Amanda Ho Shan Rui Email & Phone Number

California, United States

California, United States

· Develop bioinformatics products for imaging and sequencing data analysis in the spatial transcriptomics field.· Utilize machine learning models, computer vision techniques and statistical tools to drive product development in image segmentation and enhancements, image quality metrics and sequencing analyses tools.· Design, build and unit test scalable Python pipelines and packages following industry best practices for software development including CI/CD workflows.· Leveraged AWS cloud computing tools (ec2, Glue, Redshift, s3) and programming languages such as Python/R/Linux/SQL for bioinformatics analyses, ETL and data warehousing jobs.· Spearheaded high-impact product within initial 3 months of hire, and have led and contributed to more than five products within 18 months.

Singapore

·Developed bioinformatics workflows for bulk and single-cell sequencing analyses (Illumina, Oxford Nanopore) in the antibody and oncology drug discovery space.·Analyzed next generation sequencing data (short read, third generation long read) including RNA-seq, whole genome sequencing and exome sequencing.·Leveraged high performance computing to conduct sequencing analyses using R, Python, Linux.·Built an analysis workflow integrating bioinformatics and statistical algorithms for quality control, variant calling and analysis.·Evaluated machine learning techniques/models for bioinformatics applications, facilitating expansion of the bioinformatics division on ML/AI work.

Singapore

·Led APAC projects dealing with crop data analyses, visualization and seed quality control.·Developed prediction models in R that improved crop maturity predictions up to 30% in the field.·Spearheaded and built a Spotfire dashboard for APAC teams, collaborating with business analysts, agronomists and data scientists to extract key metrics for seed production improvements.

Singapore

· Provided consultations to undergraduates on their quantitative reasoning queries, including statistical and data reasoning queries. · Ability to assess, articulate and guide non-quantitative/quantitative students in addressing problematic areas in their statistical and data-driven arguments.

Singapore

· Cross-functional research involving computational and wet lab work in the cardiovascular field.· Performed RNA-seq analyses (sequence alignment and quantification, differential isoform analysis) and data visualisation using linux, R and on HPC.· Handled common RNA-seq data formats (GFF, VCF, FASTQ) and mined data from genomic databases (UCSC, Ensembl).· Trained in wet lab techniques such as cell culture, bacteria cloning, PCR, DNA and RNA extraction.

Singapore

· Researched on bulk tissue deconvolution algorithms.· Analyzed next generation sequencing data (10X) including scRNA-seq and bulk RNA-seq using R.· Modified R shiny applet to visualise scRNA-seq results for lab to utilise.· Obtained highest grade (A+) for report and thesis defence.

Singapore

· Carried out research in functional annotation of GWAS data of aortic phenotypes.· Analysed mined data from public genomic databases (Ensembl, GTex) using R.· Paper published: https://doi.org/10.1038/s41467-022-32219-x

Singapore

· Involved in clinical research work in experimental fetal medicine.· Assisted in animal work such as harvesting of mouse bone marrow, organs and tissues.· Exposure to molecular techniques including FACS, cell culture, PCR and immunostaining.· Usage of Flowjo software to organise and visualise FACS data.

Master Of Science, Computer Science

Specializing in the Artificial Intelligence/Machine Learning track, with a focus on computer vision & signal processing classes

B.Sc. (Hons.), Computational Biology

Courses spanning biology, statistics and computer science including machine learning classes

Education record

4 years academic programme that focuses on inter-disciplinary learning. Enrolls up to 4% of each university cohort and trains students.