Application for Participation in the "Bringing Genomics Data to the Clinic!" Hackathon (CMU Libraries, JHU-OpenCravat and DNAnexus) January 6-8, 2021!

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Applying Genomic Knowledge in the Clinic!

Email *

Tell us (in 2 - 3 sentences) about your interest in Bioinformatics or Biomedical Informatics

What is your name? *

What is your GitHub username? *

What institution/company are you at? *

Have you previously been in any hackathon or codeathon?

Yes

Clear selection

Do you have a working knowledge of shell scripting? *

Yes

What other programming languages do you use? *

Python

Java

C/C++

JavaScript

Perl

Django

Other:

Required

Please tell us in 2-3 sentences what you work on.

Please tell us in 2-3 sentences why you want to participate.

Here are some approximate projects that groups will work on in this codeathon. Which are you potentially interested in working on? *

Subsetting variant graphs based on sub-phenotypes

Consequences of expressed variants

Clinical reporting of expressed variants and risk variants

Haplotype inference from ancestry data

Reporting of enhanced variant graphs to clinicians

Defining OMOP-based cohorts for future research studies

Viravate2! (user-provided gene expression matrix of any case vs. control (e.g. diabetics vs. non-diabetics) are associated with differentially expressed genes in infected vs. uninfected groups across a database of human-viral infections.) -- Covid edition!

Correlation between knowledge graphs and genotypic data

SuperdeepWAS

Iterative GWAS-PheWAS

Multiple Variants

Precision medicine

Incorporation of population data to a reference graph

Incorporation of Public Annotation Databases with Graphs

Develop a pipeline for submission of non-graph associated read assemblies to a public sequence database.

Assessing the benefits of graph genomes in clinical analysis

Required

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