DOE for Media Optimization

Why DOE with Synthace?

Media optimization is a necessary part of optimized cell growth. With so many factors playing a part, traditional one-factor-at-a-time (OFAT) methods can require a multitude of optimization tests, costing time and resources.

Flexibility, allowing complex experimental design

Design of Experiments (DOE) cuts down on experimental runs by testing multiple factors and their interactions simultaneously. Synthace translates multi-factorial experimental designs into executable steps for your automation devices, allowing for complex experiments and removing the need for expert users.

Translate

Synthace makes translating your DOE design into actual instructions for your device easy

Trace

Synthace’s methods and runs are fully traceable for easy review and comparison

Merge

Synthace merges data acquisition and structuring from analytical devices for faster analysis

Pain points and current processes

  • Current practices

    With Synthace

  • Experiment inputs

    Current practices

    • Automating DOE designs can be tedious and difficult, requiring expert users
    • Daunting programming often leads to resorting to using less effective OFAT methods

    With Synthace

    • Synthace converts your DOE design to liquid handling steps making it more approachable
    • Undertake more complex experimental designs, including additional media factors for greater combinations
  • Experiment planning

    Current practices

    • Small changes in your DOE design can result in time-consuming reprogramming
    • Leads to resorting to simpler experiments that are more error-prone and test fewer factors

    With Synthace

    • Plan your experiment remotely, from anywhere
    • Dynamically reprogram liquid handlers by simply uploading new DOE designs
    • Share flexible workflows with team members
  • Experiment execution

    Current practices

    • Media optimization requires precise intermediate dilution steps to produce desired concentrations
    • Manual calculations and execution result in errors and variation between samples

    With Synthace

    • Synthace automatically calculates all dilution steps required for desired media concentrations
    • Synthace handles the execution of the experiment, providing more than just a worklist
  • Data aggregation

    Current practices

    • Design and device output data must be manually matched
    • Optimization experiments can result in high sample numbers which must be tracked

    With Synthace

    • Synthace gathers all data and design files all in one place
  • Data analysis

    Current practices

    • No easy way to link with peripheral hardware

    With Synthace

    • Synthace exports your DOE design in accessible formats, allowing you to easily record results
    • Synthace links to certain additional hardware including plate readers
  • Experiment outputs

    Current practices

    • Data is often structured manually from diverse sources
    • Difficult to compare data and methods with previous runs

    With Synthace

    • All runs are stored in cloud for easy comparisons between runs

Protocol walkthrough

Basic concepts

Translate human-readable actions into machine instructions

Simple building blocks...

Elements are a key concept of the Synthace platform. They translate human readable actions into machine instructions. You can define how the experiment will be performed through the element input parameters.

Elements form the visual user interface to Synthace’s planning engine. Synthace interprets your requirements and translates these into complex robot instructions. Input volumes are also calculated and the labware needed is determined.

...translated into complex robot instructions

You can create workflows in Synthace by connecting elements together to specify the flow of physical materials and information.

A simple workflow example is connecting an element where liquids and their properties are defined (e.g liquid names, concentrations, pH, and so on) with an element that aliquots these liquids onto a plate as desired.

Define experiment

Easily define and modify your experiment

Flexibly plan your DOE media optimization workflow

Upload your design parameters in Synthace’s workflow builder. 

Review all experimental steps in silico

Synthace converts your workflow into readable steps for all your devices, automatically creating all necessary intermediate liquids.

All files in one place

Exported experimental data, plate files, device instructions and reagents required can be found in Synthace’s execution details page, saving time to plan future experiments.

Preview in silico

Preview your runs in detail at your desk

Synthace’s execution preview shows a layout of your device, and clearly shows where labware needs to be placed and the amount and location of your reagents.

The preview also shows every liquid handling action in order of execution with a useful step-by-step time estimate. This minimizes the chances of errors, and gives you an immediate estimate of walk-away time. Hovering over individual transfers will indicate the selected liquid handling policies. 

Output

Data structuring and export

Once the experiment has completed, the user’s data is securely sent back to Synthace. Plate reader data is aligned with the sample liquid handling steps, and normalized for pathlength and blank corrected where appropriate.

Introducing Synthace, the world’s most powerful software platform for performing biological experiments

​​Intelligent software for the dynamic use of laboratory automation

Sophisticated experiments made simple

FAQs

Synthace for DOE: Media Optimization is available on:

  • Tecan's Freedom EVO®
  • Hamilton's Microlab® STAR and STARlet
  • Gilson's PIPETMAX®
  • FORMULATRIX®'s MANTIS®
  • SPT Labtech's dragonfly® discovery

Synthace provides a wide range of integration options for analytical instruments. We have direct integration with most multimode plate readers commonly used. If you’d like to enquire about specific processes for your lab, please drop us an email or use the “Request a demo” button above.

The Synthace planning engine parses the high-level inputs specified in your workflow, including the experimental design, selected labware and deck layout. The planning engine converts these instructions into low-level instructions such as the liquid handling steps and the exact labware positions on your predefined deck layout.

Yes, custom deck layouts can be chosen in Synthace. The user can define multiple deck configurations for the same liquid handler mode.

SynthaceHub automatically sends log and configuration files to the cloud for storage in your organization’s private data repository in Synthace from the liquid handler’s native software.

Although calendar integrations are not yet available in Synthace, the estimated run times as calculated by Synthace’s planning engine provide an accurate timing for you to ensure that you have booked enough time on your desired devices to execute your experiments.

Synthace will work out the changes necessary to implement your workflow. You simply need to upload your deck configuration and re-simulate — Synthace will use your new worktable layout to determine the necessary instructions.

Synthace comes with its own library of different liquid handling policies for all types of liquids. You can select different liquid handling policies for each of the liquid handling steps. Different samples can have different policies, and these policies can be linked to your liquid classes on certain liquid handling devices.

Yes, Synthace’s cherry picker is one example of that. Another example would be DOE runs with hard to change factors where we would need to run across two workflows.

Experimental results can be searched and accessed by everyone in your group/organization who has an account in Synthace. If you would like to discuss access control and data security in more detail, please drop us an email or use the “Request a demo” button above.

Trusted by

We were founded by a team of biologists in 2011 as a bio-process service provider, optimizing the existing bio-processes of our clients using a multi-factorial experimental approach. We used automated robotic equipment to run our high-dimensional, complex experiments.

Synthace has helped us improve our business and think outside the box, and its platform has allowed us to do many things we previously couldn’t” André Raposo Group Lead - Computer-Aided Biology (CAB) group at Oxford Biomedica
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