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URMC / Center for Musculoskeletal Research / Core Services / Histology, Biochemistry, and Molecular Imaging (HBMI) Core

Histology, Biochemistry, and Molecular Imaging (HBMI) Core

Composite of histology images

Mission Statement

The primary mission of the HBMI Core is to provide high quality histological, biochemical, and molecular imagining services as well as training in histological and imaging techniques to investigators with the Center for Musculoskeletal Research (CMSR) and the University of Rochester who study musculoskeletal tissue biology and pathology. 

Services include:

  • Paraffin and frozen tissue processing, embedding, and sectioning.
  • Histological staining.
  • Guidance and support for histomorphometric and molecular imaging analysis.

Technical Staff

Jeff Fox, Technical Associate II
(Histology)

Vidya Venkatramani, Laboratory Technician I
(Histology)

HBMI Core Equipment and Facilities:
HBMI Core Equipment and Facilities

Equipment Scheduling (For Internal Use Only):
Histology Core Scheduling (PPMS Calendars)

Histology, Biochemistry, and Molecular Imaging Core User Fees:
HBMI Core User Fees FY24

Histology Forms and Protocols:
Histology Forms and Protocols

New Bioinformatics Service Announcement

We are pleased to provide more information about bioinformatics services being offered in the CMSR. As part of our NIH P30 award, we have partnered with the Genomics Research Center to onboard Cameron Baker as a senior bioinformatics analyst embedded in the CMSR.

There are two main opportunities to leverage this resource.

Single cell seq Bootcamp

This training series is for trainees or faculty who do not have extensive experience working with single cell sequencing datasets. This bootcamp is offered as a series of four full-day workshops (one day/week for four weeks).

Topics covered:
  • Working with R
  • Raw data quality control
  • Using Seurat
If you would like to attend this series of workshops please email Alayna Loiselle.

CMSR & Genomics Research Center

The Bioinformatics Support program, provided by the Genomics Research Center (GRC), delivers comprehensive computational analysis and consulting to support the highly multidisciplinary research environment of the Center for Musculoskeletal Research (CMSR). Our team partners with investigators within the CMSR across many disciplines to enable rigorous, reproducible analysis of complex genomics and multi-modal datasets.

Services provided:

  • Experimental Design & Collaborative Consulting - Support for all stages of your research. Early-stage consulting for study design, grant development, etc.     
  • Basic/Standardized Analyses - Processing of common data types such as DNAseq, RNAseq, scRNAseq, epigenetic approaches (ATAC, CUTandRUN, CUTandTag, etc), and Spatial Transcriptomics using established computational pipelines
  • Advanced/Custom Analyses - Including integration of multiple types of genomic data, development of new workflows, and mining of publicly available data
  • Training and Education - Workshops and hands-on training to support investigators, trainees, and staff with varying computational backgrounds

Direct GRC Contacts

Elizabeth Pritchett, Co-Director, Genomics Research Center

Cameron Baker, Senior Bioinformatics Analyst


Request Bioinformatics Support


Questions?

If you have any questions related to this program, please directly reach out to Alayna Loiselle.

Other Useful Resources

  1. The Genomics Research Center (GRC) offers hands-on data analysis workshops several times a year, including a workshop series on spatial transcriptomics, as well as workshops on RNASeq and single cell RNASeq analysis.
  2. University of Rochester’s Center for Integrated Research Computing (CIRC) offers workshops and bootcamps to build knowledge of the BlueHive computing environment and other computing resources supported by CIRC.
  3. Office of Research IT has a series of resources to support research in the School of Medicine and Dentistry, including the next generation computing platform, Momentum.