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MetabolomicsA database of high-resolution MS/MS spectra for lichen metabolites

While analytical techniques in natural products research massively shifted to liquid chromatography-mass spectrometry, lichen chemistry remains reliant on limited analytical methods, Thin Layer Chromatography being the gold standard. To meet the modern standards of metabolomics within lichenochem...

2019-07-22 | MTBLS999 | MetaboLights
MetabolomicsMarine toxins spectral database for dereplication purpose

We present an open access marine toxins spectral database for dereplication purpose using the new tool GNPS MASST.

This interface enables you to search a single MS/MS spectrum against public GNPS spectral libraries including MetaboLights and all public MS/MS datasets.

The database wil...

2020-01-14 | MTBLS599 | MetaboLights
MetabolomicsA Prototypic Small Molecule Database for Bronchoalveolar Lavage-Based Metabolomics
The analysis of bronchoalveolar lavage fluid (BALF) using mass spectrometry-based metabolomics can provide insight into lung diseases, such as asthma. However, the important step of compound identification is hindered by the lack of a small molecule database that is specific for BALF. Here we descri...
2018-02-09 | MTBLS591 | MetaboLights
MetabolomicsAn Expanded Database of High-Resolution MS/MS Spectra for Lichen Derived Natural Products

The history of lichen compound identification has long relied on techniques such as spot tests and TLC, which have been surpassed in sensitivity and accuracy by modern metabolomic techniques such as high-resolution MS/MS. In 2019, Olivier-Jimenez et al. released the Lichen DataBase (LDB), a libra...

2024-10-09 | MTBLS8109 | MetaboLights
MetabolomicsMetabolomic Characterization of Knock-Out Mutants in Arabidopsis - Development of a Metabolite Profiling Database for Knock-Out Mutants in Arabidopsis (MeKO)
Despite recent intensive research efforts in functional genomics, the functions of only a limited number of Arabidopsis (Arabidopsis thaliana) genes have been determined experimentally. Thus, improving gene annotation remains a major challenge in plant science. Because metabolite profiling can chara...
2014-03-01 | MTBLS47 | MetaboLights
ProteomicsLarge scale intact glycopeptide identification by Mascot database search
We present the adaptability of Mascot search engine for automated identification of intact glycopeptide mass spectra. The steps involved in adopting Mascot for intact glycopeptide analysis include: i) assigning unique one letter codes for monosaccharides, ii) linearizing glycan sequences and iii) pr...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-07-02 | MSV000082567 | MassIVE
ProteomicsCommon Repository of FBS Proteins (cRFP) to be added to a search database for mass spectrometric analysis of cell secretome
We propose to use cRFP (common Repository of FBS Proteins) in the MS (mass spectrometry) raw data search of cell secretome. cRFP is a small supplementary sequence list of high abundant fetal bovine serum proteins added to the reference database in use. The aim behind using cRFP is to prevent the con...
ORGANISM(S): Homo sapiens (Human) 
2019-09-04 | PXD015143 | Pride
Common repository of fbs proteins Database search Secretome 
TranscriptomicsGlobal Identification of Protein PTMs in a Single-pass Database Search
Bottom-up proteomics database search algorithms used for peptide identification cannot comprehensively identify posttranslational modifications (PTMs) in a single-pass because of high false discovery rates (FDRs). A new approach to database searching enables Global PTM (G-PTM) identification by excl...
ORGANISM(S): Mus musculus 
2015-07-31 | GSE59956 | GEO
ProteomicsAPIR: a universal FDR-control framework for boosting peptide identification power by aggregating multiple proteomics database search algorithms
Advances in mass spectrometry (MS) have enabled high-throughput analysis of proteomes in biological systems. The state-of-the-art MS data analysis relies on database search algorithms to quantify proteins by identifying peptide-spectrum matches (PSMs), which convert mass spectra to peptide sequences...
ORGANISM(S): Pyrococcus furiosus 
2021-09-21 | PXD028558 | Pride
Pyrococcus furiosus (pfu) Proteomics Complex proteomic standard 
ProteomicsModification localization and quality control for open database search results
Open (mass tolerant) search of tandem mass spectra shows great potential in the comprehensive detection of post-translational modifications in shotgun proteomics. However, this search strategy has not been widely used by the community, and one bottleneck of it is the lack of appropriate algorithms f...
ORGANISM(S): Homo Sapiens 
2019-01-17 | PXD012394 |
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