Proteomics

Dataset Information

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Data for demonstrating new features in compareMS2 2.0


ABSTRACT: This submission contains datasets from several species used to demonstrate new features in compareMS2 2.0. Tandem mass spectrometry data from California sea lion, chimpanzee, dog, human, rock hyrax, and white-tailed deer sera were graciously provided with permission from an ongoing collaboration with Dr. Michael G. Janech (College of Charleston) as part of the CoMPARe Program (Comparative Mammalian Proteome Aggregator Resource). Specifically, the California sea lion sera were provided by The Marine Mammal Center (Sausalito, CA), the chimpanzee, rock hyrax, and white-tailed deer sera were provided by The Chattanooga Zoo, and the dog serum from Gus (Ohlandt Veterinary Clinic, Charleston, SC). In addition to institutional and NMFS permits and approval, data collection was performed under NIST ACUC MML-AR20-0001. The identification of certain commercial equipment, instruments, software, or materials does not imply recommendation or endorsement by the National Institute of Standards and Technology, nor does it imply that the products identified are necessarily the best available for the purpose.

INSTRUMENT(S): Orbitrap Fusion Lumos, amaZon ETD

ORGANISM(S): Zalophus Californianus Homo Sapiens (human) Escherichia Coli Pan Troglodytes (chimpanzee) Odocoileus Virginianus Canis Lupus Familiaris Procavia Capensis

TISSUE(S): Blood Plasma, Cell Culture, Blood Serum

SUBMITTER: Magnus Palmblad  

LAB HEAD: Magnus Palmblad

PROVIDER: PXD034932 | Pride | 2022-10-06

REPOSITORIES: Pride

Dataset's files

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Publications

compareMS2 2.0: An Improved Software for Comparing Tandem Mass Spectrometry Datasets.

Marissen Rob R   Varunjikar Madhushri S MS   Laros Jeroen F J JFJ   Rasinger Josef D JD   Neely Benjamin A BA   Palmblad Magnus M  

Journal of proteome research 20220929 2


It has long been known that biological species can be identified from mass spectrometry data alone. Ten years ago, we described a method and software tool, compareMS2, for calculating a distance between sets of tandem mass spectra, as routinely collected in proteomics. This method has seen use in species identification and mixture characterization in food and feed products, as well as other applications. Here, we present the first major update of this software, including a new metric, a graphica  ...[more]

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