Mohammed Alfayyadh
Summary
Highly skilled and motivated Bioinformatician with experience in analyzing complex NGS datasets. Possesses a strong background in biostatistics, data analysis, and programming languages. Excellent critical thinker with a passion for exploring new ideas. Extensive bioinformatics and biostatistics skills combined with a passion for advancing scientific knowledge.
Demonstrated success in compiling and interpreting bioinformatics information by leveraging software, statistics and data mining. Effective at maintaining current understanding of field trends, technological advances and new computational and modelling techniques.
Seeking a challenging position where I can utilize my expertise in the field of bioinformatics to contribute to cutting-edge research and development.
Overview
15
15
years of professional experience
Work History
Bioinformatics, PhD
Queensland University Of Technology, QUT
01.2021 - Current
- Gained extensive knowledge and strong skills in navigating the Unix environment including utilising Unix programming languages such as AwK and Sed.
- Utilised Conda (Package management system) to build different virtual environments.
- Developed and implemented bioinformatic pipelines for the analysis of large-scale genomic data sets.
- Developed a bioinformatic pipeline that can calls, annotates and filters SNVs and INDELs.
- Customised, automated and implemented the GATK pipeline to suit NGS data generated by different sequencing platforms including ion torrent and Illumina.
- Automated and utilised the GATK (gcnv caller) and CNVkit to call CNVs.
- Automated variant annotation using VEP and ANNOVAR software.
- Automated the assignment of the ACMG pathogenicity criteria to SNVs.
- Utilised different tools for handling high-throughput sequencing data including Samtools, Bcftools, VCFtools, Bedtools, FastqC and others.
- Utilised databases such as NCBI, Ensemble, and UCSC Genome Browser to annotate sequence variants.
- Documented processes related to bioinformatics experiments and maintained records of findings.
- Utilised high-performance computing HPC clusters to facilitate the analysis of large datasets.
- Performed quality control checks on NGS datasets to ensure accuracy of results.
- Implemented scripting languages including Bash and Python for the automation of bioinformatics tasks.
- Collaborated with other members of the team to develop new algorithms for sequence analysis.
- Assisted in the analysis of WES data sets using a variety of software tools and algorithms.
- Participated in preparation of reports and scientific publications.
- Wrote computer programs and scripts to be used in querying databases
Biostatistician
Public Health Department
07.2009 - 02.2015
- Drew conclusions and made predictions based on data summaries or statistical analysis.
- Designed surveys to assess health issues and developed and implemented data analysis algorithms.
- Developed and used regression models to track changes in biological phenomena such as spread of infectious diseases.
- Used SAS and SPSS to prepare tables and graphs to present clinical data or results.
- Analyzed clinical and survey data by using statistical approaches such as longitudinal analysis, logistic regression analysis and model building techniques.
- Used SAS to write program codes to analyze data.
- Worked independently and collaboratively in a team environment.
- Worked effectively in fast-paced environments.
- Excellent communication skills, both verbal and written.
- Identified issues, analyzed information and provided solutions to problems.
Education
Ph.D. - Bioinformatics
Queensland University of Technology
Brisbane, QLD12.2025
Master of Science - Public Health
University of Western Australia
Perth, WA04.2018
Bachelor of Science - Community Health Technologies
University of Baghdad
Baghdad07.2009
Skills
- Bioinformatic workflow development and optimisation
- Customisation, optimisation and implementation of the GATK pipelines
- Shell Scripting, python programming and R
- Navigation of the Unix environment including using AwK and Sed Unix programming languages
- Continuous utilisation of different tools for handling high-throughput sequencing data including Samtools, Bcftools, VCFtools, Bedtools, FastqC and others
- Python Programming
- Statistical Analysis Techniques
- Quality Control
Accomplishments
Languages
Arabic
Native or Bilingual
English
Full Professional
Training
Analysis of linked health data course (Health Data Linkage Systems)
University of Western Australia, 2016
Chemical and Biological Security Training / United States Department of StateSandia National Laboratories, 2019
Training of Trainers TOT course (Primary Healthcare Project / Iraq)United States Agency for International Development, USAID, 2014
Memberships
Australian bioinformatics and computational biology society
https://www.abacbs.org/membership-new#join
Human genome variation society
https://www.hgvs.org/content/membership
American College of Medical Genetics, ACMG
https://www.acmgmeeting.net/
Timeline
Bioinformatics, PhD
Queensland University Of Technology, QUT
01.2021 - Current
Biostatistician
Public Health Department
07.2009 - 02.2015
Ph.D. - Bioinformatics
Queensland University of Technology
Master of Science - Public Health
University of Western Australia
Bachelor of Science - Community Health Technologies
University of Baghdad
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