BOARD

Jeff Gray

Scientific Advisor

Jeffrey J. Gray received his B.S.E. in chemical engineering at the University of Michigan (’94) and his Ph.D. in chemical engineering at the University of Texas at Austin. He completed post-doctoral training researching protein-protein docking at the University of Washington. In 2002 he joined the Department of Chemical and Biomolecular Engineering at the Johns Hopkins University as an assistant professor and to full Professor of Chemical & Biomolecular Engineering in the Whiting School of Engineering in 2014. Prof.. Gray’s research focuses on computational protein structure prediction and design, and his lab leads the development of RosettaDock, RosettaAntibody, the ROSIE web server, and the PyRosetta interactive platform for protein structure prediction and design. Gray’s work has been funded by NIH, NSF, DARPA, ACS, the Beckman Foundation, and the UCB pharmaceutical company. In 2016 Gray was elected to the College of Fellows of the American Institute of Medical and Biological Engineering (AIMBE), and he received AIChE’s David Himmelblau Award for Innovations in Computer-Based Chemical Engineering Education. Gray has received the Beckman Young Investigator Award, the Johns Hopkins Alumni Association Excellence in Teaching Award, and the National Science Foundation’s CAREER Award, and he was named the F. Stuart Hodgson Faculty Scholar. He serves on the editorial board of Proteins and the scientific advisory board of the Rosetta Design Group, and from 2005-2015 he served on the board of directors of the Ingenuity Project. He is a champion of broadening participation in science and engineering, serving as a member of the Johns Hopkins Diversity Leadership Council, the chair of the Homewood Council for Inclusive Excellence, and as the Diversity Chair of the Rosetta Commons. He is also the Director of the NSF-supported Rosetta Commons Summer Intern Program.

Gordon Ringold

Scientific Advisor

Gordon has been CEO of Quadriga BioSciences, an oncology start-up focused on developing targeted anti-cancer drugs since 2015. He is currently on the board of directors of Ardelyx, 3V Biopharma, Protein Metrics, and Okava Therapeutics. From 1997 to 2015, he served in various capacities as Co-Founder and/or CEO of Maxygen, SurroMed, Alexza, and Alavita. From 1991 to 2000, Gordon was CEO and Scientific Director of Affymax Research Institute (acquired by Glaxo in 1995) where he managed the development of novel technologies to accelerate the pace of drug discovery; prior to that he was VP and Director of the Institute for Cancer and Developmental Biology at Syntex Corporation (1986-1991). Gordon received his Ph.D. in the laboratory of Dr. Harold Varmus, before joining the Stanford University School of Medicine, Department of Pharmacology (1978-1987). While on the Stanford faculty he invented technologies for manufacturing of recombinant proteins in mammalian cells, now widely used for production of dozens of therapeutic products and received the John J. Abel Award as the best Pharmacologist in the US under the age of 35. Gordon is an alumnus of Crown College, UC Santa Cruz, 1972.