Deep Convolutional Neural Networks Help Scoring Tandem Mass Spectrometry Data in Database-Searching Approaches

2021 ◽  
Vol 20 (10) ◽  
pp. 4708-4717
Author(s):  
Polina Kudriavtseva ◽  
Matvey Kashkinov ◽  
Attila Kertész-Farkas
Keyword(s):  
Mass Spectrometry ◽  
Neural Networks ◽  
Tandem Mass Spectrometry ◽  
Convolutional Neural Networks ◽  
Mass Spectrometry Data ◽  
Database Searching ◽  
Tandem Mass ◽  
Deep Convolutional Neural Networks ◽  
Tandem Mass Spectrometry Data

scholarly journals XMAn v2—a database of Homo sapiens mutated peptides

2019 ◽  
Author(s):  
Marcela Aguilera Flores ◽  
Iulia M Lazar
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Homo Sapiens ◽  
Amino Acid Sequences ◽  
Mass Spectrometry Data ◽  
Supplementary Information ◽  
Tandem Mass ◽  
Mass Spectrometry Detection ◽  
Nonsense Mutations ◽  
Tandem Mass Spectrometry Data

Abstract Summary The ‘Unknown Mutation Analysis (XMAn)’ database is a compilation of Homo sapiens mutated peptides in FASTA format, that was constructed for facilitating the identification of protein sequence alterations by tandem mass spectrometry detection. The database comprises 2 539 031 non-redundant mutated entries from 17 599 proteins, of which 2 377 103 are missense and 161 928 are nonsense mutations. It can be used in conjunction with search engines that seek the identification of peptide amino acid sequences by matching experimental tandem mass spectrometry data to theoretical sequences from a database. Availability and implementation XMAn v2 can be accessed from github.com/lazarlab/XMAnv2. Supplementary information Supplementary data are available at Bioinformatics online.

Implementation and application of a versatile clustering tool for tandem mass spectrometry data

PROTEOMICS ◽  
2007 ◽  
Vol 7 (18) ◽  
pp. 3245-3258 ◽  
Author(s):  
Kristian Flikka ◽  
Jeroen Meukens ◽  
Kenny Helsens ◽  
Joël Vandekerckhove ◽  
Ingvar Eidhammer ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Mass Spectrometry Data ◽  
Tandem Mass ◽  
Tandem Mass Spectrometry Data

Correction to Computing Fragmentation Trees from Tandem Mass Spectrometry Data

2011 ◽  
Vol 83 (17) ◽  
pp. 6911-6911
Author(s):  
Florian Rasche ◽  
Aleš Svatoš ◽  
Ravi Kumar Maddula ◽  
Christoph Böttcher ◽  
Sebastian Böcker
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Mass Spectrometry Data ◽  
Tandem Mass ◽  
Fragmentation Trees ◽  
Tandem Mass Spectrometry Data

scholarly journals In-depth Analysis of Tandem Mass Spectrometry Data from Disparate Instrument Types

2008 ◽  
Vol 7 (12) ◽  
pp. 2386-2398 ◽  
Author(s):  
Robert J. Chalkley ◽  
Peter R. Baker ◽  
Katalin F. Medzihradszky ◽  
Aenoch J. Lynn ◽  
A. L. Burlingame
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Mass Spectrometry Data ◽  
Tandem Mass ◽  
Depth Analysis ◽  
Tandem Mass Spectrometry Data
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