Bioinformatics Analyst

APN Consulting, Inc. is a progressive IT staffing and services company offering innovative business solutions to improve client business outcomes. We focus on high impact technology solutions in ServiceNow, Fullstack, Cloud & Data, and AI / ML. Due to our globally expanding service offerings we are seeking top-talent to join our teams and grow with us.

Bioinformatics Analyst - Contract (India-based)

Position Title: Bioinformatics Analyst

Engagement Type: Contract -6 months, will consider part-time

Location: India -Remote

Work Hours: 8 AM - 5 PM IST

Position Summary

We are seeking an experienced Bioinformatics Analyst to support genomics and transcriptomics research for our client. The ideal candidate will have hands-on expertise analyzing both bulk RNA sequencing (RNA-seq) and single-cell RNA sequencing (scRNA-seq) data, from raw sequencing reads through downstream biological interpretation. This role will work closely with wet-lab scientists and cross-functional research teams to deliver high-quality, reproducible analyses that inform key research and development decisions.

Key Responsibilities

• Design, execute, and maintain analysis pipelines for bulk RNA-seq data, including quality control, read alignment, transcript quantification, and differential gene expression analysis.
• Process and analyze single-cell RNA-seq data (e.g., 10x Genomics), including QC, normalization, clustering, cell-type annotation, and trajectory/pseudotime analysis.
• Perform differential expression analysis using tools such as DESeq2, edgeR, or limma.
• Conduct single-cell analysis using Seurat (R) and/or Scanpy (Python).
• Perform pathway and gene set enrichment analysis (GSEA, GO, KEGG) to support biological interpretation of results.
• Build and maintain reproducible, version-controlled bioinformatics workflows (e.g., Nextflow, Snakemake).
• Collaborate with wet-lab scientists and project stakeholders to translate research questions into analysis plans and interpret findings.
• Prepare clear reports, visualizations, and presentations summarizing analysis results for technical and non-technical audiences.
• Maintain thorough documentation of methods, code, and results in line with project and client standards.
• Ensure data integrity, quality control, and compliance with study protocols and client data-handling requirements.
  
  

Required Skills & Qualifications

• Bachelor's or Master's degree in Bioinformatics, Computational Biology, Genomics, Molecular Biology, or a related field.
• Demonstrated hands-on experience analyzing both bulk and single-cell RNA sequencing data (specific years to be confirmed with client).
• Proficiency in R and/or Python for bioinformatics and statistical analysis.
• Experience with single-cell analysis frameworks such as Seurat and/or Scanpy.
• Experience with NGS alignment/quantification tools (e.g., STAR, HISAT2, Salmon, Cell Ranger).
• Familiarity with common NGS file formats (FASTQ, BAM, VCF) and QC tools (FastQC, MultiQC).
• Working knowledge of Linux/Unix command-line environments; experience with HPC or cloud computing platforms (AWS, GCP, or similar) is a plus.
• Solid understanding of statistics and experimental design as applied to genomics/transcriptomics.
• Strong written and verbal communication skills; able to collaborate effectively with distributed, cross-time-zone teams.
  
  

We are committed to fostering a diverse, inclusive, and equitable workplace where individuals from all backgrounds feel valued and empowered to contribute their unique perspectives. We strongly encourage applications from candidates of all genders, races, ethnicities, abilities, and experiences to join our team and help us build a culture of belonging.