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Mass Spectrometry Core Facility

Ophthalmology Mass Spectrometry Core Facility


The purpose of the Ophthalmology Mass Spectrometry Core Facility is to provide state-of-the-art mass spectrometry services to bona-fide researchers at the University of Miami and its surrounding educational and health care institutions. This facility provides various types of techniques such as qualitative and quantitative proteomics and metabolomics (especially lipidomics). The priority of the facility is to serve UM researchers. We employ a fee based service model and book the instrument on a first come, first serve basis.

We organize workshops for hands-on training on sample preparation/manipulation in proteomics and lipidomics. In addition, we arrange bioinformatic courses for analyses of protein and protein modifications using Proteome Discoverer and visualization using Scaffold software, as well as analyses of lipids using MZmine and Lipid Search softwares.


The facility is located on the 7th floor of the Mcknight Building


This facility is equipped with a Q Exactive Hybrid Quadrupole Orbitrap Mass Spectrometer and a TSQ Quantum Access MaxTriple Quadrupole Mass Spectrometer.

Q Exactive Q Exactive

TSQ Quantum TSQ Quantum

OMSC Proteomics

  • Protein Complex Identification (Specialized single protein ID and complexes)
  • Post-Translational Modification Identification (acetylation, phosphorylation, ubiquitination, etc. as well a lab generated modifications)
  • Using Nano-Spray Technology and Nano-Separation of Protein Complexes (EASY-nLC 1000)
  • Specified Protein Quantification (Label-free quantification, iTRAQ, SILAC, etc.)

OMSC Metabolomics (Lipidomics)

  • Qualitative and quantitative analysis of multiple lipid classes.
  • Lipid profiling and comparison.
  • Lipid quantification through standard normalization.
  • Using accurate delivery of ionized lipid samples through chip-based direct infusion on a nano-spray application instrument (Advion Triversa Nanomate).


Service and Fees

Following is the fee structure for internal users (service fees are in $)

service and fees

All UM Internal users are required to submit an IDR prior to analyses. One scientific consultation is free. Subsequent consultations charges can be waived on a case to case basis. Users are encouraged to prepare their own samples for analyses. Protocols are available on request.

External users are encouraged to inquire (see personnel below).


Facility Director – Sanjoy Bhattacharya, Ph.D.
Contact Dr. Bhattacharya for consultation about overall study design. Simple questions about sample preparations or service fees can be directed to mass spectrometry operators (Logan Christensen or Maria Carmen Piqueras).

Facility Manager – Mabel Enriquez Algeciras
Ms. Algeciras maintains the oversight of instrument maintenance and user logs. She coordinates procurement of parts and supplies. She overtakes the day to day management in absence of the facility director.

Instrument Operator/Research Associate – Maria Carmen Piqueras
Ms. Piqueras performs routine calibration and runs both mass spectrometers. She switches the electrospray heads and liquid chromatography systems. She performs routine calibration and maintenance. She provides protocols and gives initial sample preparation advises on instruction from facility director/manager. Ms. Piqueras also coordinates IDR preparation and maintains the user log and service log of the instruments.

Financial Liaison/Oversight – Charles (“Chuck”) Yaros
As overall operators manager, Mr. Yaros oversees the financial aspects of the facility. He coordinates IDR receipts and mass spectrometry facility related accounts with instrument operators/manager/director. He provides financial oversight of the operations.


On June 22 and 23 the Ophthalmology Department’s Mass Spectrometry Core presented a workshop for the University community on the use of mass spectometry for proteomic analysis. The workshop was well attended. Twelve junior faculty members, post-doctoral fellows, and graduate students from the Coral Gables and Medical School campuses participated in the workshop. The attendees were charged a modest fee of $100.00 which covered course materials and lunch for both days of the workshop. The attendees were given didactic lectures, hands-on experience in the preparation of protein samples for mass spec analysis, and analysis of the sample data. At the end of the workshop, Dr. Vittorio Porciatti, Vice Chair of Research, and Dr. Jayaweera, Executive Dean of Research and Training interacted with the attendees seeking feedback for further improvement. See photos below.

Seminar (June 2017) – More information coming soon.


The Ophthalmology Mass Spectrometry Core Facility was initiated by Sanjoy Bhattacharya, Ph.D., professor of ophthalmology at Bascom Palmer Eye Institute. Dr. Bhattacharya was recruited in December 2005 from Cleveland Clinic Foundation, Cleveland Ohio. He applied mass spectrometry for discovery of proteins associated with glaucomatous trabecular meshwork. Dr. Bhattacharya’s independent research in glaucoma and in demyelinating diseases heavily employs mass spectrometry in conjunction with in vitro approaches and experimental models. The Ophthalmology Mass Spectrometry Shared Instrument Facility serves the entire UM community.

Learn more about Dr. Bhattacharya.


Tel: 305-482-4987