2027 Summer Intern - Computational Science We advance science so that we all have more time with the people we love.
Department SummaryThe XOOS Algorithm Development team leads secondary analysis algorithm development for Sequencing by Expansion (SBX) data on the AXELIOS platform. We bridge rapid R&D prototyping with production-grade bioinformatics tools, driving multi-omics whole genome and targeted sequencing applications across oncology, genetic disease, and infectious disease.
This internship position is
fully remote. The Opportunity- Algorithm Development.
- Benchmarking.
- Software development.
- Presenting results to stakeholders.
Program Highlights- Intensive 12-weeks, full-time (40 hours per week) paid internship.
- Program start dates are in May/June (Summer).
- A stipend, based on location, will be provided to help alleviate costs associated with the internship.
- Ownership of challenging and impactful business-critical projects.
- Work with some of the most talented people in the biotechnology industry.
Who You Are Required Education: - Must be pursuing a PhD (enrolled student).
Required Majors: Bioinformatics, Computer Science, Computational Biology.
Required Skills- Advanced experience developing bioinformatics algorithms for secondary analysis of sequencing data.
- Demonstrated expertise in detecting genetic variation in challenging genomic contexts, including repeat regions, paralogs, pseudogenes, and highly homologous loci.
- Strong understanding of haplotype phasing, read alignment, local or de novo assembly, scaffolding, and pangenome methods.
- Experience developing tools for one or more of the following:Repeat expansion or repeat-genotype analysis, Paralog- or pseudogene-aware variant calling, Long-read or highly accurate sequencing analysis, Haplotype reconstruction and phasing, De novo or targeted assembly, Graph genomes or pangenome analysis.
- Strong programming skills in Python and/or C++, with experience building reproducible, tested software.
- Experience evaluating algorithms with representative datasets and quantitative performance metrics.
- Currently enrolled in or recently graduated from a degree program in bioinformatics, computational biology, computer science, statistics, mathematics, genomics, or a related field.
Preferred Knowledge, Skills, and Qualifications- Demonstrated record of publications, preprints, or equivalent technical contributions describing novel algorithms or methods for variant detection and genotyping.
- Research experience focused on difficult-to-map regions of the genome, including repeats, paralogs, pseudogenes, segmental duplications, and other highly homologous loci.
- Publications or documented contributions involving one or more of the following:Repeat-variant detection or genotyping, Haplotype phasing and reconstructionLocal, targeted, or de novo assembly, Scaffolding and contig generation, Pangenome or graph-based analysisLong-read sequencing analysis, Paralog- or pseudogene-aware variant calling.
- Ability to explain algorithmic innovations, validation methodology, limitations, and performance results clearly.
- Evidence of translating research methods into reproducible prototypes or usable bioinformatics tools.
Relocation benefits are not available for this job posting. The expected salary range for this position based on the primary location of California is $47.00-$52.00 per hour. Actual pay will be determined based on experience, qualifications, geographic location, and other job-related factors permitted by law. This position also qualifies for paid holiday time off benefits.
