Useful Links and Resources

Useful Links

Laboratory Space:

The Proteomics Core Lab is located in the Whitehead Biomedical Research Building, Room 525. It is entirely outfitted for cutting- edge protein analytical services via microcapillary liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) for highly sensitive protein identification, posttranslational site mapping, and protein quantification. Numerous computational tools have also been developed for high through data processing. Consultations are available for experimental design, data interpretation and grant application.

Lab Equipment:

Proteomics Core Lab Chromatography

Waters ACQUITY UPLC M-Class

Waters ACQUITY UPLC M-Class

The ACQUITY UPLC M-Class System delivers the performance you expect from nano- to microscale separations with the usability of an analytical-scale UPLC system. Each part of the system was designed and tested to deliver the right flow for the right column. The ACQUITY UPLC M-Class System provides excellent performance with overflow rates from 200 nL/min to 100 µL/min and a range of column inner diameter (I.D.) from 75 µm to 1.0 mm.

Thermo Scientific EASY-nLC

The EASY-nLC 1200 is a dedicated system for proteomic analyses. It combines best-in-class 1200 bar performance with operational simplicity. It features fully integrated hardware with pumps, autosampler, valves, flow path, control PC, and touch screen interface in onesingle, compact housing. The EASY-nLC 1200 comes pre-configured for two analysis modes: direct injection onto a separation column and pre-concentration onto a trap column.

Agilent 1290 Infinity II LC

The 1290 Infinity II LC System is an ultra-high performance liquid chromatography instrument (UHPLC) that has market-leading sample capacity and is designed for the lowest dispersion for the most challenging UHPLC experiments. Comparing UHPLC vs HPLC? This ultra HPLC system is designed to be both a HPLC and high-end UHPLC system in a single flow path, giving you robust and excellent performance no matter what application you are running while seamlessly integrating into your existing laboratory environment. The 1290 System embodies the next generation of ultra HPLC, with the exceptional reliability and robustness you expect from Agilent, plus breakthrough UHPLC technologies, to achieve unmatched separation and detection performance.

UltiMate 3000 RSLCnano

Thermo Scientific UltiMate 3000 RSLCnano System

High-throughput, robust and quantitative low-flow LCMS profiling of complex biological matrices. Standardized and easy to deploy high-throughput low-flow LC-MS methods.

Proteomics Core Lab Mass Spectrometers

Thermo Scientific TSQ Vantage

Thermo Scientific TSQ Vantage

The direct benefit of more signal is better assay precision and accuracy. Combined with a robust new ion source, second generation (G2) ion optics and hyperbolic quadrupoles, the TSQ Vantage™ delivers the highest sensitivity with the lowest chemical noise.

Thermo Scientific Orbitrap Fusion Lumos

Excel at the most challenging of applications, including low level PTM analysis, multiplexed relative quantitation using isobaric tags, intact protein characterization, as well as MSn analysis of small molecules. This system incorporates the brightest ion source, a segmented quadrupole mass filter with improved selectivity and ion transmission, Advanced Vacuum Technology for improved ion transmission, and ETD HD, a higher-capacity ETD fragmentation. Latest innovations include the Advanced Peak Determination (APD) algorithm for improved data-dependent experiments and two new hardware options: UVPD, a new fragmentation technique achieved with a 213 nm UV laser and 1M, which provides 1,000,000 FWHM ultra-high resolution for improved structural elucidation and quantitation of isobaric compounds.

Thermo Scientific Q Exactive HF-X

Understanding biomolecules as drug targets, disease markers, and therapeutic agents demands highly sensitive analysis of complex biological samples, without sacrificing robustness and speed. The Thermo Scientific™ Q Exactive™ HF-X hybrid quadrupole-Orbitrap™ mass spectrometer rises to the challenge as a versatile platform, setting new standards in sensitivity, performance and productivity for any workflow. This mass spectrometer couples a high field Thermo Scientific™ Orbitrap™ mass analyzer with a high capacity transfer tube and electrodynamic ion funnel that maximize ion loading and transmit ions over a broad mass range. As a result, the instrument delivers a bright, focused and ion-rich beam, which translates to high sensitivity and excellent stability in analysis quality from run to run. Smart instrument control features match the superior ion transmission with increased acquisition speed and even more sophisticated data-dependent acquisition and analysis strategies to meet data quality needs at every stage of your work, from discovery to verification and quantitation.

Seyfried Lab Chromatography

Evosep One

The Evosep One is a standardized platform designed for robustness and high throughput. This is achieved by using Evotips as disposable trap columns, where samples are loaded and desalted offline. The autosampler picks up the tip and integrates elution with liquid chromatography. This removes sample handling steps and reduces injection cycle overheads.

Minimal wear and tear on mechanical components is ensured as all elution and gradient formation happen at low pressure. The Evotip is left for disposal after each run, which then allows partial elution to extend column lifetime. Analytically important peptides are effectively retained, and cross-contamination reduced.

Agilent 1290 Infinity II LC

The 1290 Infinity II LC System is an ultra-high performance liquid chromatography instrument (UHPLC) that has market-leading sample capacity and is designed for the lowest dispersion for the most challenging UHPLC experiments. Comparing UHPLC vs HPLC? This ultra HPLC system is designed to be both a HPLC and high-end UHPLC system in a single flow path, giving you robust and excellent performance no matter what application you are running while seamlessly integrating into your existing laboratory environment. The 1290 System embodies the next generation of ultra HPLC, with the exceptional reliability and robustness you expect from Agilent, plus breakthrough UHPLC technologies, to achieve unmatched separation and detection performance.

