Pulse Bioinformatics: KnowPulse,
University of Saskatchewan

Welcome to our Virtual Office!

So, what do we do here?

Services

Our team works for Pulse Breeders and Researchers at the University of Saskatchewan. Our services are not currently for hire.

Module Development

We develop Tripal and Drupal modules to support biological data portals with extensive configuration and documentation.

Third-Party Tool Integration

To provide a consistent user experience, we focus on integrating third-party tools into Drupal/Tripal for a seamless experience.

KnowPulse

We support, maintain and extend KnowPulse: a web-resource focused on diversity data for pulse crop improvement.

Our Extension Modules

The following modules are all open-source and freely available on our GitHub Organization. Each one focuses on providing high quality generic functionality including configuration forms, theme-able elements, application programmer interfaces (API), data importers, etc. Furthermore, we strive to document it all!

Analyzed Phenotypes

Data Visualization

Chado Custom Search

Application Programmer Interface (API)

Genotypes Loader

Data Import

ND Genotypes

Data Visualization

Raw Phenotypes

Data Management

Tripal BLAST UI

Third-Party Tool Integration

Tripal JBrowse

Third-Party Integration

Tripal QTL

Data Management

Tripal Fancy Fields

Data Visualization

VCF Filter

Third-Party Integration

Private Bio Data

Data Management

This listing shows our Highlighted extension modules. You can see our full listing of extension modules here.

About

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  • 2009

    An idea begins to form…

    Dr. Kirstin Bett and Lacey Sanderson start putting a plan in action to migrate the University of Saskatchewan, Pulse Research groups growing data collection into a well-curated database.

  • Tripal Logo

    Early 2010

    Tripal

    After evaluating the options at the time including making a web portal from scratch using Ruby on Rails, Lacey Sanderson finds Tripal and sees the potential! She begins KnowPulse using Tripal version 0.2 on Drupal 6. At this time, Tripal is focused on genomic data. As Lacey works to make it fit breeding focused variant data she submits patches for generic functionality.

  • November 2011

    Officially a Core Contributor to Tripal

    Write-access is given to Lacey Sanderson for Tripal making her an official contributor to Core Tripal. Her first large contributions include the Bulk Loader and Drupal Views integration for generic handling of biological data!

  • 2012

    Genomics and Genotypic Data Support

    The Pulse Bioinformatics team grows to 3 researchers with 1.5 FTE for KnowPulse! KnowPulse uses Tripal, GBrowse to provide support for sequence data. The ND Genotypes module is developed to support genotypic data and the Genotype Matrix is born.

  • AGILE Logo

    2015-2019

    AGILE: Application of Genomics to Innovation in the Lentil Economy

    The Pulse Bioinformatics team expands to 7 researchers with 5 dedicated to working on KnowPulse! This large-scale Genome Canada funded grant helps the team develop phenotypic data support for KnowPulse: Raw Phenotypes and Analyzed Phenotypes are born.

  • EVOLVES Logo

    2019-2023

    EVOLVES: Enhancing the Value of Lentil Variation for Ecosystem Survival

    The Pulse Bioinformatics team focuses on structural variation, nutritional information and third-party integration of tools into KnowPulse.

  • Where
    will we go
    Next?

OUR AMAZING TEAM

KnowPulse is Powered by a team of Experts

Dr. Kirstin E. Bett

Dr. Kirstin E. Bett

Professor, Project Lead,
Plant Breeding & Genetics

Laura Jardine

Laura Jardine

EVOLVES
Project Mananger

Lacey-Anne Sanderson

Lacey-Anne Sanderson

Lead Developer,
Bioinformaticist

Ruobin Liu

Ruobin Liu

Data Curator

Carolyn Caron

Carolyn Caron

Bioinformaticist

Reynold Tan

Reynold Tan

Web Developer

Behind KnowPulse is a team of intelligent and creative individuals who specialize in breeding and genetics, project management, bioinformatics, molecular biology, relational database and data management and curation.