Overview

The Microbial Computational Genomics Collaborative Center provides and maintains a wide range of analytical services to support researchers. Our team is staffed with computational scientists with analysis expertise in cutting-edge microbial omics and bioinformatics research.

Areas of expertise

  • Variant calling and analysis
  • Sequence alignment and assembly
  • Quality control 
  • Sequence data submissions, data management and visualization 
  • Phylogenetics and phylogenomics
  • Microbiomes and pangenomes
  • Transcriptomics 
  • Microbial typing
  • Antimicrobial and virulence gene profiling
  • PCR amplicon and transposon sequencing
  • Population structure analysis
  • Genomic epidemiology 
  • Whole-genome annotation 
  • Genome-wide association studies
  • Methylation data analysis
  • Metabolomics and proteomics 
  • Analysis script 
  • Pipeline development and benchmark analysis 

Impact

The Microbial Computational Genomics Collaborative Center offers cutting-edge microbial genomics and bioinformatics support to help researchers address relevant biological questions. The center fosters collaborations between computational, clinical and experimental sciences to understand host-microbe interactions and how these interactions contribute to disease. Our work spans all stages of microbial research including study design, data management, quality control, routine data processing, customized analysis, interpretation and dissemination of findings.

Services

Analysis

Routine and customized processing, analysis and interpretation of next-gen sequencing and omics datasets 

Liaison

Assist in coordinating bioinformatics projects involving multiple stakeholders

Consultation

Assistance with planning and design of bioinformatics projects 

Training

Individual and group-based bioinformatics training sessions 

About the Director

Dr. Chrispin Chaguza

Dr. Chrispin Chaguza obtained a BS in Computer Science and Statistics from the University of Malawi in Malawi and an MS in Bioinformatics and Systems Biology from the University of Manchester. He obtained a PhD in Microbial Genomics and Bioinformatics from the University of Liverpool, working with Drs. Stephen Bentley, Dean Everett, and William Hanage. Dr. Chaguza continued his work in bacterial population genomics as a postdoctoral fellow under the mentorship of Dr. Stephen Bentley at the Wellcome Sanger Institute and Darwin College, University of Cambridge. Following his tenure in Cambridge, UK, he completed a second postdoctoral fellowship and a research faculty position at the Yale School of Public Health, under the mentorship of Dr. Nathan Grubaugh and, subsequently, Dr. Daniel Weinberger. At Yale, he focused on viral and bacterial genomics, evolution, and epidemiology. Dr. Chaguza has held several honorary senior research fellowships at the University College London and the University of Liverpool and was an affiliate faculty member at the Yale Institute of Global Health.

As Director of the Microbial Computational Genomics Collaborative Center, he assists investigators in applying microbial genomics and bioinformatics to understand how microbes evolve, spread, and interact with human and animal hosts to cause disease.

The team

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    Qidong Jia, PhD

    Senior Bioinformatics Research Scientist

  • View Details

    Niru Shanbhag

    Bioinformatics Analyst

Contact us

Chrispin Chaguza, PhD 
Department of Host Microbe Interactions
MS 221, Room D1034H

St. Jude Children’s Research Hospital

262 Danny Thomas Place
Memphis, TN, 38105-3678 USA
chrispin.chaguza@stjude.org