Bioinformatics Engineer - Google Cloud Platform

Description :

Role : Bioinformatics Engineer Immune Repertoire & Transcriptomics

Job Summary :

We are seeking experienced Bioinformatics Engineers with strong expertise in Immune Repertoire and Transcriptomics data processing to build and deploy scalable cloud-native bioinformatics workflows.

The role involves developing production-grade pipelines for TCR/BCR sequencing, single-cell RNA-seq, and Bulk RNA-seq datasets, along with downstream analytics and multi-omics integration.

Key Responsibilities :

Design, develop, and deploy scalable bioinformatics pipelines for :

1. TCR/BCR sequencing data

2. Single-cell RNA-seq (scRNA-seq)

3. Bulk RNA-seq workflows

- Process sequencing datasets from platforms such as 10x Genomics, SMART-seq, Adaptive, and iRepertoire.

Build workflows for QC, alignment, pseudo-alignment, normalization, clustering, differential expression, clonotype analysis, diversity metrics, antigen/epitope matching, and pathway enrichment.

- Develop production-grade, containerized workflows using Docker/Singularity and workflow orchestration tools such as Nextflow, Snakemake, or WDL/Cromwell.

- Deploy and manage bioinformatics workflows in cloud environments, preferably GCP.

- Implement CI/CD pipelines using GitHub Actions, GitLab CI, or similar tools.

- Integrate transcriptomics, immune repertoire, and metadata-driven datasets into downstream analytics and enterprise data platforms.

- Generate standardized analysis-ready outputs, QC dashboards, reports, and reproducible scientific workflows.

- Collaborate with scientific, data engineering, and DevOps teams to translate biological requirements into scalable engineering solutions.

- Produce technical documentation, pipeline documentation, and conduct demos/workshops when required.

Required Skills :

Strong hands-on experience with :

- TCR/BCR-seq

- scRNA-seq

- Bulk RNA-seq workflows

Expertise in tools/frameworks such as :

1. Cell Ranger, MiXCR, IgBlast, TRUST4, Immcantation

2. Seurat, Scanpy, scRepertoire, Immunarch

3. STAR, HISAT2, Salmon, Kallisto

4. DESeq2, edgeR, limma

- Strong programming skills in Python and/or R.

- Experience with Docker, CI/CD, cloud-native pipeline development, and workflow automation tools.

- Hands-on experience with GCP services and large-scale sequencing data processing.

- Familiarity with SQL and multi-omics data integration workflows.

Preferred Skills :

- Experience with Terraform or Infrastructure as Code.

- Exposure to enterprise-scale genomics platforms and workflow orchestration systems.

- Strong communication and stakeholder management skills