koliber biosciences

At Koliber Biosciences we are passionate about utilizing data science to accelerate biological discoveries. We offer a full range of solutions from traditional statistical analyses and data visualization to innovative machine learning and artificial intelligence systems.

Our mission is to help researchers and business leaders across a variety of biotech and healthcare sectors to incorporate powerful predictive algorithms into their everyday research and turn complex data into key insights.  

Mobirise
address

12265 World Trade Drive,
Suite G,
San Diego, CA 92128, USA

contacts

Email: info@koliberbio.com 
Phone: (858) 521-8484

links

Blue Sky Winner
AI Platform
Genetic toolkit - Lactobacillus




ML and AI

Machine Learning and Artificial Intelligence solutions

Biological data is inherently complex, expensive to generate and often prone to poor reproducibility. Leveraging innovative tools such as machine learning can help overcome the challenges with utilizing biological data to make progress on a research project. Machine learning can be utilized to build predictive models that enable pre-screening of novel variants or conditions before testing in the wet lab. Machine learning can also identify key variables that drive performance and generate novel insights. Application areas include: drug discovery, diagnostics, process / assay optimization, genome engineering and more.  

At Koliber we build custom machine learning models from biological data. We also help customers identify what and how much data to generate to achieve specific performance. We have significant domain expertise in a variety of techniques including: feature based machine learning, deep learning, data augmentation, transfer learning and explainable AI.

Ready to try machine learning but lack the team or capacity to try it? Contact us to discuss a feasibility project.

Available today.




drug discovery

AI platform for peptide drug discovery

Koliber Biosciences has developed an AI assisted peptide drug discovery platform. The platform is ideal for analysis of complex datasets derived from peptide variants that include multiple performance metrics such as activity, selectivity, solubility, and in vivo results. Two classes of encodings are available: classical peptide features such as physiochemical properties and proprietary deep learning encodings. The encodings are combined with tunable algorithms and model architectures that are suitable for datasets generated from as few as 100 peptides. The result is a system that allows the user to: 1) pinpoint the features that drive performance; 2) determine which in vitro assays predict in vivo results; 3) identify sites that are important for activity; and 4) select new variants that are most likely to have improved activity. The platform has been validated on several peptide datasets, has been funded by the National Science Foundation and is currently available for early access.   




statistics

Statistics Training and Consulting

Statistics can be overwhelming for researchers trained in biological sciences. The learning curve is steep and the training materials full of old jargon and irrelevant examples. Yet in today’s data heavy world, statistical analysis is essential to make informed decisions on which research avenues to pursue. At Koliber we flatten the learning curve by providing hands on training on datasets generated by the customer thus focusing on the relevant learning while providing an immediate benefit. The training utilizes commercial software that is easy to use and can be adopted by scientists at every level of the organization from lab associates to senior leaders.

Koliber also specializes in advanced statistical methods such as Design of Experiments and Six Sigma, methods that can be utilized for guiding efficient multi factorial experimental design and for identifying parameters that lead to robust and reproducible process or assay performance.

Ready to implement the correct statistical analyses at your organization? Contact us to discuss training or custom statistical solutions.






koliber research 

Microbiome and Probiotics Engineering

Koliber Biosciences is developing genome engineering technologies for microbiome and probiotic strains. The technology platform will enable the development of novel microbiome therapeutics, accelerate microbiome research and provide the ability to add novel functions into existing probiotic strains. The project has been funded by the National Institutes of Health NIGMS SBIR grant and resulted in a suite of vectors for engineering Lactobacillus species. We leveraged machine learning approaches to develop novel genetic control elements that enable robust performance across a broad range of species. We also developed robust methods for DNA delivery and demonstrated genome editing in several species. Contact us to learn more about early access to the genetic engineering tools. 

contact info

address:

12265 World Trade Drive, Suite G, San Diego, CA 92128, USA

phone:

(858) 521-8484

e-mail:

info@koliberbio.com

koliber biosciences news

june2020

SBIR phase 1 award - Artificial Intelligence Platform for Peptide Drug Discovery

may2020

World Trade Drive - Koliber Biosciences moves to expanded facilities - location

april2017

SBIR phase 1 award - Genetic toolkit for genome editing of the Lactobacillus genus.

november2015

SynBioBeta SF2015 - Ewa Lis, CTO presents at Syn Bio Beta in San Francisco, describes how machine learning can be used to accelerate commercialization of synthetic biology products. SynBiobeta SF 2015

