News & Announcements

May 26, 2016. First 'real sample analyzed on the Sohn Conference Foundation founded  'The Sohn Spectrometer' (Fusion Lumos mass spectrometer).


May 19, 2016. The installation of the Fusion Lumos mass spectrometer founded by the Sohn Conference Foundation is completed. The mass spectrometer (aka: 'The Sohn Spectrometer') is expected to be fully implemented August 2016. 


April 1, 2016. A 'Proteome Discoverer' data interpretation cheat sheet has been generated and is available for download here


January 8, 2016. The Rita and Frits Markus Library at Rockefeller University and the Memorial Sloan Kettering Library are collaborating to collect information in regards to the scholarly communication and data management practices in labs at both campuses.

To help us understand the potential services we can develop to support our researchers, we are currently conducting a survey of our respective research communities. The survey takes approximately ten minutes and can be completed by someone familiar with the lab’s publication and data management practices.


August, 2015. The Sohn Conference Foundation has approved a Grant of $800,000  for a new state-of-the-art mass spectrometer for the Proteomics Resource Center. 


July 1, 2015.  Ian Maze's paper: Critical Role of Histone Turnover in Neuronal Transcription and Plasticity is accepted. The report investigates the dynamic of Histone 3.x using a wide range of technologies and is indeed a 'heavy-on-data' report. 


June 11, 2015. The Q-Exactive mass spectromter founded by the Leona M. and Harry B. Helmsley Charitable Trust has been upgraded to a Q-Exactive Plus.

February 28, 2014. End of February Brian Dill, Ph.D. ( started as a scientist in the Center. Brian contributes with a strong background in biology and several years of experience in global proteomics.

June 7, 2013.  The Proteomics Resource Center of the Rockefeller University has an immediate opening for a Research Support Specialist in the area of mass spectrometry/proteomics (position # IRC13775). The successful candidate will support highly recognized research programs at Rockefeller University located in the New York City. The complete description can be found at: Update on Feburary 28, 2014: The position has been filled.

May 17, 2013: 
A new  'CUSTOM PEPTIDE & PEPTIDE LIBRARY SUBMISSION FORMhave been made avaiable. The new form is designed with ease-of-use in mind using drop-down menus and check boxes. Feed back will be appreciated.

May 12, 2013: After years of experience in supplying peptides to the Rockefeller University community we know that some peptides are needed again and again. We therefore keep a group of stock peptides, often used for Affinity PurificationImmunological StudiesCEF Controlyeast and histone biology. These stock peptides can be supplied same day or next day depending on your location. Amount can be as required by the experimenter but commonly 25-50 milligrams of elution peptides are required, 10 milligrams of peptide for immunological study and multiples of 100 milligrams for alpha factor. Should you find peptides that you often use to be missing from these lists please contact us so that we may add them for you. List of 'Stock Peptides' available here.

October 3, 2012:  The MALDI STR mass spectrometer (designed more than a decade ago) has been equipped with an updated computer and operating system (Windows XP Professional). The Achilles heel of this particular MALDI mass spectrometer has been a rather old computer and a newer computer will hopefully prolong the life of this important User instrument.

July 1, 2012:
A new price scheme has been introduced ( Because MS based proteomics is often used as discovery/hypothesis-free strategy samples matrixes varies considerably. It is wrong to treat all samples alike and the Proteomics Resource Center at The Rockefeller University therefore conducts experiments using a 'tool box' where each tools is priced accordingly. This allows tailoring of a proteomics experiment to an individual sample, and at the same time allow for fair and transparent pricing of experiments.

April 10, 2012: Q-Exactive mass spectrometer has now been incorporated into workflows at the Proteomics Resource Center. The first larger data analysis has been completed and in a GeLCMS approach (12 gel slices of a human cell lysate) 4,500 proteins were matched at a False Discovery Rate (FDR) of 1%. 

Febuary 9, 2012: A new mass spectrometer (Q-Exactive) coupled with HPLC has been installed at the Center.  The new setup is expected to be available for analysis mid-March.  The new mass spectrometer is founded by the Leona M. and Harry B. Helmsley Charitable Trust.

January 6, 2012:
In an effort to simplify the usage computation for the walk-up user instrumentation, we will require you to log in to the Voyager MALDI and/or the Typhoon Scanner with your RU email log-in name. The password will be sent to your email address this month.  The first time you use the Voyager MALDI and the Typhoon Scanner after having received your individual password we encourage you to change the password to one of your choice.  New users and anyone who does not receive a password should see Susan R. Powell in RRB 157 or contact her at x8446 or email:

The 'old' way of logging used time (and user) in the time sheet hard copy will be in place until February 1, 2011. Hereafter, the use of username and password will be mandatory when accessing the instrument(s).

December 2, 2011:
The Proteomics Resource Center has placed an order for an additional HPLC equipped state-of-the-art mass spectrometer. The new mass spectrometer Q-Exactive (launched by ThermoScientific at ASMS Annual Conference in June this year) will be coupled to a Dionex nano-flow HPLC system. The Q-Exactive is a hybrid mass spectrometer composed of a quadrupole and an orbitrap and will be able to deliver not only high resolution and sub-ppm mass accuracy data for peptides, but it will also enable mass measurement of fragmented peptides with high-resolution and accurate-mass (HR/AM). All ions will be detected in the orbitrap. The new system is planned to be used mainly for PTM analysis and global proteomics. Expected delivery: Early 2012.

October 6, 2011: 
The Proteomics Resource Center implemented analysis of proteomics data using a combination of Proteome Discoverer and the MASCOT tandem MS search algorithm. The input to Proteome Discoverer is the raw data file produced by the mass spectrometer, compared to some other platforms that are limited to the use of extracted peak lists.  Utilization of the raw data allows for the generation of ion traces for matched peptides and corresponding area scan can be used in the analysis. This particular feature is used in a rough quantitation mode that is based on the average area of the-three-most-abundant-peptides matched to a protein. The software also allows for some annotation (Molecular FunctionCellular ComponentBiological Process and Pfam ID) of known proteins.  The result report format with be offered as Excel spreadsheet or in the Proteome Discoverer format (.msf). The latter is only available for PC.

Proteome Discoverer screenshot

Above: Screenshot of the Proteome Discoverer analysis output. Annotations are shown as color codes. The numbers in the column labeled 'Area' can be used to estimate abundance of the major component in a sample. Here, two proteins are approximately 10 times more abundant than the one named 'helicase'.

September 1, 2011:
  Dr. Henrik Molina was appointed Director of the Proteomics Resource Center and Research Assistant Professor on September 1, 2011.  Dr. Molina received his Ph.D. from the University of Southern Denmark, while working in the Laboratory of Dr. Akhilesh Pandey at the Johns Hopkins University.  He completed a postdoctoral position with Pandey’s Laboratory before assuming direction of the Proteomic Core at the Center for Genome Regulation (CRG), Barcelona, a position he held until immediately before starting at Rockefeller. Henrik Molina's experience also counts 5 years in a proteomics based biotech company co-founded by Matthias Mann.

Henrik Molina can be contacted at ext. 7525 or by email at hmolina [a] rockefeller dot edu.







May 26, 2016. First 'real sample analyzed on the Sohn Conference Foundation founded  'The Sohn Spectrometer' (Fusion Lumos mass spectrometer). May 19, 2016.&n