New Views of Old Proteins: Clarifying the Enigmatic Proteome

Kristin E Burnum-Johnson; Thomas P Conrads; Richard R Drake; Amy E Herr; Ravi Iyengar; Ryan T Kelly; Emma Lundberg; Michael J MacCoss; Alexandra Naba; Garry P Nolan; Pavel A Pevzner; Karin D Rodland; Salvatore Sechi; Nikolai Slavov; Jeffrey M Spraggins; Jennifer E Van Eyk; Marc Vidal; Christine Vogel; David R Walt; Neil L Kelleher

doi:10.1016/j.mcpro.2022.100254

New Views of Old Proteins: Clarifying the Enigmatic Proteome

Mol Cell Proteomics. 2022 Jul;21(7):100254. doi: 10.1016/j.mcpro.2022.100254. Epub 2022 May 30.

Authors

Kristin E Burnum-Johnson¹, Thomas P Conrads², Richard R Drake³, Amy E Herr⁴, Ravi Iyengar⁵, Ryan T Kelly⁶, Emma Lundberg⁷, Michael J MacCoss⁸, Alexandra Naba⁹, Garry P Nolan¹⁰, Pavel A Pevzner¹¹, Karin D Rodland¹², Salvatore Sechi¹³, Nikolai Slavov¹⁴, Jeffrey M Spraggins¹⁵, Jennifer E Van Eyk¹⁶, Marc Vidal¹⁷, Christine Vogel¹⁸, David R Walt¹⁹, Neil L Kelleher²⁰

Affiliations

¹ The Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, USA. Electronic address: kristin.burnum-johnson@pnnl.gov.
² Inova Women's Service Line, Inova Health System, Falls Church, Virginia, USA.
³ Cell and Molecular Pharmacology and Experimental Therapeutics, Medical University of South Carolina, Charleston, South Carolina, USA.
⁴ Department of Bioengineering, University of California, Berkeley, California, USA.
⁵ Department of Pharmacology and Systems Therapeutics, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
⁶ Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah, USA.
⁷ Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden.
⁸ Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
⁹ Department of Physiology and Biophysics, University of Illinois at Chicago, Chicago, Illinois, USA.
¹⁰ Department of Pathology, Stanford University, Stanford, California, USA.
¹¹ Department of Computer Science and Engineering, University of California at San Diego, San Diego, California, USA.
¹² Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, USA.
¹³ National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA.
¹⁴ Department of Bioengineering, Northeastern University, Boston, Massachusetts, USA.
¹⁵ Department of Cell and Developmental Biology, Mass Spectrometry Research Center, Vanderbilt University, Nashville, Tennessee, USA.
¹⁶ Advanced Clinical Biosystems Institute in the Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California, USA.
¹⁷ Department of Genetics, Harvard University, Cambridge, Massachusetts, USA.
¹⁸ New York University Center for Genomics and Systems Biology, New York University, New York, New York, USA.
¹⁹ Department of Pathology, Harvard Medical School, Brigham and Women's Hospital, Wyss Institute at Harvard University, Boston, Massachusetts, USA.
²⁰ Department of Chemistry, Northwestern University, Evanston, Illinois, USA. Electronic address: n-kelleher@northwestern.edu.

Abstract

All human diseases involve proteins, yet our current tools to characterize and quantify them are limited. To better elucidate proteins across space, time, and molecular composition, we provide a >10 years of projection for technologies to meet the challenges that protein biology presents. With a broad perspective, we discuss grand opportunities to transition the science of proteomics into a more propulsive enterprise. Extrapolating recent trends, we describe a next generation of approaches to define, quantify, and visualize the multiple dimensions of the proteome, thereby transforming our understanding and interactions with human disease in the coming decade.

Keywords: biotechnology; proteins; proteomics; single-cell biology; single-molecule sequencing.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Humans
Proteome* / metabolism
Proteomics* / methods

Substances

Proteome

Abstract

Publication types

MeSH terms

Substances

Grants and funding