Top 1 Bioinformatics intern Jobs in San Jose Ca

Bioinformatics Summer Intern
GeneGenieDx —Pleasanton, CA
- $35.00 - $42.50 an hour
- Doctor of Philosophy
- Quality control
- Internship
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Bioinformatics Summer Intern

GeneGenieDx
Pleasanton, CA

Quick Apply

Job Details

Internship
$35.00 - $42.50 an hour

Qualifications

UNIX
Doctor of Philosophy

Full Job Description

Company Description

Located in the San Francisco Bay Area, El Capitan Biosciences comprises a team of passionate, versatile, and seasoned professionals. Our team's extensive research and industry backgrounds enable us to stay at the forefront of innovation.

At El Capitan Biosciences (ECB), our mission is to advance noninvasive diagnostics and monitoring by harnessing advanced machine learning algorithms and proprietary molecular methods to extract, quantify and interpret human RNA present in stool. By enabling whole transcriptome-sequencing of human transcripts shed from gut and immune cell populations, we aim to discover clinically meaningful biomarkers that reflect mucosal integrity, presence of disease, inflammatory activity and broader gastrointestinal health. Our multiplex RNA-based panels integrate signals across multiple pathways to deliver a comprehensive, actionable picture of disease biology, supporting improved diagnosis, monitoring, and overall understanding of gut health.

Company website: https://elcapitanbio.com/

Why Join Us

Opportunity to help shape the commercial direction of a novel platform technology
Direct impact on partnerships with leading pharma and diagnostics organizations
Collaborative, science-driven startup environment

Job Description

Position Overview

We are seeking a highly motivated Bioinformatics Summer Intern to support the development of RNA-seq data analysis pipelines and machine learning models for biomarker discovery and clinical diagnostics. This role is ideal for candidates interested in translational genomics, AI in healthcare, and next-generation diagnostics.

Schedule: 40hrs/week, 12 weeks

Hourly rate: $35-$42.5/hr

Key Responsibilities

Analyze RNA-seq datasets, including preprocessing, QC, normalization, and differential expression analysis
Develop and optimize bioinformatics pipelines for transcriptomic data (bulk RNA-seq and/or degraded RNA samples)
Apply machine learning and statistical methods to identify diagnostic or predictive biomarkers
Assist in building and evaluating predictive models, including deep learning approaches
Explore integration of large language models (LLMs) or multimodal AI approaches for biological data interpretation
Collaborate with wet-lab scientists and cross-functional teams to interpret results and refine experimental design
Present findings through reports, visualizations, and internal presentations

Qualifications

Basic Qualifications

Current PhD student, recent PhD graduate, or postdoctoral researcher in Bioinformatics, Computational Biology, Biology, or a related field
Hands-on experience with RNA-seq data analysis
Strong programming skills in at least one language (e.g., R or Python)
Familiarity with Linux/Unix environments and proficiency in bash scripting
Formal training in statistics and machine learning

Preferred Qualifications

Experience with machine learning frameworks (e.g., scikit-learn, TensorFlow, PyTorch)
Experience building or applying deep learning models
Familiarity with large language models (LLMs) or generative AI applications in biology
Experience with NGS pipelines and tools (e.g., STAR, Salmon, nf-core, etc.)
Experience working in high-performance computing (HPC) or cloud environments
Strong data visualization and communication skills

Additional Information

What You’ll Gain

Hands-on experience working with cutting-edge RNA-seq datasets from clinical samples
Exposure to real-world biomarker discovery and diagnostic development
Mentorship from experienced scientists in bioinformatics and translational genomics
Opportunity to contribute to impactful healthcare technologies

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