Yogindra Raghav

Get to know more about YogiOnBioinformatics (Yogindra Raghav), Bioinformatics scientist at MIT and the Broad Institute of MIT and Harvard.

Protein Virtual Reality is a University of Pittsburgh project with Dr. Jacob D. Durrant that is the world's first anatomical and protein visualization VR program tailored for collegiate-biology courses.

My clone repository

Worked with fellow peers at University of Pittsburgh under supervision of Dr. Junshu Bao, Department of Statistics, University of Pittsburgh, to do a Differential Gene Expression Analysis on a Dexamethasone treatment data set and incorporated Machine Learning into project.

Course schedule from experience as a selected Undergraduate Teaching Assistant at the University of Pittsburgh course, BIOSC 1540 - Computational Structural Biology, taught by Dr. Jacob Durrant.

Joint Genotyping in MIT Fraenkel Lab with ALS Genomics + 1000 Genomes Data

Presentations and work done for University of Pittsburgh course, Synthetic Biology.

An exercise in using GitHub's Codespaces

Description of work done at Merck pharmaceutical company in the summer of 2018 as a Computational Drug Discovery Intern at West Point, PA. Information excludes all proprietary information belonging to Merck & Co.

Handwritten work & R code related to University of Virginia's MATH 3350 ( Applied Linear Algebra)

Common resource files necessary for Computational Biology research.

Projects and Essays from Algorithm Implementation (CS 1501) at University of Pittsburgh

Work done during rotation with Coleen McNamara & Stefan Bekiranov in UVA BIMS PhD program

Work done during rotation with Ani Manichaikul during UVA PhD program

Integration of ATAC-Seq and multi-assay ChIP-Seq data using IDEAS (Hidden Markov Model) approach.Multi-Epigenomic state annotation with CHDI NeuroLINCS Epigenomics data using the tool "IDEAS"

This repository contains examples of non-scientific writing that I have done. This may be useful for those wanting to know about my writing style and ability since it is useful in the scientific world.

Determining reproducibility of Epigenomic signal for Answer ALS

Research project undertaken in Computational Genomics at the University of Pittsburgh. with Dr. Miler Lee and students to understand Maternal-to-Zygotic transition in Xenopus laevis

Dotfiles + config files that I use in my personal and professional work.

Containers that I use in my work.

Validating the first human iPSC-derived Cortical Neuron ALS model via systematic Epigenomic analysis.

Links to other repositories containing all the work I did as a Computational Biology Research Assistant in the Dr. Jacob D. Durrant Lab of Computational Drug Discovery, University of Pittsburgh.

Ordinal Logistic Regression with ElasticNet Regularization using Multi-Assay Epigenomics Data from CHDI NeuroLINCS Consortium.

Biplots, Volcano plots, PCA plots, Heatmaps and more Computational Genomics data created and visualized during University of Pittsburgh course, Computational Biology (BIOSC1540), with Dr. Miler Lee

Independent project I undertook to perform a full ChIP-Seq analysis of the transcription factor Nanog in Zebrafish embryos.

Published work of mine in Pitt Biological Sciences Advising Blog about using Bioinformatics to predict Ligand-Protein interactions.

Web game inspired by Six Degrees of Kevin Bacon, a game based on the theory of six degrees of separation. The idea of six degrees of separation suggests that any given person is only six or fewer social connections away from any other person. Our game challenges the player to link a starting actor to a goal actor using movie appearances and fellow cast members.

Destruction of Aqueous Microfibers Enzymatically (DAME): A novel Synthetic Biology systems approach to destroying Polyester-based Microplastic fibers

Statistical analysis on Mutation Annotation Format files from Whole-Exome Sequencing of Tumor samples and Controls.

Challenge to efficiently BLAST files (FASTA file & quality scores) and report key metrics about FASTA back to user.