Characteristics of Bacteriophage Altwerkus

Characteristics of Bacteriophage Altwerkus

Field: Microbiology

Link: phagesdb.org/phages/Altwerkus/

Featured in Publication: Life Sciences PubMed

About:

Altwerkus is a B1 subcluster Mycobacteriophage, a form of virus, that infects Mycobacterium Smegmatis, a form of bacteria closely related to Mycobacterium Tuberculosis.

Working under Dr. Emily Fisher and Dr. Joel Schildbach from the Biology Department at Johns Hopkins University, I discovered Altwerkus through direct plating and DNA isolation laboratory techniques. The Howard Hughes Medical Institute provided us with the opportunity to sequence its genome and annotate its DNA via the SEA-PHAGES Phage Hunting initiative.

Research Remix

Through the JHU Digital Media Center program, Research Remix, I was able to collaborate with art students from MICA (Maryland Institute College of Art) to create visual representations of my work.

The visual illustrations in this gallery were created by Lilian Crooks and Soojin Lim.

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Streamlining Analysis for Automated Neuronal Membrane Segmentation Pipelines (neuroXplorer)

Streamlining Analysis for Automated Neuronal Membrane Segmentation Pipelines (neuroXplorer)

Field: Connectomics (Computational Neuroscience)

Link: https://github.com/Connectomics-Classes/NeuroXplorer

Project: Open Connectome Project - NeuroData

About:

NeuroXplorer is a set of tools and programs that optimizes the pipeline for automated neuronal membrane segmentation by running comparisons using the watershed image processing algorithm.

The program makes it easier for a computer to detect neurons across three-dimensional high definition electron microscopy brain image stacks. This work was made possible under then mentorship of Dr. Joshua Vogelstein and Dr. William Roncal. The project is part of NeuroData's Open Connectome Project.

Research Remix

Through the JHU Digital Media Center program, Research Remix, I was able to collaborate with art students from MICA (Maryland Institute College of Art) to create visual representations of my work.

The visual illustration in this gallery was created by Lindsay Farrell.

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Prediction of Autism by Translation and Immune Coexpressed Genes

Prediction of Autism by Translation and Immune Coexpressed Genes

Field: Computational Genomics

Link: http://www.arkinglab.org/

About:

I worked under Dr. Shannon Ellis and Dr. Dan Arking to recreate statistical analyses of genetic variants (translational and inflammatory) found in blood, to diagnose children with Autism Spectrum Disorder. Part of my research involved operating high throughput clusters and big data using Maryland Advanced Research Computing Center (MARCC) and Joint High Performance Computing Exchange (JHPCE).

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Analysis of Metagenomic Sequences

Analysis of Metagenomic Sequences

Field: Metagenomics

Link: https://salzberg-lab.org/software/

About:

I worked in analyzing metagenomic data from soil samples taken from forested areas at Johns Hopkins University. The sequenced data was produced by Oxford Nanopore MinION sequencers and studied via use of the Kraken taxonomic sequence classification system from the Center of Computational Biology. This research project was made possible by Dr. Steven Salzberg.