# Bioanalytical Facilities Core

> **NIH NIH P30** · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · 2020 · $210,490

## Abstract

BIOANALYTICAL FACILITIES CORE: PROJECT SUMMARY/ABSTRACT
 The Core laboratories offer an extensive set of equipment and methods for most of the analytical needs
within the Center. Major instruments include a GC-MS, a single quadrupole LC-MS, two tandem quadrupole
liquid chromatograph-mass spectrometers, two quadrupole time-of-flight mass spectrometers, and an
electrospray ion trap with electron-capture dissociation. Instrument-specific software is available on several
workstations for remote data analysis. Other equipment includes off-gel electrophoresis (Agilent 3100),
preparative LCs, and a flash purification system (Biotage Isolera One) for protein/peptide analyses and general
sample preparation. For analysis of proteomics data, e.g., database searching and spectral counting, we have
in-house licenses for Agilent Spectrum Mill, direct access to an MIT-licensed Mascot server, along with the
open-source search-engine X!Tandem, and the Agilent software package Mass Profiler Professional, including
Pathway Analysis, for complex MS/MS data sets for biomarker discovery or for proteomics (and metabolomics
or lipidomics) projects. We also have Scaffold, from Proteome Software, that provides rapid visualization,
verification, and annotation of combined results from Spectrum Mill, Mascot and X!Tandem searches. This
was recently upgraded with the Q+ add-on for analysis of data from isotopically-labelled quantitative
experiments (e.g., iTRAQ). In-house GraphPad Prism, SIMCA, and MatLab are available on dedicated
workstations for routine and advanced statistics.
 Specific methods available on a routine or near-routine basis include: LC-MS/MS quantitation of etheno
adducts, nucleobase deamination, aminobiphenyl-dG adducts, 8oxo-G, halogenated nucleosides, and
subsequent DNA oxidation and nitration products in murine and human DNA, including simultaneous analysis
of nitro-, bromo-, and chlorotyrosine; GC-MS quantitation of aminobiphenyl-hemoglobin adducts, deoxyribose
oxidation products, fatty acids; enrichment of nitrotyrosine-containing tryptic peptides; MS-MS analysis of
aromatic-amine-adducted peptides; peptide sequencing via tandem quadrupole, quadrupole time-of-flight or
ion-trap mass spectrometry; quantitation of modified nucleobases and ribo- and deoxyribonucleosides;
quantitation of N-formyl lysine from modified histones; characterization of modified ribonucleosides; enrichment
and characterization of protein carbonyls arising from lipid oxidation; extraction and analysis of metabolites
from tissue and fluids; selective identification and quantitation of S-nitrosothiols and other S-nitroso
compounds; characterization and quantitation of corticosteroids and bile acids and their metabolites.

## Key facts

- **NIH application ID:** 9913527
- **Project number:** 5P30ES002109-40
- **Recipient organization:** MASSACHUSETTS INSTITUTE OF TECHNOLOGY
- **Principal Investigator:** JOHN S. WISHNOK
- **Activity code:** P30 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $210,490
- **Award type:** 5
- **Project period:** — → 2023-03-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/9913527

## Citation

> US National Institutes of Health, RePORTER application 9913527, Bioanalytical Facilities Core (5P30ES002109-40). Retrieved via AI Analytics 2026-06-14 from https://api.ai-analytics.org/grant/nih/9913527. Licensed CC0.

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