MaizeLD and MaizeLD+ DNA BeadChip Kit Training

  • Title

    DATE/LENGTH


  • Evaluation of Infinium Genotyping Assay Controls
    This module provides a guide on how to view controls used in the Infinium Genotyping assay and their expected outcomes. It explains the different types of controls and identifies the assay workflow steps where they come into play.

    30 min


  • Infinium Chemistry

    This training provides an introduction to the Infinium assay. It lists the steps of the Infinium assay, describes the biochemical mechanism of each step, and explains how different genotypes produce different fluorescence signals.

    20 min


  • Infinium Genotyping Data Analysis
    Details the Illumina recommended workflow.

    40 min


  • Infinium Genotyping: Introduction to Beeline 2.0 and Data Analysis Workflows

    Recorded Webinar (June 2017) | Looking for ways to optimize the efficiency of your Infinium genotyping data analysis workflow? Come learn how Beeline 2.0 Software can help! This webinar is targeted to new and intermediate users with a basic knowledge of working with genotyping data in GenomeStudio. We will go over the following topics: Generation of GTC files from Infinium genotyping data, Beeline 2.0 features: QC, filtering, reporting, and GenomeStudio integration, and examples of Infinium genotyping data analysis workflows.


  • GenomeStudio Genotyping: Evaluating Infinium Assay Controls

    Recorded Webinar (October 2015) | This webinar is targeted to users of standard Infinium products and custom iSelect BeadChips interested in the basics of assessing data quality in GenomeStudio. We will demonstrate how to use the GenomeStudio Controls Dashboard for effective assay QC and troubleshooting of Infinium genotyping data. The webinar will cover the different types of controls used in the Infinium genotyping assay, where in the assay workflow they come into play, and what the expected outcome is for each of the controls. These concepts will be applied in a live troubleshooting demo in GenomeStudio. A question and answer session will immediately follow the presentation.


  • Infinium Genotyping: Introduction to GenomeStudio 2.0 Polyploid Genotyping Module

    Recorded Webinar (November 2016) | The GenomeStudio 2.0 Polyploid Genotyping Module provides algorithms to cluster and output genotypes for non-diploid species, such as potato. This webinar is intended for intermediate and advanced GenomeStudio users with knowledge of working with non-diploid genotyping data and will cover the following topics: Loading a Polyploid Genotyping project in GenomeStudio 2.0; the two supported types of polyploidy: autopolyploidy and allopolyploidy; the two algorithms for polyploid clustering: PolyGentrain and DBSCAN; general and algorithm-specific clustering options, and manual manipulation of clusters, and exporting final reports and polyploid genotyping cluster files (.egtp).


  • GenomeStudio Genotyping: Creating Custom Cluster Files for Infinium Arrays

    Recorded Webinar (March 2020) | Clustering using your own samples is necessary for custom array content and will produce the most accurate data for any project, especially for atypical samples such as FFPE samples. This webinar is targeted at new and intermediate users with a basic knowledge of working with Genotyping Data in GenomeStudio and will go over the following topics: Cluster file basics, when to use a custom cluster file, how to create a custom cluster file, and how to filter and manually edit to optimize the cluster file.


  • GenomeStudio: Advanced Analysis Tools

    Recorded Webinar (July 2019) | This webinar is intended for all levels of GenomeStudio users. We will demonstrate the use of some available tools and techniques in the GenomeStudio Genotyping, Methylation, and Expression modules, including: heritability and reproducibility analysis; concordance tool -heat map, dendrogram, histogram/frequency plots; and image viewing- scatter plot tools.


  • Infinium Array: Best Practices

    Recorded Webinar (April 2020) | Optimize Infinium data quality by following these Infinium Best Practices. For new and experienced users, this webinar will touch on all aspects of the Infinium workflow: lab setup and maintenance, lab tracking, Infinium assay tips, data management.

    Correction: Slide 26 (timestamp 29:44) third bullet point- PB1 should read PB2


  • Manifestology: Deciphering Illumina BeadArray Manifests

    Recorded Webinar (October 2014) | Join us for a presentation and discussion on the information contained in our manifests for our genotyping, gene expression, and methylation BeadChips. We discuss what a manifest is, and how GenomeStudio utilizes it to generate data from the intensity information recorded by our scanners. We also review the types of information listed in the various manifests, particularly the columns associated with strand assignment, and how that information can be used to decipher the various output reports from GenomeStudio. Finally, we discuss additional resources available from Illumina to enhance our understanding of the manifest content, as well as various tools to supplement the content.