Research Data Analyst 2

UC San Diego Health

San Diego (CA)

Hybrid

USD 50,000 - 69,000

Full time

4 days ago

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Job summary

UC San Diego Health is seeking a Research Data Analyst 2 to support sequencing analysis and genotyping across high performance computing and cloud environments. The role involves building computational pipelines, ensuring data quality, and contributing to reporting and documentation under supervision.

Under supervision, you will design workflows for sequencing analysis, organize and backup research data, and test new pipelines while selecting appropriate computational approaches.

Qualifications

Six or more years of related experience, education, or training or a Bachelor’s degree plus two years of related experience.
Working knowledge of research function.
Statistical analysis, systems programming, database design, and data security measures.
Ability to communicate complex information clearly and concisely verbally and in writing.
Knowledge of bioinformatics software related to sequencing and genotyping.
Experience developing multistep analysis pipelines/workflows using scripting languages including WDL.
Experience handling big data sets and programming in R and Python.

Responsibilities

Build computational pipelines for sequence analysis and genotyping in HPC and cloud environments.
Run established workflows with Bash scripting and bioinformatics tools like PLINK, GATK, HipSTR, BEAGLE.
Perform routine quality control on data inputs and analyses; assist with data organization and backup.
Develop new pipelines under supervision and test computational approaches.
Support data reporting tasks with moderate scope.
Document work and annotate code; use revision control systems such as GIT.

Skills

Statistical analysis

Systems programming

Data analysis

Analysis & consultation

Communication

Bioinformatics knowledge

Linux-based workflow development

Scripting (R, Python)

Big data handling

Time management

Education

Bachelor’s degree in a related area

Tools

Bash scripting

PLINK

GATK

HipSTR

BEAGLE

WDL

Python

GIT

Linux

Amazon EC2

All of Us Research workbench

Bcftools

Bedtools

FastQC

Vcftools

Job description

UC San Diego Health is seeking a Research Data Analyst 2 to support research-focused sequence analysis and genotyping work across high performance computing and cloud environments. The role builds computational pipelines, performs quality control, and supports reporting and documentation under supervision.

Role Overview

Under general supervision, the Research Data Analyst 2 designs and implements computational workflows for sequencing analysis and genotyping for human and model organism data. Responsibilities include routine quality control, organizing and backing up research data, and developing new pipelines by selecting and testing computational approaches. The position also contributes to statistical and research data reporting tasks requiring careful documentation and clear communication.

Key Responsibilities

Build computational pipelines for sequence analysis and genotyping for humans and model organisms in HPC and cloud compute environments.
Run established computational workflows using Bash scripting and bioinformatics tools such as PLINK, GATK, HipSTR, and BEAGLE.
Perform routine quality control on data inputs and analysis outputs, and assist with data organization and backup.
Develop new pipelines under supervision, including selecting software and testing different computational approaches.
Support research data reporting assignments with moderate diversity in scope.
Use judgment within defined practices and policies to select methods and techniques for solutions.
Perform other duties as assigned.

Required Qualifications

Six (6) years of related experience, education, or training, or a Bachelor’s degree in a related area plus two years of related experience/training.
Working knowledge of research function.
Working skills in statistical analysis, systems programming, database design, and data security measures.
Working skills in analysis and consultation.
Ability to communicate complex information clearly and concisely verbally and in writing.
Knowledge of bioinformatics software related to sequencing and genotyping, with ability to stay current on developments in the field.
Proven ability to plan and conduct studies related to genotyping and genotyping quality control, including optimizing parameters in bioinformatics computational pipelines.
Knowledge of Linux-based workflow development, including Bash scripting.
Extensive experience developing multistep analysis pipelines/workflows using scripting languages including WDL.
Demonstrated experience handling big data sets and programming in languages including R and Python.
Knowledge of Linux, High Performance Computing, and cloud technologies such as Amazon EC2, as well as the All of Us Research workbench.
Proven ability to manage time effectively and complete assigned project components by deadline.
Excellent communication skills.
Working knowledge of sequencing and genotyping-related software including Bcftools, Bedtools, FastQC, Plink, and Vcftools.
Proven ability to document work and annotate code, including experience with revision control systems such as GIT.
Experience performing genome-wide analysis of tandem repeat variation in human populations.