Senior Bioinformatician / October, 2022 — Present

• Performing network analysis on multi-omics data using various approaches such as WGCNA,CoNet,MENAP, iDirect, spls-DA. • Running end to end pipeline including data wrangling, exploratory data analysis and visualization of results belonging to soil, human, chicken and pigs datasets. • Developing, testing, reviewing Python and R scripts and providing technical guidance to non-scientific teams. • Continuous research and investigation of new methods for improving current pipelines as well as downstream analysis methods particularly for diversity, differential abundance and network reconstructions. • Applying machine learning algorithms and deep learning methods on microbiome data. • Monitor scientific literature for new data analysis methods and testing them. • Effectively communicate scientific results to technical and non-technical audiences. • Developing methods to integrate multi-omics data using mixOmics , Sparse CCA and LASSO regression.

Bioinformatician / October, 2021 — September, 2022

Subject matter expert in analyzing, developing and troubleshooting microbiome data pipelines. • Developing new methods using Python and R, to connect outputs from various tools to generate abundance data for further analysis and reviewing code of team members. • Performing statistical analysis on microbiome and functional data and connecting them to higher level including pathways, modules, and BRITE hierarchies. • Applying differentially abundant methods including RNA-Seq analysis methods DESeq2, limma and microbiome specific methods such as fastANCOM,LiNDA and ANCOM-BC to datasets and performing network analysis. • Performing diversity analysis such as alpha and beta analysis on ASV tables as well as other taxonomic count data. • Maintaining and improving existing pipelines by generating custom classifiers for better species level classification. • Investigating and performing Microbe Enrichment Analysis on different types of datasets.