Chan Zuckerberg Biohub Network
Scientist, Single Cell Technology Development & Translational Genomics (Immunoge
Chan Zuckerberg Biohub Network, New York, New York, us, 10261
Scientist, Single Cell Technology Development & Translational Genomics - Immunogenomics Group - Biohub NY
The Chan Zuckerberg Biohub Network is a group of nonprofit research institutes that brings together scientists, engineers, and physicians to pursue grand scientific challenges on 10- to 15-year horizons. The CZ Biohub Network focuses on understanding disease mechanisms and developing technologies for actionable diagnostics and effective therapies.
Overview
The Laboratory of Immunogenomics at CZ Biohub NY studies the non-coding regulatory genome to understand immune dysfunction in diseases like cancer, autoimmune disorders, and aging. We focus on enhancers—non-coding, cell-type-specific transcriptional regulatory elements—and their role in shaping immune responses.
We develop and utilize genomic technologies, including bulk and single-cell nascent RNA sequencing, genome editing, immune engineering, and CRISPR-based functional screens in patient biopsies, organoid systems, and mouse models.
Through computational analysis integrating machine learning and AI, we map enhancer–gene networks and identify disease-driving elements to advance enhancer-guided precision genomic medicine for immune-related diseases.
Opportunity
We are seeking a highly motivated
Scientist
to lead the development of a high-throughput adaptation of a newly established single-cell nascent RNA sequencing method (scGRO-seq) and apply it to patient biopsies and organoid models. The role involves designing, optimizing, and benchmarking cutting-edge single-cell genomics workflows, integrating them with perturbation-based assays, and generating datasets to drive insights into immune regulation.
For candidates with demonstrated technical expertise and leadership ability, this position offers the opportunity to
build and lead a small team
(one to two research associates) to implement the assay, conduct perturbation experiments, and oversee data generation. Once the workflow is established, this position will direct experimental execution, coordinate large-scale data acquisition, and collaborate on downstream analyses with computational biologists to deliver translational insights.
This role is ideal for a post-PhD scientist with a proven track record in single-cell biology who excels at the intersection of technological innovation, complex biology, and computational analysis. You will join a highly collaborative team with opportunities for professional growth—developing leadership, mentorship, and multidisciplinary expertise—to thrive at the forefront of single-cell immunogenomics for future academic or industry roles.
What You'll Do
Assay development: Design, optimize, and scale high-throughput single-cell/nuclei extraction, barcoding, and library preparation workflows for scGRO-seq.
Perturbation integration: Combine scGRO-seq with CRISPR-based enhancer perturbation, drug treatments, and multi-omics profiling.
Molecular biology techniques: Execute advanced methods including assay design, cell manipulation, RNA/DNA isolation, PCR/qPCR, NGS library construction, high-dimensional flow cytometry, and sequencing.
Translational applications: Adapt and validate protocols in patient biopsies and 3D organoid models, with emphasis on reproducibility and sensitivity.
Immune cell engineering: Isolate, culture, and reprogram hematopoietic stem/progenitor cells (HSPCs) and primary immune subsets.
Data integration: Partner with computational biologists to process and interpret large-scale single-cell datasets (RNA, chromatin, proteomics) using established and custom pipelines (e.g., Bowtie, STAR, Seurat, Scanpy).
Collaboration & dissemination: Collaborate across disciplines to investigate regulatory genomics in immune dysfunction, tumor-infiltrating immune cells, and autoimmune disease variants. Contribute to publications, preprints, conference presentations, and grant proposals.
What You'll Bring
Essential – 2+ years of postdoctoral or equivalent post-PhD experience in academic or industry settings.
PhD in Molecular Biology, Systems Biology, Genetics, Immunology, Cancer Biology, Biomedical Engineering, or related field.
Proven expertise in single-cell or spatial omics technology development, ideally in RNA biology or immune engineering.
Demonstrated success in genomic assay development from concept to implementation.
Strong background in immune cell biology, innate and adaptive immunity, and hematopoietic stem/progenitor cell culture and reprogramming.
Experience designing and executing CRISPR screens and perturbation assays (genetic or chemical/drug).
Strong problem-solving skills, independence, and the ability to troubleshoot complex workflows.
Excellent communication skills and ability to work in collaborative, multidisciplinary teams.
Nice to have
Computational fluency in genomic data analysis; ability to work with bioinformatics pipelines for single-cell and bulk datasets.
Experience with functional genomics in immune cells.
Familiarity with 3D culture systems or hydrogels for immune cell studies.
Experience integrating multi-modal single-cell datasets (RNA, ATAC, proteomics).
Working knowledge of Linux/HPC environments and single-cell analysis tools (e.g., Seurat, Scanpy).