- Koliber Biosciences wins BlueSkyBio Competition

- Koliber Biosciences receives $51,000 synthetic DNA credits from Twist

january2015

SBIR phase 1 award - Koliber Biosciences awarded a phase I SBIR grant from the National Science Foundation for the development of microbial capsaicin production platform. NSF Award

december2014

Bio Tech and Beyond - Koliber Biosciences joins the Bio Tech and Beyond incubator in Carlsbad, CA.

team

Ewa Lis, Ph.D.
Founder, CEO
Ewa specializes in developing features, encodings, and deep learning architectures suitable for solving biological data problems with machine learning. Prior to founding Koliber in 2014, Ewa held leadership positions at several companies including Life Technologies, Genomatica and Reveal Biosciences, where she developed innovative technologies from algorithms for pathology tissue classification to genome engineering research tools and microbially derived renewable chemicals. Ewa holds a BA in Chemistry from Cornell University and a Ph.D. in Biological Sciences from The Scripps Research Institute. 

Leonard Dieguez
Founder, CTO
Leonard specializes in software, hardware and machine learning applications for signal processing and digital communications. Leonard has developed machine learning methods for improving peptide docking performance as well as classifying constellation symbols in quadrature amplitude modulated waveforms. Leonard has over 30 years of experience leading commercial product development at companies including Kratos, L3 Harris, General Atomics, Altera (now Intel) and Xilinx. Leonard holds a BS in Electrical Engineering from University of South Florida.

Adrienne Day, Ph.D. 
Business Development
Dr. Day is the President of Blue Gum Advisors LLC, a consulting firm focused on providing business development support to the life science industry. She is a seasoned business development professional with more than 30 years of experience in the biotechnology and biopharmaceutical industries. Dr. Day has hands-on operational and executive management experience in the non-profit, for-profit and startup environments. Most recently she was Senior Director of Business Development for Ferring Pharmaceuticals. Prior to that Dr. Day ran a successful consulting practice. She has previously served as Vice President of Business Development at what is now the Sanford Burnham Prebys Medical Discovery Institute, Vice President of Business Development Conforma Therapeutics, Senior Director of Business Development at Molecumetics Ltd., Associate Director of Corporate Development at Ligand Pharmaceuticals. She was Ligand Pharmaceuticals’ first Project Manager, and began her biotechnology career at Invitrogen Corporation where she held various positions. Dr. Day received her B.Sc., B.Sc. Honors, and Ph.D. degrees in Biochemistry from the University of Adelaide, Australia. She completed her postdoctoral training at the University of Southern California and the La Jolla Cancer Research Foundation.

Soumitra Ghosh, Ph.D. 
Scientific Advisor
Soumitra Ghosh is a biopharmaceutical industry consultant and entrepreneur with extensive experience in drug development, technology licensing and in formulating and implementing R&D strategy. He is a co-founder of Avexegen Therapeutics, Abvance Therapeutics and Aquros Bio, start-ups focused on GI indications, diabetes and urological disorders, respectively. His experience includes R&D leadership positions at Amylin Pharmaceuticals and MitoKor, where he led research programs for the development of small molecule, peptide and protein-based drug candidates for the treatment of metabolic diseases and CNS disorders. Multiple drug candidates were advanced to the clinic during his tenure, or were partnered with companies for clinical development. He has been a recipient of several SBIR and California state grants for his work in the industry. He received his MS and Ph.D. degrees in Chemistry from the Indian Institute of Technology and the University of Chicago, and conducted his post-doctoral work at the Rockefeller University in New York.

Billyana Tsvetanova, Ph.D.
Principal Scientist
Billyana is Principal Scientist at Koliber Biosciences where she leads immune cell assay development. Billyana has 20 years of experience in a broad range of research areas including genomics, synthetic biology, immunology, biochemistry and mass spectrometry. She has led R&D teams and managed complex projects that resulted in commercialization of numerous research tools such as multi-fragment DNA assembly kit - GENEART® Seamless Cloning and Assembly Kit (Life Technologies), Gibson Assembly® HiFi Kit (Synthetic Genomics) and custom library prep reagents for next-gen sequencing (Illumina). She served on the faculty of Mira Costa Community College where she developed the biomanufacturing curriculum for training the next generation of lab associates supporting the San Diego biotechnology industry. Billyana received her B.S. and M.S. degrees from University of Sofia, Ph.D. degree from State University of New York and her postdoctoral training from The Scripps Research Institute. 

Keith Klarer
Software Advisor
Keith has over thirty years leading product development across the spectrum of software and hardware systems design, with a focus on high performance computing and complex systems. Twenty years were in executive management positions. He has been founder or co-founder of four successful companies, and led the development of award winning products: Red Herring Top 100 Global Company, Advanced Telecommunications Computer Architecture Winner. Specialties: technology start-ups, advanced engineering, team building, R&D, new product operations management.

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