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Biotechnology

Proteomics

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Displaying 51 - 75 of 89

Universal Spectrum Identifier for mass spectra

July 2, 2021
Author(s)
Eric Deutsch, Yasset Perez-Riverol, Jeremy Carver, Shin Kawano, Luis Mendoza, Tim Van Den Bossche, Ralf Gabriels, Pierre-Alain Binz, Benjamin Pullman, Zhi Sun, Jim Shofstahl, Wout Bittremeieux, Tytus Mak, Joshua Klein, Yunping Zhu, Henry Lam, Juan Antonio Vizcaino, Nuno Bandeira
Mass spectra provide the ultimate evidence to support the findings of mass spectrometry proteomics studies in publications, and it is therefore crucial to be able to trace the conclusions back to the spectra. The Universal Spectrum Identifier (USI)

Surveying the vampire bat (Desmodus rotundus) serum proteome: a resource for identifying immunological proteins and detecting pathogens

April 10, 2021
Author(s)
Ben Neely, Michael G. Janech, Alison Bland, Brock Fenton, Nancy B. Simmons, Daniel J. Becker
Bats (Order: Chiroptera) are increasingly studied as model systems for longevity and for their ability to seemingly tolerate typically virulent viruses without showing clinical disease. Yet our ability to characterize immune mechanisms of viral tolerance

Development of an LC-MS/MS Reference Method for the Standardization of Analytical Methods to Measure Lipoprotein(a) in Plasma

April 1, 2021
Author(s)
Santica Marcovina, Noemie Clouet-Foraison, Marlys Koschinsky, Mark Lowenthal, Michael Boffa, Andrew Hoofnagle, Tomas Vaisar
Background: Use of Lipoprotein(a) levels for identification of individuals at high risk for cardiovascular disease is hampered by the high size polymorphism of apolipoprotein(a) which strongly impacts immunochemical methods resulting in discordant values

Proteomics in non-model organisms: a new analytical frontier

August 9, 2020
Author(s)
Michelle Heck, Ben Neely
For the last century we have relied on model organisms to help understand fundamental biological processes. Now, with advancements in genome sequencing, assembly and annotation, non-model organisms may be studied with the same advanced bioanalytical

A Single Amino Acid Substitution Alters ClpS Binding Specificity

March 27, 2020
Author(s)
Christina Bergonzo, Jennifer A. Tullman, Kunal Dharmadhikari, Emily Samuels, Makenzie Christensen
ClpS is a small protein currently under development as a probe for detecting specific N-terminal amino acids of peptides. In order for ClpS to be used in this manner, it is important to understand the structural reasons for how and why ClpS recognizes

Mass spectrometry enumeration of filamentous M13 bacteriophage

July 2, 2019
Author(s)
Tingting Wang, Ai Nguyen, Linwen Zhang, Illarion Turko
In the last decade, filamentous M13 bacteriophage has emerged into numerous biotechnological applications as a promising nontoxic and self-assembling biomaterial with specific binding properties. This raises a question about its upscale production that

Hydrogen-Deuterium Exchange Mass Spectrometry (HDX-MS) Centroid Data Measured between 3.6 degC and 25.4 degC for the Fab Fragment of NISTmAb

May 2, 2019
Author(s)
Jeffrey W. Hudgens, Elyssia S. Gallagher, Ioannis L. Karageorgos, Kyle W. Anderson, Richard Y. Huang, Guodong Chen, George M. Bou-Assaf, Alfonso Espada, Michael J. Chalmers, Edu Harguindey, Hui-Min Zhang, Benjamin T. Walters, Jennifer Zhang, John Venable, Caitlin Steckler, In Hee Park, Ansgar Brock, Xiaojun Lu, Ratnesh Pandey, Arun Chandramohan, Ganesh Srinivasan Anand, Sasidhar N. Nirudodhi, Justin Sperry, Jason C. Rouse, James A. Carroll, Kasper D. Rand, Ulrike Leurs, David D. Weis, Mohammed A. Al-Naqshabandi, Daniel Deredge, Patrick Wintrode, Malvina Papanastasiou, John D. Lambris, Sheng Li, Sarah Urata
The spreadsheet file reported herein provides centroid data, descriptive of deuterium uptake, for the Fab Fragment of NISTmAb (PDB: 5K8A) reference material, as measured by the bottom-up hydrogen-deuterium exchange mass spectrometry (HDX-MS) method. The

Targeting hMSC Response via Surface Carbonyl Groups, Contact Angle, and Protein Interactions

March 1, 2019
Author(s)
Max J. Lerman, Shinichiro N. Muramoto, Navein Arumugasaamy, Michael Van Order, Josephine Lembong, Anushka Gerald, John Gillen, John P. Fisher
Traditional 2D culture systems made of polystyrene (PS) require the addition of surface chemistry beyond the nominal phenyl groups present to facilitate and encourage cell adhesion. Determining the surface properties which enhance protein adhesion from

Progress and Challenges in Ocean Metaproteomics and Proposed Best Practices for Data Sharing

January 31, 2019
Author(s)
Mak Saito, Erin Bertrand, Megan Duffy, David Gaylord, Noelle Held, Judson Harvey, Robert Hettich, Pratik Jagtap, Michael G. Janech, Danie Kinkade, Dasha Leary, Matt McIlvin, Eli Moore, Robert Morris, Ben Neely, Brook Nunn, Jaclyn Sanders, Adam Shepherd, Nick Symmonds, David Walsh
Ocean metaproteomics is an emerging field that provides an exciting new datatype with potential to enable discoveries regarding marine microbial communities and their underlying impact on global biogeochemical processes. For example, recent ocean

The integration of emerging omics approaches to advance precision medicine: How can regulatory science help?

December 6, 2018
Author(s)
Mark S. Lowenthal, Christina M. Jones, Joan Adamo, Robert Bienvenu, Owen Fields, Soma Ghosh, Michael Liebman, Robert Schuck, Scott Steele
Building on the recent advances in next-generation sequencing, the integration of genomics, proteomics, metabolomics, and other approaches hold tremendous promise for precision medicine. The approval and adoption of these rapidly advancing technologies and

Harmonization of LC-MS/MS protein assays

September 24, 2018
Author(s)
Alan L. Rockwood, Mark Lowenthal, Cory Bystrom
Harmonization of diagnostic test results is fundamental to the effective use of laboratory testing in the diagnosis, treatment and monitoring of disease. Formal approaches to harmonization and standardization provide a rigorous and high quality Roadmap to
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