Bioinformatics

The Bioinformatics Core Facility team provides services and resources to assist the Notre Dame research community from project development through publication. Our analyst works to identify appropriate experimental design, and provide guidance and services for data processing and analysis of genomics datasets. Often these datasets are from non-model organisms with complex genomic backgrounds. Services are available to support a range of applications including Transcriptomics, small RNA, Whole genome sequencing, ddRAD-seq, Epigenomics, Metagenomics, and more.

Research Collaborations

The GBCF offers project-based collaborations through either fee-for-service or through joint research grants. 

Consultation & Office Hours

The GBCF team is happy to offer consultation services for data analysis and project design. These can be scheduled upon request or anytime during open office hours. 

Office hours with Joseph Sarro are Wednesdays from 1:30 to 3:00 p.m ET in 021 Galvin Life Science Center.

Workshops & Training

Bioinformatics training in the form of one-on-one sessions, as well as lectures and seminars is also available. These events may include a wide range of topics from introductory Linux to complex analysis like those involved in Next Generation Sequencing.

Computing Resources

The software packages below are supported by the GBCF and licensed by the University for faculty use. To establish an account and access the software for either MetaCore or IPA, please contact Joseph Sarro

  • MetaCore Pathway Analysis – Integrated software suite for functional analysis of Next-Gen Sequencing, variant, CNV, microarray, metabolic, SAGE, proteomics, siRNA, miRNA, and screening data
  • Ingenuity Pathway Analysis – Web based software application for the analysis, integration, and interpretation of data derived from gene, transcript, and protein expression data
  • Sequencher – DNA sequence assembly software for windows
    • Must be connected to the Notre Dame network and have KeyAccess software installed. Cisco Clean Access VPN connection required for remote access. 

Biomodules

The GBCF, in conjunction with the Center for Research Computing (CRC), has pre-installed a number of bioinformatics tools available for users to access. For more information on these tools, please access the Biomodules Wiki

It is recommended to establish a CRC account for the transfer of raw and processed sequencing data, and for secure long term storage.

Need more information?

Please direct all bioinformatics inquiries to Joseph Sarro, GBCF Senior Analyst.