The PIPELINE Core advances precision environmental health research by providing access to “omic” expertise and technologies.

The PIPELINE (Promoting Impact on Precision EHS by Leveraging Instrumentation, NextGen and Emerging Technologies) Facility Core encompasses world-class expertise and resources in state-of-the-art imaging with continually evolving genomic, epigenomic, metabolic and proteomic, and informatics approaches, applied from the single-cell to population level studies.

The overall goal of the PIPELINE Facility Core is to advance precision environmental health research by providing access to expertise and technologies and facilitating effective utilization of “omic” technologies across the parent organizations of the GC-CPEH.

“Omics” data and integrative bioinformatics meet the research needs of Center Members to achieve systems level insights.

PIPELINE Resources

The PIPELINE Core leverages well established resources that exist across the TMC and parent organizations of the GC-CPEH to bring NextGen technologies to members:


Navigator: Dr. Michael Mancini, Baylor College of Medicine

  • Light microscopy
  • Super-resolution microscopy (SIM and STORM)
  • Live imaging (ultrafast and long-term)-Multi-dimensional spatial analysis
  • High throughput microscopy
  • Image analytics

Genomic and RNA Profiling

Navigator: Dr. Daniel Kraushaar, Baylor College of Medicine

  • Sample Quality Control
  • NGS
    • RNA-Seq
    • ChIP-Seq
    • Whole genome sequencing
    • Whole genome bisulfite sequencing
    • Targeted Sequencing
    • Sequencing only
  • NanoString Gene Expression Assays

Genomics, Epigenomics, and Transcriptomics

Navigator: Dr. Alanna Morrison, UTHealth Houston

  • Genomics
    • Whole genome, whole exome
  • Epigenomics
    • Whole genome, RRBS, Capture
    • ChIP-Seq
  • Transcriptomics
  • Single Cell Genomics
    • RNA-Seq, ATAC-Seq


Navigator: Dr. Nagireddi Putluri, Baylor College of Medicine

  • Sample Preparation and Quality Control
  • Targeted Steady-State Analysis
  • Unbiased Steady-State Metabolomics
  • Lipidomics
  • Metabolomic Flux Analysis

Microbiome and Metagenomics

Navigator: Dr. Kristi Hoffman, Baylor College of Medicine

  • DNA and RNA Extraction
  • Targeted Amplicon Sequencing
  • Untargeted Virome Amplicon Sequencing Metagenome and Complete Genome Sequencing
  • Qualitative PCR
  • Data Analysis

MultiOmics Data Analysis

Navigator: Dr. Cristian Coarfa, Baylor College of Medicine

  • Primary Data Analysis
  • MultiOmics Analysis


Navigator: Dr. Bill Russell, UTMB Galveston

  • Mass Spectrometry-based Discovery
  • Label-free “365” Proteome Profiling
  • Affinity Proteomics
  • Antibody-Based Targeted Proteomics
  • MS-based Targeted Proteomics

Protein and Monoclonal Antibody Production

Navigator: Kurt Christensen, Baylor College of Medicine

  • Monoclonal Antibody Production
  • Protein Expression and Purification
  • Peptide Synthesis (3rd-party fee-for-service)
  • Biochemical Assays (3rd-party fee-for-service)

Single Cell Genomics

Navigator: Dr. Rui Chen, Baylor College of Medicine

  • Single Cell RNA Profiling
  • Single Cell ATAC-seq

Core Leadership

AmosChristopher Amos, Ph.D., Director

Baylor College of Medicine

Cristian CoarfaCristian Coarfa, Ph.D., Co-Director

Baylor College of Medicine

Aaron Thrift, Ph.D. Career Development Leader-in-Training

Baylor College of Medicine

Request PIPELINE Services

The PIPELINE Core serves members with support at all stages of a project, including overall design, execution, data acquisition, and data integration and interpretation. Please complete the Facility Core Service Request Form to begin your request.