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Bioinformatics

Bioinformatics

Bioinformatics is the application of information technology to the study of biology and medicine. It is a multidisciplinary field combining biology, mathematics, statistics and computer science to unravel complex biological problems. 

CMRI has dedicated data scientists/bioinformatics scientists who collaborate with CMRI medical researchers to tailor software/computational solutions around specific research questions. Typically, CMRI bioinformaticians are engaged early with the experimental design and subsequently in transforming the acquired experimental and clinical data into relevant knowledge that may lead to actionable novel research findings, improvements to clinical decision-making or precision medicine.

CMRI bioinformaticians deal with a variety of research data, some of which include: genomics (genome-wide sequencing of DNA), epi-genomics (modifications to chromatin and DNA), transcriptomics (tissue and single cell RNA sequencing), proteomics (large scale identification and characterisation of proteins by mass spectrometry), pharmaco-omics (drug responses based on multiple -omics data) and cell imaging. CMRI medical data scientists/bioinformatics scientists also play a key role in driving initiatives to strengthen data science/bioinformatics research within the Westmead Research Hub by promoting training opportunities and seminars.

The Bioinformatics Facility:

  • Collaborates with CMRI research groups on data-intensive research projects.
  • Provides a professional support and development network for data scientists/bioinformaticians embedded in CMRI research groups.
  • Advises and gives guidance on training and education for laboratory-based research staff and students to develop computational biology skills.

Enquiries about bioinformatics and computational biology should be directed to Erdahl Teber.

Bioinformatics Tools

See below for links to the tools developed in the Bioinformatics Facility.

MatCol

Measures co-localisation fluorescence signals.
Download MatCol (Matlab source code) or Windows Installer

MatQuantify 

Quantifies physical features of mitotic spindle and DNA images to detect the effect of knocking down/out a mitosis related protein.
Download MatQuantify. To obtain 619 sample images of DNA and mitotic spindle, please contact the author Dr Matloob Khushi.

PTM VisQuant 

 Web-based visualisation of post-translational modification site and quantitative information from proteomics experiments.