NSF NCEMS - Huck Institutes Graduate Assistantship

Penn State University; State College (Centre County); On-site; USD 24,000 - 36,000; Full time

Job summary

Penn State University invites applications for Graduate Research Assistant positions with the National Synthesis Center for Emergence in the Molecular and Cellular Sciences (NCEMS). These roles support multiple Working Groups and provide mentored research experience starting in Summer 2026, with semester-by-semester appointments and potential renewal.

Selected Graduate Research Assistants will process and analyze high-throughput datasets, develop reproducible pipelines, and contribute to

Qualifications

• Applicants must be full-time doctoral students at Penn State University Park.
• Strong communication, organization and technical skills are required.
• Ability to work independently while collaborating with staff and interdisciplinary teams.

Responsibilities

• Support community-scale synthesis research by contributing to NCEMS Working Groups.
• Process and analyze molecular datasets, including transcriptomics and gene regulatory data.
• Develop, run, and maintain reproducible computational pipelines and workflows.
• Integrate and analyze multi-omics or multi-modal datasets for synthesis research.
• Contribute to additional project areas including machine learning and applications in proteomics and molecular dynamics.
• Produce and maintain well-documented code, notebooks and workflows.
• Provide weekly progress updates during meetings with mentoring staff.
• Prepare interim and final reports or presentations as requested.
• Participate in regular meetings with mentoring staff and Working Group members to review progress.

Skills

Python

R

Machine learning

Transcriptomics

Multi-omics data

Snakemake

Nextflow

Linux

Tools

Snakemake

Nextflow

Job description

JOB DESCRIPTION AND POSITION REQUIREMENTS

Graduate Students are encouraged to apply for the Graduate Research Assistant opportunities with the National Synthesis Center for Emergence in the Molecular and Cellular Sciences (NCEMS) at Penn State.

The NSF funded NCEMS is seeking highly motivated graduate students (8 for Summer semester; 17 for Fall/Spring semesters) in programs such as Bioinformatics, Genomics/Computational Biology, Biostatistics, Data Science, Computer Science, Statistics, Biomedical Informatics, and related life science or engineering graduate programs, especially those with experience building reproducible computational workflows for high-throughput molecular datasets. This opportunity is offered at minimum Grade 15 half-time, with a willingness to match the candidate's current grade level pay at half-time if they are selected for the position, beginning in Summer 2026 or earlier, with appointments made on a semester-by-semester basis and the possibility of renewal across multiple semesters. Graduate Research Assistants will support one or more of the Center's Working Groups and will be mentored by designated NCEMS research staff.

PRIMARY RESPONSIBILITIES

• Support community-scale synthesis research by contributing to one or more NCEMS Working Groups


• Process and analyze molecular and cellular datasets, including transcriptomics and gene regulatory data such as ChIP-seq, ATAC-seq, and Hi-C


• Develop, run, and maintain reproducible computational pipelines and workflows


• Integrate and analyze multi-omics or multi-modal datasets for synthesis research


• Contribute to additional project areas based on project needs, including methodological work in machine learning and scientific applications in proteomics, molecular dynamics, and evolutionary biology.


• Produce and maintain well-documented code, notebooks, workflows, and other research outputs


• Provide weekly progress updates during scheduled meetings with mentoring research staff


• Prepare interim and final written reports or presentations as requested


• Participate in regular meetings with mentoring research staff, broader NCEMS research personnel, and Working Group members to review progress, address blockers, and align work with project milestones

WORKING HOURS AND LOCATION

As part of this position, selected candidates will work under the supervision and mentorship of a designated NCEMS Staff member. Graduate Research Assistants are expected to work 20 hours per week in person in the designated NCEMS space in the Benkovic Building. Before the appointment begins, the selected candidate and mentoring research staff member will establish a fixed schedule that includes substantial overlap with the mentor's on-site schedule. All work performed during scheduled hours must be NCEMS-related and aligned with pre-approved project objectives, methods, timelines, and deliverables.

APPLICANT REQUIREMENTS

Applicants must be full-time doctoral students at Penn State University Park, be in good academic and conduct standing, and demonstrate strong interest in computational and data-driven molecular or cellular science research. Ideal candidates will possess strong communication, organization, and technical skills; the ability to work independently while seeking guidance appropriately; and the ability to collaborate effectively with staff, faculty, and interdisciplinary research teams.

PREFERRED QUALIFICATIONS

• Experience with machine learning applications


• Experience with multi-modal integration of common biological data types


• Experience with workflow languages such as Snakemake or Nextflow


• Proficiency in Python and R


• Experience with transcriptomics and other gene regulatory data, including processing from raw files


• Knowledge of basic applied statistics, including hypothesis testing and multiple testing correction

MINIMUM QUALIFICATIONS

• Experience with Python or R


• Familiarity with Linux


• Project experience and interest in computational biology, bioinformatics, genomics, pipeline development, or related quantitative research areas