Thomas A. Neubert

Thomas A. Neubert, PhD

Skirball Institute

Professor, Department of Cell Biology

using mass spectrometry to study proteins and their posttranslational modifications, biophysics, cancer, metabolism, molecular, cellular, & translational neuroscience, pharmacology, proteomics

The main focus of our lab is the study of proteins and their roles in cellular signaling events. While great strides in understanding intracellular signal transduction have been made in recent years by using molecular biological techniques, we feel that a more complete understanding of the dynamics of intracellular decision-making processes can be gained only by studying the proteins directly, or even changes in small molecule metabolites in response to changes in proteins. We use mass spectrometry as the main tool for our studies because of the wide variety of information about protein structure it can provide while requiring only small amounts of protein for analysis. The majority of our work is conducted in collaboration with neuroscientists at NYU or other universities through our NINDS-funded Mass Spectrometry Core for Neuroscience. 

One goal of our research is to identify proteins that interact with each other during specific signaling events. Our lab has a special interest in the study of signal transduction in neurons, especially the neurotrophin signaling pathways. The basic strategy for these experiments is to isolate protein complexes by immunoprecipitation or affinity chromatography, cleave the protein with a specific protease such as trypsin, then determining the amino acid sequences of the peptides by quadrupole-Orbitrap tandem mass spectrometry. The masses and tandem mass spectra (containing peptide sequence information) of the peptides are then used to search genome databases to identify the proteins. To get more information about the relative amounts of each protein that participate in signaling complexes in the stimulated and nonstimulated states, we use stable isotope coding methods (for example, stable isotope labeling in cell culture, or SILAC) or tandem mass tags. In this way we can identify and quantify thousands of proteins in a single experiment.

Another focus of our work is to identify posttranslational modifications on proteins and their roles in cell signaling. In the past we have focused on modifications of single proteins, but more recently we have performed global analyses in which we identify and measure changes in tens of thousands of phosphorylation sites, or thousands of ubiquitination sites, in response to addition of growth factor to cells or disease status. 



Academic office

540 First Avenue, Skirball Institute

Lab 5-18

New York, NY 10016

Lab Website
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These focus areas and their associated publications are derived from medical subject headings from PubMed.
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Professor, Department of Cell Biology

Director - Proteomics Core

PhD from Johns Hopkins University

Huang, Fang-Ke; Zhang, Guoan; Lawlor, Kevin; Nazarian, Arpi; Philip, John; Tempst, Paul; Dephoure, Noah; Neubert, Thomas A

Journal of proteome research. 2017 Mar 03; 16(3):1121-1132

Chen, Huaibin; Marsiglia, William M; Cho, Min-Kyu; Huang, Zhifeng; Deng, Jingjing; Blais, Steven P; Gai, Weiming; Bhattacharya, Shibani; Neubert, Thomas A; Traaseth, Nathaniel J; Mohammadi, Moosa

eLife. 2017 Feb 6; 6:?-?

Choi, Meena; Eren-Dogu, Zeynep F; Colangelo, Christopher; Cottrell, John; Hoopmann, Michael R; Kapp, Eugene A; Kim, Sangtae; Lam, Henry; Neubert, Thomas A; Palmblad, Magnus; Phinney, Brett S; Weintraub, Susan T; MacLean, Brendan; Vitek, Olga

Journal of proteome research. 2017 Feb 03; 16(2):945-957

Amyloid beta oligomerization negatively influences brain clearance mechanisms [Meeting Abstract]

Rostagno, A; Giannoni, P; McIntee, F; Cabrera, E; Neubert, T; Ghiso, J

Neuro-degenerative diseases. 2017; Conference:(13th):626

Kang, Min-Ji; Vasudevan, Deepika; Kang, Kwonyoon; Kim, Kyunggon; Park, Jung-Eun; Zhang, Nan; Zeng, Xiaomei; Neubert, Thomas A; Marr, Michael T 2nd; Don Ryoo, Hyung

Journal of cell biology. 2016 Dec 15; 216(1):115-129

Abdullah, Rashed; Patil, Ketan S; Rosen, Benjamin; Pal, Ramavati; Prabhudesai, Shubhangi; Lee, Sungsu; Basak, Indranil; Hoedt, Esthelle; Yang, Peter; Panick, Keith; Ho, Hsin-Pin; Chang, Emmanuel; Tzoulis, Charalampos; Larsen, Jan Petter; Neubert, Thomas A; Alves, Guido; Moller, Simon G

Molecular neurobiology. 2016 Nov 11; ?-?


Modrek, Aram; Golub, Danielle; Khan, Themasap; Zhang, Guoan; Kader, Michael; Bowman, Christopher; Prado, Jod; Bayin, NSumru; Frenster, Joshua; Lhakhang, Tenzin; Heguy, Adriana; Dankert, John; Tsirigos, Aristotelis; Snuderl, Matija; Neubert, Thomas; Placantonakis, Dimitris

Neuro-oncology. 2016 NOV; 18:187-187

Rosen, Rebecca F; Tomidokoro, Yasushi; Farberg, Aaron S; Dooyema, Jeromy; Ciliax, Brian; Preuss, Todd M; Neubert, Thomas A; Ghiso, Jorge A; LeVine, Harry 3rd; Walker, Lary C

Neurobiology of aging. 2016 Aug; 44:185-196