Compensation The New York City, NY base pay range for a new hire in this role is Scientist I = $120,000 – $165,000 and Scientist II = $138,000 – $189,000. Actual placement is based on job-related skills and experience.
Benefits We offer a wide range of benefits to support our team, including generous 401(k) matching, paid time off for volunteering, funds for family-forming benefits, and relocation support if needed.
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Overview
The Laboratory of Immunogenomics at CZ Biohub NY studies the non-coding regulatory genome to understand immune dysfunction in diseases like cancer, autoimmune disorders, and aging. We focus on enhancers—non-coding, cell-type-specific transcriptional regulatory elements—and their role in shaping immune responses.
We develop and utilize genomic technologies, including bulk and single-cell nascent RNA sequencing, genome editing, immune engineering, and CRISPR-based functional screens in patient biopsies, organoid systems, and mouse models.
Through computational analysis integrating machine learning and AI, we map enhancer–gene networks and identify disease-driving elements to advance enhancer-guided precision genomic medicine for immune-related diseases.
Opportunity
We are seeking a highly motivated
Scientist
to lead the development of a high-throughput adaptation of a newly established single-cell nascent RNA sequencing method (scGRO-seq) and apply it to patient biopsies and organoid models. The role involves designing, optimizing, and benchmarking cutting-edge single-cell genomics workflows, integrating them with perturbation-based assays, and generating datasets to drive insights into immune regulation.
For candidates with demonstrated technical expertise and leadership ability, this position offers the opportunity to
build and lead a small team
(one to two research associates) to implement the assay, conduct perturbation experiments, and oversee data generation. Once the workflow is established, this position will direct experimental execution, coordinate large-scale data acquisition, and collaborate on downstream analyses with computational biologists to deliver translational insights.
This role is ideal for a post-PhD scientist with a proven track record in single-cell biology who excels at the intersection of technological innovation, complex biology, and computational analysis. You will join a highly collaborative team with opportunities for professional growth—developing leadership, mentorship, and multidisciplinary expertise—to thrive at the forefront of single-cell immunogenomics for future academic or industry roles.
What You'll Do
Assay development: Design, optimize, and scale high-throughput single-cell/nuclei extraction, barcoding, and library preparation workflows for scGRO-seq.
Perturbation integration: Combine scGRO-seq with CRISPR-based enhancer perturbation, drug treatments, and multi-omics profiling.
Molecular biology techniques: Execute advanced methods including assay design, cell manipulation, RNA/DNA isolation, PCR/qPCR, NGS library construction, high-dimensional flow cytometry, and sequencing.
Translational applications: Adapt and validate protocols in patient biopsies and 3D organoid models, with emphasis on reproducibility and sensitivity.
Immune cell engineering: Isolate, culture, and reprogram hematopoietic stem/progenitor cells (HSPCs) and primary immune subsets.
Data integration: Partner with computational biologists to process and interpret large-scale single-cell datasets (RNA, chromatin, proteomics) using established and custom pipelines (e.g., Bowtie, STAR, Seurat, Scanpy).
Collaboration & dissemination: Collaborate across disciplines to investigate regulatory genomics in immune dysfunction, tumor-infiltrating immune cells, and autoimmune disease variants. Contribute to publications, preprints, conference presentations, and grant proposals.
What You'll Bring
Essential – 2+ years of postdoctoral or equivalent post-PhD experience in academic or industry settings.
PhD in Molecular Biology, Systems Biology, Genetics, Immunology, Cancer Biology, Biomedical Engineering, or related field.
Proven expertise in single-cell or spatial omics technology development, ideally in RNA biology or immune engineering.
Demonstrated success in genomic assay development from concept to implementation.
Strong background in immune cell biology, innate and adaptive immunity, and hematopoietic stem/progenitor cell culture and reprogramming.
Experience designing and executing CRISPR screens and perturbation assays (genetic or chemical/drug).
Strong problem-solving skills, independence, and the ability to troubleshoot complex workflows.
Excellent communication skills and ability to work in collaborative, multidisciplinary teams.
Nice to have
Computational fluency in genomic data analysis; ability to work with bioinformatics pipelines for single-cell and bulk datasets.
Experience with functional genomics in immune cells.
Familiarity with 3D culture systems or hydrogels for immune cell studies.
Experience integrating multi-modal single-cell datasets (RNA, ATAC, proteomics).
Working knowledge of Linux/HPC environments and single-cell analysis tools (e.g., Seurat, Scanpy).
Compensation The New York City, NY base pay range for a new hire in this role is Scientist I = $120,000 – $165,000 and Scientist II = $138,000 – $189,000. Actual placement is based on job-related skills and experience.
Benefits We offer a wide range of benefits to support our team, including generous 401(k) matching, paid time off for volunteering, funds for family-forming benefits, and relocation support if needed.
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