A timeline showing the expected knowledge transfer dates for all AMBIC deliverables can be found here: Deliverable Timeline 7-8-2019. This page will be updated as more deliverables are completed and made available. Please contact kschalk@g.clemson.edu if you have any questions about the deliverables described below.

Software

Three GUIs were created to facilitate the CHO bioprocesses by implementing algorithms and models to predict nutrient requirements, speciation/complexation, solubility as well as concentration levels changes in cell culture media. The GUIs also provide a platform for users to better understand CHO metabolism through genome-scale metabolic models, which may serve as guidance for future metabolic/genetic engineering works. The three GUIs created are:

  1. GUI for Genome Scale Modeling – AA prediction and media optimization
  2. Visual Minteq
  3. Nutrient Concentrate GUI
    • Test cases for this GUI can be found here: GUI-Cases

Copyrighted GUIS – Available Free to Members

  1. Metabolic Model-Based GUI for Optimizing Bioprocesses
  2. Nutrient Solubilities in Culture Media – GUI 1.0
  3. Computer Program to Predict Amino Acid Solubilities and Speciation – GUI 2.0

IP – Available for Opt In and License to Members

Smart Marble IP

An invention disclosure for the Smart Marble technology was provided to the University of Maryland. The University of Maryland filed a provisional patent and disclosed this IP to AMBIC member companies. The AMBIC IP committee was formed and is evaluating next steps in the IP and patent process. The University of Maryland is developing a paper on the Smart Marble technology developed through AMBIC funding.

Inhibitory Waste Metabolites

An invention disclosure for the inhibitory metabolites was provided to the University of Massachusetts Lowell. The University of Massachusetts is filing a provisional patent and disclosed this IP to the lead AMBIC Institution on August 27, 2019. In accordance with the AMBIC Disclosure and Licensing Process, the Lead Institution will disclose this IP to AMBIC member companies.

Papers

  • Yiqun Chen, Brian O. McConnell, Venkata Gayatri Dhara, Harnish Mukesh Naik, Chien-Ting Li, Maciek R. Antoniewicz & Michael J. Betenbaugh. An unconventional uptake rate objective function approach enhances applicability of genome-scale models for mammalian cells, NPJ Systems Biology and Applications, Volume 5, Issue 1, 2019. 10.1038/s41540-019-0103-6
  • Biotechnology and Bioengineering, 2019
  • Metabolic Engineering Communications, 2021

Proprietary Databases – Free to Members

  1. Database for Characterizing Chemical Complexations in Culture Media GUI 1.0
  2. Identification and Modulation of Substrate (Amino Acids and Carbohydrates) Degradation Products in Culture
  3. Database to Predict Amino Acid Solubilities and Speciation

Presentations

  • ACS 2018-2019
  • CCE 2018
  • ESACT 2019

Webinars

  • AMBIC Nanopore Bioinformatics Webinar – October 2019
  • Nanopore Sequencing and Methylation
  • Chemical Complexation

PI Seminars and GUI Demos at Member Companies

Free Registration at 2 Yearly AMBIC Retreats

Monthly Mentor Meetings – 28 Active Projects

Access to PowerPoints/Data for >50 Projects

Additional AMBIC Deliverables

  • Chemically Defined Reference Media 1.1
  • More than 40+ Verified Secreted Metabolites from AA Project
  • Changes in Methylation & Chromatin Stability with Passaging
  • List of HCPs Quantitatively Changing with Passaging Time
  • Markers of ER Stress and Extracellular Vesicles
  • Inhibitors of Lactate Production and Novel Glycans Identified
  • Surface Enhance Raman for Increased Sensitivity to Specific Media Components
  • Confirmed Crystallinity of Media Precipitate Using Multiple Analytical Tools
  • Purification and Characterization of pre-Mammalian Artificial Chromosome (MAC)
  • Capacity of a Kinetic Model to Describe Uptake of Nutrients at Different Concentrations