Deutsch, Eric W.

Targeted Peptide Measurements in Biology and Medicine: Best Practices for Mass Spectrometry-based Assay Development Using a Fit-for-Purpose Approach

Carr, S. A., Abbatiello, S. E., Ackermann, B. L., Borchers, C., Domon, B., Deutsch, E. W., Grant, R. P., Hoofnagle, A. N., Hüttenhain, R., Koomen, J. M., et al. (2014) · Molecular & Cellular Proteomics

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 561

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project

Taylor, C. F., Field, D., Sansone, S.-A., Aerts, J., Apweiler, R., Ashburner, M., Ball, C. A., Binz, P.-A., Bogue, M., Booth, T., et al. (2008) · Nature Biotechnology

Research Data Management PracticesScientific Computing and Data Management

Cited by 558

Development and validation of a spectral library searching method for peptide identification from MS/MS

Lam, H., Deutsch, E. W., Eddes, J. S., Eng, J. K., King, N., Stein, S. E., & Aebersold, R. (2007) · PROTEOMICS

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 517

Proteome-wide cellular protein concentrations of the human pathogen Leptospira interrogans

Malmström, J., Beck, M., Schmidt, A., Lange, V., Deutsch, E. W., & Aebersold, R. (2009) · Nature

Advanced Proteomics Techniques and ApplicationsLeptospirosis research and findings

Cited by 421

A repository of assays to quantify 10,000 human proteins by SWATH-MS

Rosenberger, G., Koh, C. C., Guo, T., Röst, H. L., Kouvonen, P., Collins, B. C., Heusel, M., Liu, Y., Caron, E., Vichalkovski, A., et al. (2014) · Scientific Data

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 413

The human proteome project: current state and future direction

Legrain, P., Aebersold, R., Archakov, A., Bairoch, A., Bala, K., Beretta, L., Bergeron, J., Borchers, C. H., Corthals, G. L., Costello, C. E., et al. (2011) · Molecular & Cellular Proteomics

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 352

A HUPO test sample study reveals common problems in mass spectrometry–based proteomics

HUPO Test Sample Working Group, Bell, A. W., Deutsch, E. W., Au, C. E., Kearney, R. E., Beavis, R., Sechi, S., Nilsson, T., & Bergeron, J. J. M. (2009) · Nature Methods

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 351

Trans‐Proteomic Pipeline, a standardized data processing pipeline for large‐scale reproducible proteomics informatics

Deutsch, E. W., Mendoza, L., Shteynberg, D., Slagel, J., Sun, Z., & Moritz, R. L. (2015) · PROTEOMICS – Clinical Applications

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 342

A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis

Picotti, P., Clément-Ziza, M., Lam, H., Campbell, D. S., Schmidt, A., Deutsch, E. W., Röst, H., Sun, Z., Rinner, O., Reiter, L., et al. (2013) · Nature

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 318

Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome

Kusebauch, U., Campbell, D. S., Deutsch, E. W., Chu, C. S., Spicer, D. A., Brusniak, M.-Y., Slagel, J., Sun, Z., Stevens, J., Grimes, B., et al. (2016) · Cell

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 310

The chromosome-centric human proteome project for cataloging proteins encoded in the genome

Paik, Y.-K., Jeong, S.-K., Omenn, G. S., Uhlen, M., Hanash, S., Cho, S. Y., Lee, H.-J., Na, K., Choi, E.-Y., Yan, F., et al. (2012) · Nature Biotechnology

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 288

A high-stringency blueprint of the human proteome

Adhikari, S., Nice, E. C., Deutsch, E. W., Lane, L., Omenn, G. S., Pennington, S. R., Paik, Y.-K., Overall, C. M., Corrales, F. J., Cristea, I. M., et al. (2020) · Nature Communications

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 210

Visual proteomics of the human pathogen Leptospira interrogans

Beck, M., Malmström, J. A., Lange, V., Schmidt, A., Deutsch, E. W., & Aebersold, R. (2009) · Nature Methods

Advanced Electron Microscopy Techniques and ApplicationsAdvanced Proteomics Techniques and Applications

Cited by 156

Predictive Big Data Analytics: A Study of Parkinson’s Disease Using Large, Complex, Heterogeneous, Incongruent, Multi-Source and Incomplete Observations

Dinov, I. D., Heavner, B., Tang, M., Glusman, G., Chard, K., Darcy, M., Madduri, R., Pa, J., Spino, C., Kesselman, C., et al. (2016) · PLOS ONE

Artificial Intelligence in HealthcareParkinson's Disease Mechanisms and Treatments

Cited by 145

Metrics for the Human Proteome Project 2013–2014 and Strategies for Finding Missing Proteins

Lane, L., Bairoch, A., Beavis, R. C., Deutsch, E. W., Gaudet, P., Lundberg, E., & Omenn, G. S. (2014) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 129

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0

Deutsch, E. W., Lane, L., Overall, C. M., Bandeira, N., Baker, M. S., Pineau, C., Moritz, R. L., Corrales, F., Orchard, S., Van Eyk, J. E., et al. (2019) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 122

State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet

Deutsch, E. W., Sun, Z., Campbell, D., Kusebauch, U., Chu, C. S., Mendoza, L., Shteynberg, D., Omenn, G. S., & Moritz, R. L. (2015) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

Cited by 80

Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project

Omenn, G. S., Lane, L., Overall, C. M., Corrales, F. J., Schwenk, J. M., Paik, Y.-K., Van Eyk, J. E., Liu, S., Pennington, S., Snyder, M. P., et al. (2019) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 40

Toward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical Methods

Paik, Y.-K., Overall, C. M., Corrales, F., Deutsch, E. W., Lane, L., & Omenn, G. S. (2018) · Journal of Proteome Research

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

Cited by 21

Evaluation of PE5 Entries on the Human Proteome Project Target List

Zheng, C., Andken, M., Mudge, J. M., Magrane, M., Orchard, S., Sun, Z., & Deutsch, E. W. (2025) · Journal of Proteome Research

Genomics and Phylogenetic StudiesAdvanced Proteomics Techniques and Applications

Cited by 1