Senior Scientist – NGS Bioinformatics

Amgen Inc; Hyderabad; On-site; INR 1,800,000 - 2,400,000; Full time

Job summary

Amgen Inc is seeking a Senior Scientist - NGS Bioinformatics (Data Standardization & Platform Integration) to standardize, validate, and scale NGS data workflows for Large Molecule Discovery. You will help ensure sequencing data is structured and ready for analytics across research programs.

You will collaborate with scientists, software engineers, and lab personnel to build robust, reproducible pipelines, optimize performance, and enable enterprise platforms for analytics, reporting, and

Qualifications

• Doctorate or Master’s with substantial related experience in NGS bioinformatics.
• Strong background in data standardization and pipeline reproducibility.
• Experience with enterprise data platforms and analytics readiness.

Responsibilities

• Standardize, validate, and optimize NGS workflows to support reproducible and scalable sequencing analysis across research programs and data analysis pipelines.
• Improve pipeline performance, including runtime, memory efficiency, operational reliability, and consistency of outputs.
• Support development of NGS data models, metadata standards, and structured output formats to ensure sequencing information is captured and stored appropriately for downstream use in the database/CDL and broader informatics ecosystem.
• Collaborate closely with bioinformatics scientists, data scientists, software engineers, and laboratory scientists to align workflow requirements and integrate sequencing data into enterprise platforms for analytics, reporting, and downstream reuse.
• Support validation, testing, and reproducibility practices that help ensure sequencing workflows are reliable, traceable, and suitable for long‑term operational use.

Skills

Data standardization

Workflow optimization

NGS analytics

Collaboration across teams

Education

PhD

Masters with 8+ years

Bachelors with 10+ years

Tools

Nextflow

Snakemake

LIMS

Containerization

Cloud/HPC

Job description

Senior Scientist - NGS Bioinformatics (Data Standardization & Platform Integration)

We are looking for a Bioinformatician in NGS (Data Standardization & Platform Integration) to support Large Molecule Discovery by standardizing, validating, and scaling NGS data workflows so sequencing outputs can be reliably reused across research programs and enterprise platforms. The role will focus on making NGS pipelines reproducible, efficient, and ready for integration into existing data systems and downstream analytics.

Working closely with bioinformatics principal scientists, data scientists, software engineers, and laboratory scientists, the individual will help ensure sequencing data is well structured, consistent, and suitable for broader use in analytics, machine learning, and platform-enabled research. The role combines workflow optimization, data standardization, and platform integration, and is well suited for someone who enjoys building robust computational systems that improve scale, consistency, and reuse.

Responsibilities

• Standardize, validate, and optimize NGS workflows to support reproducible and scalable sequencing analysis across research programs and data analysis pipelines.
• Improve pipeline performance, including runtime, memory efficiency, operational reliability, and consistency of outputs.
• Support development of NGS data models, metadata standards, and structured output formats to ensure sequencing information is captured and stored appropriately for downstream use in the database/CDL and broader informatics ecosystem.
• Collaborate closely with bioinformatics scientists, data scientists, software engineers, and laboratory scientists to align workflow requirements and integrate sequencing data into enterprise platforms for analytics, reporting, and downstream reuse.
• Support validation, testing, and reproducibility practices that help ensure sequencing workflows are reliable, traceable, and suitable for long‑term operational use.

What we expect of you

We are all different, yet we all use our unique contributions to serve patients. The dynamic professional we seek is a subject matter expert with these qualifications.

Basic Qualifications

• Doctorate degree PhD
• Masters degree with 8+ years of directly related experience
• Bachelors degree and 10+ years of directly related experience

Preferred Qualifications

• PhD with 5+ years of experience standardizing, validating, and scaling NGS workflows for reproducible use across research programs or enterprise environments.
• Strong background in workflow performance optimization, including runtime, memory efficiency, and operational stability.
• Familiarity with workflow management and orchestration tools such as Nextflow or Snakemake.
• Experience with structured NGS data capture in LIMS for downstream analytics and platform use.
• Experience integrating bioinformatics outputs into enterprise data platforms and structured repositories with an emphasis on supporting data governance, traceability, lineage, and reproducibility for scientific datasets.
• Experience working closely with data scientists to ensure scientific data is modeled, saved, and organized correctly for downstream use.
• Familiarity with containerization and cloud- or HPC-based execution environments.