Assay And Modeling

Yeast-Based Assay And Modeling Services

Leverage Saccharomyces cerevisiae to build custom assays, screen genetic interactions, and generate predictive models for your gene function and pathway studies.

Custom strain construction and assay design in S. cerevisiae
Multiplexed screening with quantitative readouts (growth, fluorescence)
Data-driven modeling to interpret experimental results

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From Gene to Model in One Workflow

Our yeast-based platform integrates assay development with computational modeling, enabling you to dissect complex biological mechanisms and predict outcomes using a tractable eukaryotic host.

Project-scope assay optimization and validation
High-throughput screening capabilities for large libraries
Strain assessment and data integrity checks

Saccharomyces cerevisiae

Custom Assay Design

Computational Modeling

Our Approach

Integrated Yeast Assay and Modeling

We combine yeast genetics, high-content phenotyping, and systems biology to help you understand how genes and pathways function in a controlled eukaryotic context.

Custom Strain Construction and Assay Design

We engineer S. cerevisiae strains to express your genes of interest, incorporate reporters, and create isogenic controls. Assays are tailored to your readout needs — growth curves, promoter activity, protein interactions, or cell viability.

Gene knockouts, overexpression, or tagging as required
Reporter systems (GFP, luciferase, beta-galactosidase)
Controls included for normalization and validation

Multiplexed Screening and Quantitative Analysis

Our platform supports plate-based and flow cytometry readouts to evaluate large numbers of variants, compounds, or conditions. Data processing includes automated curve fitting, statistical testing, and hit identification.

Deep mutagenesis, chemical libraries, or environmental conditions
High-content imaging and fluorescence measurement
Custom data analysis pipelines and visualization

Genome-Scale Modeling

We support model development or parameter estimation where data density and project scope allow (GEMs) or regulatory network models from your assay data to predict how genetic perturbations affect cellular behavior.

Evolutionary and Mechanistic Modeling

Using experimental evolution data, we model adaptive trajectories, fitness landscapes, and molecular mechanisms underlying observed phenotypes.

Data Integration and Interpretation

We integrate multi-parametric assay outputs with public databases and literature to generate testable hypotheses and prioritize follow-up experiments.

What You Receive

Deliverables Package

Every project includes a set of standardized deliverables plus project-specific data and reports.

Standard Deliverables

Engineered yeast strains (glycerol stocks, verified by PCR/sequencing)
Raw assay data (fluorescence, growth curves, flow cytometry files)
Processed datasets with QC metrics and statistical analysis
Detailed project report with methods, results, and interpretation

Optional Add-Ons

Computational models (GEMs, network models, fitness landscapes)
Cryopreserved cell banks of engineered strains
Custom assay optimization and validation report
Multi-omics data (transcriptomics, proteomics) when scoped

Scope & Customization

Project Parameters

Each engagement is tailored to your research questions. Below are typical parameters that can be adjusted per SOW.

Parameter	Typical project scope
Host Strain	Saccharomyces cerevisiae (standard lab strains or auxotrophic mutants); other yeasts upon request
Assay Type	Growth-based, fluorescence reporter, protein interaction (two-hybrid), enzymatic activity
Screening Mode	96-well or 384-well plates; flow cytometry; high-content imaging; arrayed or pooled libraries
Number of Conditions/Variants	Defined per project; typical range 10–1,000+ depending on assay throughput
Data Analysis	Curve fitting, dose-response, statistical comparisons, hit calling; custom bioinformatics as scoped
Modeling Scope	Genome-scale metabolic modeling, evolutionary simulation, or regulatory network inference; scoped per project

How It Works

Project Workflow

A streamlined process from consultation to data delivery, with regular check-ins at each milestone.

Consultation & Design

We review your research objectives, target genes, and desired readouts. Together we define the assay strategy, strain modifications, and controls needed to address your biological question.

Strain Construction & QC

Engineered S. cerevisiae strains are built using standard molecular biology techniques (knockout, overexpression, tagging). Each construct is verified by PCR, Sanger sequencing, and phenotypic testing.

Assay Development & Validation

We optimize assay parameters (cell density, induction, time course) and validate reproducibility. Pilot experiments confirm signal-to-noise ratio and dynamic range before full-scale screening.

Screening & Data Collection

High-throughput screening is performed with automated liquid handling and plate readers. Data are collected in real-time and monitored for quality; outliers are flagged and repeated if needed.

Analysis, Modeling & Reporting

Raw data are normalized, fitted, and analyzed. Depending on scope, we support model development or parameter estimation where data density and project scope allow to interpret the results. A project report including methods, QC, and datasets with datasets and recommendations is delivered.

Typical Use Cases

Research Applications

Our yeast-based services support a wide range of discovery and validation projects across academia and biotech.

Gene Function & Pathway Mapping

Investigate the role of a gene in metabolism, stress response, or cell cycle using growth assays and epistasis analysis.

Knockout/overexpression and multi-stress profiling
Synthetic genetic array (SGA) for genetic interactions
Pathway-specific reporter assays

Variant Effect & Mutational Scanning

Assess the functional impact of thousands of mutations (deep mutational scanning) on protein activity or stability.

Libraries of variants in yeast expression vectors
Fitness or fluorescence-based selection
Enrichment analysis and variant classification

Drug Mode-of-Action & Resistance

Screen compound libraries against engineered yeast strains to identify targets, mechanisms, or resistance mutations.

Chemical genetics in yeast with humanized pathways
Growth inhibition or reporter-based assays
Genomic sequencing of resistant clones

Common Questions

FAQ

Answers to typical inquiries about project scope, deliverables, and data interpretation.

We offer growth-based assays (IC50, fitness), fluorescence reporter assays (promoter activity, protein abundance), flow cytometry (cell cycle, surface expression), and two-hybrid/interaction assays. Assays are customized to your specific readout and throughput needs.
All constructs are verified by PCR and Sanger sequencing prior to phenotypic testing. We also perform functional validation (e.g., growth under selection, reporter expression) and include isogenic parental controls. QC data are provided in the final report.
Yes, many human genes have functional orthologs in yeast, or we can humanize yeast strains by expressing human genes. However, applicability depends on the conservation of the pathway. We assess feasibility during the consultation phase.
Timelines depend on project complexity. For a standard strain construction and single-dose growth assay, the workflow typically requires a timeline confirmed during project scoping. More complex screening or modeling projects may require additional time, scoped at project kickoff.

Scientific Literature

References

Guinn L, Lo E, Balázsi G. Drug-dependent growth curve reshaping reveals mechanisms of antifungal resistance in Saccharomyces cerevisiae. Communications biology. 2022;5(1):292. View on PubMed
Chen Y, Li F, Nielsen J. Genome-scale modeling of yeast metabolism: retrospectives and perspectives. FEMS yeast research. 2022;22(1). View on PubMed
Hohmann S, Krantz M, Nordlander B. Yeast osmoregulation. Methods in enzymology. 2007;428:29-45. View on PubMed

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