Bioinformatics Analyst

employee-einstein; New York (NY); On-site; USD 59,000 - 60,000; Full time

Job summary

Albert Einstein College of Medicine is seeking a Bioinformatics Analyst to develop standardized analytical pipelines for multi-omics data, including RNA-seq, proteomics, metabolomics, and lipidomics. You will join the Chang Lab in a collaborative environment focused on disease mechanisms and therapeutic targets.

The role emphasizes software development, computational modeling, and analysis of large-scale datasets, with opportunities for co-authorship and research dissemination.

Qualifications

• Bachelor's or Master's degree in Bioinformatics, Computational Biology, Biomedical Engineering, Computer Science, Applied Mathematics, or related quantitative discipline, and at least 2 years of computational research experience after graduation.
• Strong programming experience in Python, MATLAB, and R.
• Experience developing reproducible computational analysis pipelines.
• Experience working in Linux/Unix environments and with version control systems.
• Familiarity with high-performance computing environments, workflow automation, and parallel computing.
• Excellent written and verbal scientific communication skills.
• Ability to work largely independently but with periodic guidance from PI and more senior lab members.

Responsibilities

• Implement, document, and maintain standardized computational pipelines for analysis of multi-omics datasets, with emphasis on bulk RNA-seq and integration with proteomic, metabolomic, and lipidomic data.
• Build computational workflows based on genome-scale metabolic network models for identifying metabolic biomarkers and performing constraint-based flux analyses.
• Apply machine learning workflows for multi-omics integration, including feature selection, phenotype classification, survival prediction.
• Adapt computational pipelines for HPC environments and workflow automation.
• Collaborate on studies investigating metabolic adaptations across disease models.
• Interpret results with experimental scientists to generate testable hypotheses.
• Contribute to dissemination of methods and results through manuscripts and presentations.

Skills

Python

MATLAB

R

reproducible pipelines

Linux/Unix

communication skills

independent work

Education

Bachelor's or Master's degree in Bioinformatics/Computational Biology/related quantitative field

Tools

COBRA Toolbox

COBRApy

Git

Job description

POSITION RESPONSIBILITIES

Primary Responsibilities

• Implement, document, and maintain standardized computational pipelines for analysis of multi-omics datasets, with particular emphasis on bulk RNA-seq and integration with proteomic, metabolomic, and lipidomic data.
• Build computational workflows based on genome-scale metabolic network models for identifying metabolic biomarkers, context-specific metabolic model reconstruction, and performing constraint-based flux analyses to generate mechanistic hypotheses.
• Apply established machine learning workflows for multi-omics integration, including feature selection, phenotype classification, latent network inference, and survival prediction using methods such as random forests, mixed graphical models, and related statistical learning techniques.
• Adapt computational pipelines for efficient execution on a high-performance computing (HPC) environment, including workflow automation and parallel computing.
• Apply these computational methods to collaborative studies investigating metabolic adaptations across multiple disease models, including diabetes, cancer dormancy, immune cell development, and neurodegenerative disease.
• Interpret computational results through collaboration with experimental scientists to generate biologically meaningful and experimentally testable hypotheses.
• Contribute to dissemination of methods and results through manuscripts and presentations.

QUALIFICATIONS

Required Qualifications

• Bachelor's or Master's degree in Bioinformatics, Computational Biology, Biomedical Engineering, Computer Science, Applied Mathematics, or a related quantitative discipline, and at least 2 years of computational research experience after graduation.
• Strong programming experience in Python, MATLAB, and R.
• Experience developing reproducible computational analysis pipelines.
• Experience working in Linux/Unix environments and with version control systems.
• Familiarity with high-performance computing environments, workflow automation, and parallel computing.
• Excellent written and verbal scientific communication skills.
• Ability to work largely independently but with periodic guidance from PI and more senior lab members.

Preferred Qualifications

• Experience analyzing next-generation sequencing data, particularly RNA-seq.
• Familiarity with metabolomics, proteomics, lipidomics, or other multi-omics datasets.
• Experience applying machine learning methods to biological data.
• Experience with genome-scale metabolic modeling, constraint-based modeling, COBRA Toolbox/COBRApy, or related systems biology methods.
• Prior experience contributing to collaborative biomedical research and scientific publications.

Research Environment

The successful candidate will join an interdisciplinary research team in the Department of Systems & Computational Biology developing computational methods that integrate network biology, systems metabolism, and machine learning. The position provides opportunities to collaborate with multiple laboratories generating state-of-the-art multi-omics datasets and to develop computational tools with broad applicability across diverse disease models.

Current collaborative projects include studies of inflammatory responses in pancreatic islets, stress-induced alterations in thymic epithelial cells, metabolic reprogramming during breast cancer dormancy, and neurodegenerative disease associated with microglial dysfunction.

Appointment

This is a full-time, grant-funded appointment expected to last one to two years, contingent upon continued funding. Successful performance is expected to result in substantial contributions to multiple collaborative projects and co-authorship on peer-reviewed publications. The position also offers excellent experience for individuals interested in pursuing graduate study or careers in computational biology, bioinformatics, systems biology, or biomedical data science.

Salary Verbiage

In compliance with NYC's Pay Transparency Act, the annual base salary range for this position is listed below. Albert Einstein College of Medicine considers factors such as (but not limited to) scope and responsibilities of the position, candidate's work experience, education/training, key skills, internal peer equity, as well as, market and organizational considerations when extending an offer.

Minimum Salary Range

USD $58,500.00/Yr.

Maximum Salary Range

USD $60,000.00/Yr.

ABOUT US

The Chang Lab at Albert Einstein College of Medicine is seeking a highly motivated Bioinformatics Analyst to join a collaborative computational biology research program focused on developing standardized analytical pipelines that transform multi-omics datasets into mechanistic insight for human disease. The successful candidate will contribute to funded projects at Albert Einstein College of Medicine aimed at integrating transcriptomic, proteomic, metabolomic, and lipidomic data through genome-scale metabolic network modeling and machine learning to identify disease mechanisms, biomarkers, and therapeutic targets.

The position centers on software development, computational modeling, and collaborative analysis of large-scale biological datasets. The successful candidate will work closely with experimental investigators across multiple disease‑focused collaborations and will play a central role in developing computational infrastructure that supports hypothesis generation from multi‑omics data.