UltiMate 3000 RSLCnano

Thermo Scientific UltiMate 3000 RSLCnano System

High-throughput, robust and quantitative low-flow LCMS profiling of complex biological matrices. Standardized and easy to deploy high-throughput low-flow LC-MS methods.

Thermo Scientific Vanquish Neo UHPLC

For researchers pursuing the next scientific breakthrough, the Thermo Scientific Vanquish Neo UHPLC system delivers maximum performance 24/7 for reproducible nano-, capillary-, and micro-flow LC-MS. Combining a high degree of innovation with the best-in-class Vanquish platform enhances productivity for novice and expert LC-MS users alike.

Seyfried Lab Mass Spectrometers

Thermo Scientific Q Exactive Plus

Thermo Scientific Q Exactive Plus

Take Quanfirmation™ to the next level. The Thermo Scientific™ Q Exactive™ Hybrid Quadrupole-Orbitrap™ Mass Spectrometer introduced the revolutionary concept of Quanfirmation. The Q Exactive™ Plus Hybrid Quadrupole-Orbitrap™ Mass Spectrometer takes Quanfirmation to the next level with increased performance and new options that enhance applications from confident DMPK qual/quan screening studies to characterization of intact monoclonal antibodies.

Thermo Scientific Orbitrap Exploris 240

Thermo Scientific Orbitrap Exploris 240

The power of leading performance. From small- to large-molecule analyses, the Thermo Scientific Orbitrap Exploris 240 mass spectrometer delivers performance and versatility to drive discovery and identification with the quantitative precision and accuracy to confidently scale up while achieving impact. Operational simplicity with intelligent data acquisition helps you discover your fast track to confident results across a range of applications. Using proven Thermo Scientific Orbitrap mass analyzer technology you can address any challenge and achieve your objectives with excellence.

Thermo Scientific Orbitrap Eclipse with FAIMS

Thermo Scientific Orbitrap Eclipse with FAIMS

The Thermo Scientific™ Orbitrap Eclipse™ Tribrid™ mass spectrometer combines industry-leading versatility and usability with the exceptional performance afforded by its built-in intelligence and revolutionary Thermo Scientific™ Tribrid™ architecture to deliver an instrument designed to address the most difficult analytical challenges. This newest Tribrid platform includes Advanced Ion Management Technology (AIM+) with the new QR5 segmented quadrupole mass filter, Real-Time Search, Enhanced Vacuum Technology, optional Proton Transfer Charge Reduction (PTCR), and optional High Mass Range MSn (HMRn) mode. Collectively, these features make this instrument uniquely suited for accurate and high-throughput full-proteome quantitation, characterization of complex mixtures of protein or small molecule-based pharmaceuticals, and deciphering higher-order protein structures. The Orbitrap Eclipse Tribrid MS makes it easy to tackle these difficult analyses and collect the high-quality data required to drive the right decisions, pushing your science beyond today’s discovery.

The FAIMS Pro interface reduces chemical noise and matrix interferences, resulting in improved assay robustness and increased sensitivity. The FAIMS Pro interface offers separation based on a combination of factors, such as charge state, shape, conformation, and size of gas phase ions. It also improves dynamic range and peak capacity, which are particularly beneficial in some proteomics applications.

Bruker timsTOF HT

Bruker timsTOF HT

The new timsTOF HT mass spectrometer is equipped with the 4th generation high capacity TIMS-XR analyzer and advanced digitizer technology (ADT). It offers higher dynamic range for unmatched analytical depth and quantitation in high-throughput proteomics experiments. The timsTOF HT is fully CCS-enabled and supports all PASEF® acquisition modes including PASEF®, dia-PASEF® and prm-PASEF® achieving flexibility in 4D-Proteomics™. Simply uncompromised proteomic depth at scale.

Agilent Ultivo

Agilent Ultivo

Ultivo is a compact, stackable triple quadrupole LC/MS/MS that eliminates the MS footprint by incorporating the mass spectrometer into the HPLC stack. Representing a transformative approach to triple quadrupole mass spectrometry, Ultivo provides the fit-for-purpose, straightforward, and rugged LC/MS analysis you expect from larger comparable systems, but at a fraction of their size. Innovations such as the miniature Vortex collision cell, Cyclone ion guide, and VacShield provide users with the sensitivity, robustness, reliability, and performance required for the day-in, day-out challenges of high-throughput sample analysis. With the addition of an ESI-only model, and features geared to assist you with 21 CFR Part 11 compliance, the Ultivo miniature mass spectrometer continues to reshape expectations, re-invent capabilities, and redefine what’s possible when small meets powerful.

Agilent 6495C

Agilent 6495C

The 6495C triple quadrupole LC/MS system (6495C LC/TQ) is the highest performance LC/TQ available, and is ideally suited for peptide quantitation as well as applications that require ppt sensitivity. The combination of utmost sensitivity, extended mass range, ease of maintenance, and the power and flexibility of MassHunter makes this the system of choice for demanding applications. Featuring third-generation iFunnel design and VacShield for easy maintenance, the 6495C represents an unrivaled combination of high performance and high reliability.

Thermo Scientific TSQ Altis

Thermo Scientific TSQ Altis

Address the most stringent analytical challenges for targeted quantitation workflows with the Thermo Scientific™ TSQ Altis™ Triple Quadrupole Mass Spectrometer. With its improved Active Ion Management (AIM™) technology, segmented quadrupoles, novel electron multipliers, and enhanced ion transmission tubes, the TSQ Altis MS helps you achieve unprecedented experimental sensitivity for all molecular species in complex matrices without sacrificing robustness.