Design-Build-Test-Learn with JMP
Design of Experiments (DoE)
- Determine the relationship between factors affecting a process through multi-factor experimentation
- Find the vital few influential factors easily from many potential ones
- Optimize factors to maximize, minimize or match target of a response
Modelling
- Use machine learning tools such as neural networks and bootstrap forest to derive a statistical model
- Visualize the model in an interactive graph and predict future results
Statistical Analysis
- Analyze your data with visual and interactive graph
- Perform statistical tests such as ANOVA, t-tests, and non-parametric tests
Videos: Why DoE is superior to traditional OFAT (One Factor At a Time) approaches.
Design of Experiments (DoE) is all about maximizing your understanding for the minimum resource. This video is specifically tailored for biologists to fine-tune expression levels of their genetic constructs with DoE and apply DoE in their research.
Design of Experiments (DoE) will become more powerful and important with the increasing capability to automate lab sciences. In this video, we focus on the application of DoE for media optimization through a relevant case study from the literature.
In this video, we take a look at the application of Design of Experiments (DoE) in bioprocess development. DoE can be used to discern the interdependencies of genetic and environmental factors early on. This reduces time, cost, and the number of experiments.
iGEM Teams Usage References
The University of Sheffield - iGEM 2022
The ultimate motivation for rEvolver was to make directed evolution a feasible means of protein optimization for smaller labs with finite resources and time.
In facilitating automated protein evolution, rEvolver allows users to devote their time to other areas of their work - pushing forward what is achievable in the time constraints of a summer project.
Learn more about how rEvolver used JMP software
The University of Warwick - iGEM 2022
Pyrethroids are commonly used to combat aphid pests, making up 84% of all insecticides used for agriculture within the UK. However, they are highly toxic to bees, fish, and aquatic invertebrates.
In the interest of protecting local ecosystems and developing low-cost pesticide in-field testing, we took an integrated and dynamic approach utilizing synthetic biology.
Learn more about how PyRe used JMP software
The University of Newcastle - iGEM 2018
The Alternative Roots project developed an endophytic bacterium as a synthetic biology chassis organism. Endophytes are micro-organisms that live within plant tissues without detrimental impact on their host.
In developing a benign plant-colonising chassis there is the possibility of developing novel mechanisms for beneficial soil microbiome manipulation without genetically modified crops.
Learn more about how Alternative Roots used JMP software
The University of Manchester - iGEM 2017
The use of phosphate as a fertiliser is essential for maximizing crop plant yields in many agricultural settings. Phosphate runoff from fields can cause eutrophication.
This leads to algal blooms and the deterioration of aquatic ecosystems. Moreover phosphate rock is a finite and increasingly scarce resource; with peak phosphate production estimated to be reached in 2030.
Learn more about how Phosphostore used JMP software
IISER Pune - iGEM 2022
Dengue fever is the most widely spread mosquito-borne viral disease. It is commonly found in tropical countries like India, but has expanded its reach to over 120 countries.
Despite its ill effects, there is no cure for this disease yet. Dengue cases have been increasing in India every year. Dengue also caused the “hidden epidemic” in India during 2020, when healthcare resources were diverted towards COVID-19, leading to a drop in testing and reported cases.
Learn more about how AbDEN used JMP software
JMP platforms for your synthetic biology projects
Graph Builder
- Use Graph Builder to interactively explore your data and uncover hidden relationships quickly
- Work with your data using graphs that represent an interactive interface to linked data.
- Use the deep and wide toolbox for building production-ready graphs to better present your findings.
- Move effortlessly (point & click) from data discovery to report sharing.
EasyDoE
- Easy DOE offers a step-by-step guide through the DOE workflow from designing the experiment to analyzing, predicting and reporting findings.
- Save work in a single .jmpdoe file that can be reopened or shared.
- Decide how much guidance you need with two modes. Guided mode simplifies selections and provides hints to make it easy to get started. Flexible mode provides more options for Custom DOE and Definitive Screening Designs, including additional analysis options in JMP Pro.
Profiler
- See how your prediction model changes as you change the settings of individual factors
- Set desirability goals for your response or responses, and find optimal settings for your factors.
- Assess the importance of your factors relative to model predictions, in a way that is independent of the model.
- Simulate your response distribution based on specified distributions for both factors and responses, and control various aspects of the appearance of the Profiler
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