Open Genome Informatics represents the efforts of many bioinformatics projects.

This is a great opportunity for students to contribute to the work of these established bioinformatics projects:

Galaxy: An open, web-based platform for accessible, reproducible, and transparent computational biomedical research. Link.

Generic Model Organism Database (GMOD): An open source project to develop a complete set of software for creating and administering a model organism database). Link: http://gmod.org/wiki/Main_Page).

GBrowse: The Generic Genome Browser (GBrowse) is a web application for searching and displaying annotations on genomes. Link.

Informatics and Bio-computing (OICR): The Informatics and Bio-computing group at the Ontario Institute for Cancer Research (OICR) develops new algorithms, software, databases, visualization tools and other necessary components to interpret genome datasets. Link.

Intermine: InterMine is an open source data warehouse built specifically for the integration and analysis of complex biological data. Link.

JBrowse: JBrowse is being developed as the successor to GBrowse. It is a modern, fast genome browser implemented almost entirely in JavaScript, with some server-side formatting code in Perl. Link.

Reactome: A manually curated database of core pathways and reactions in human biology that functions as a data mining resource and electronic textbook. Link.

SequenceServer: A BLAST server for individual use or for sharing datasets with colleagues and community. Its minimalist, modern and thoughtful design lets user focus on the Biology and getting things done. Link.

lightbulb_outline View ideas list

Technologies

  • python
  • java
  • javascript
  • nodejs
  • gwt

Topics

comment IRC Channel
email Mailing list
mail_outline Contact email

Open Genome Informatics 2017 Projects

  • Samyadeep Basu
    Development of a Statistical Framework to Identify Similar Nodes in InterMine
    InterMine is a large graph containing entities(Genes, Transcription Factors etc. ) with important relationships between them. The main aim of the...
  • Konstantinos Kyritsis
    Expansion of functionality and creation of detailed and exciting bioinformatics R demos for InterMineR package
    InterMine constitutes a data warehouse framework, which provides the ability to access, retrieve and analyze rapidly a variety of biological data...
  • Leonardo Kuffo
    InterMine Registry
    The InterMine Registry will allow users to obtain and search, by consuming a RESTful API, basic information about existing InterMine instances. This...
  • Nadezda Yudina
    iOS InterMine app
    InterMine has an Android application and is looking to make it available on iOS as well. Native iOS application will allow researchers to have access...
  • Alan Cleary
    Pan-Genome Module for the Genome Context Viewer
    With the number of sequenced and annotated genomes continuously increasing, there is a need for new algorithms and tools for comparative analyses...
  • aniarya82
    Performance and user-centric upgrade to Afra
    The primary goal of the project is to upgrade Afra's annotation editing code, to provide it performance upgrade. Afra's annotation editor is built...
  • yasharmaster
    Prototype a new RESTful API querying Neo4j database
    Description InterMine is an open source data warehouse which is used to store complex biological data. It is currently using PostgreSQL as the...
  • Ayushya Chitransh
    Stand-alone Reactome server in a Docker image
    The goal of this project is to produce a Docker image that contains everything that an end-user needs to run Reactome on his/her own workstation....
close

2017