NIST Ion Trap Human Spectral Library.
Ontology highlight
ABSTRACT:
INSTRUMENT(S): LTQ Orbitrap
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
SUBMITTER: NIST
PROVIDER: MSV000079337 | MassIVE | Thu Oct 01 14:59:00 BST 2015
REPOSITORIES: MassIVE
Similar Datasets
Project description:A specialised spectral ion reference library for use in data independent acquisition mass spectrometry applications for the purposes of skin specific research with a particular focus on melanoma and keratinocytic carcinoma
2021-08-23 | PXD025791 | Pride
Project description:We created a multi-disease spectral library using 100 serum samples obtained from five patient groups, including healthy controls (n=20), Bechet's disease (n=20), non-small cell lung cancer (n=20) and liver diseases (n=20). The multi-disease spectral library included a total of 9,104 precursors and 1,254 proteins.
2023-03-06 | PXD040603 |
Project description:We constructed a comprehensive Arabidopsis Spectral Assay library that is useful for DIA/SWATH-MS quantitative proteome analysis.
2019-11-06 | PXD012710 | Pride
Project description:We constructed a comprehensive Arabidopsis Spectral Assay library that is useful for DIA/SWATH-MS quantitative proteome analysis.
2019-11-06 | PXD012708 | Pride
Project description:Data independent acquisition (DIA or DIA/SWATH ) mass spectrometry has emerged as a primary measurement strategy in the field of quantitative proteomics. diaPASEF is a recent adaptation that leverages trapped ion mobility spectrometry (TIMS) to improve selectivity and increase sensitivity. The complex fragmentation spectra generated by co-isolation of peptides in DIA mode are most typically analyzed with reference to prior knowledge in the form of spectral libraries. The best established method for generating libraries uses data dependent acquisition (DDA) mode, or DIA mode if appropriately deconvoluted, often including offline fractionation to increase depth of coverage,to create spectral libraries. More recently strategies for spectral library generation based on gas phase fractionation (GPF), where a representative sample is injected serially using narrow window DIA methods designed to cover different slices of the precursor space, have been introduced and performed comparably to deep offline fractionation-based libraries for DIA data analysis. Here, we investigated whether an analogous GPF-based library building approach that accounts for the ion mobility (IM) dimension is useful for the analysis of diaPASEF data and can remove the need for offline fractionation. To enable a rapid library development approach for diaPASEF we designed a GPF acquisition scheme covering the majority of multiply charged precursors in the m/z vs 1/K0 space requiring 7 injections of a representative sample and compared this with libraries generated by direct deconvolution-based analysis of diaPASEF data or by deep offline fractionation and ddaPASEF. . We found that the GPF based library outperformed library generation by direct deconvolution of the diaPASEF data, and performed comparably to deep offline fractionation libraries, when analysing diaPASEF data acquired from 200ng of commercial HeLa digest. With the ion mobility integrated GPF scheme we establish a pragmatic approach to rapid and comprehensive library generation for the analysis of diaPASEF data.
2023-08-18 | PXD039343 | Pride
Project description:Data independent acquisition (DIA or DIA/SWATH ) mass spectrometry has emerged as a primary measurement strategy in the field of quantitative proteomics. diaPASEF is a recent adaptation that leverages trapped ion mobility spectrometry (TIMS) to improve selectivity and increase sensitivity. The complex fragmentation spectra generated by co-isolation of peptides in DIA mode are most typically analyzed with reference to prior knowledge in the form of spectral libraries. The best established method for generating libraries uses data dependent acquisition (DDA) mode, or DIA mode if appropriately deconvoluted, often including offline fractionation to increase depth of coverage,to create spectral libraries. More recently strategies for spectral library generation based on gas phase fractionation (GPF), where a representative sample is injected serially using narrow window DIA methods designed to cover different slices of the precursor space, have been introduced and performed comparably to deep offline fractionation-based libraries for DIA data analysis. Here, we investigated whether an analogous GPF-based library building approach that accounts for the ion mobility (IM) dimension is useful for the analysis of diaPASEF data and can remove the need for offline fractionation. To enable a rapid library development approach for diaPASEF we designed a GPF acquisition scheme covering the majority of multiply charged precursors in the m/z vs 1/K0 space requiring 7 injections of a representative sample and compared this with libraries generated by direct deconvolution-based analysis of diaPASEF data or by deep offline fractionation and ddaPASEF. . We found that the GPF based library outperformed library generation by direct deconvolution of the diaPASEF data, and performed comparably to deep offline fractionation libraries, when analysing diaPASEF data acquired from 200ng of commercial HeLa digest. With the ion mobility integrated GPF scheme we establish a pragmatic approach to rapid and comprehensive library generation for the analysis of diaPASEF data.
2022-08-12 | PXD034640 | Pride
Project description:A comprehensive and high-quality E. coli spectral assay library for 56,182 proteotypic peptides mapped to 4,014 (91.5%) of the 4,389 annotated proteins using one- and two-dimensional fractionated samples, and ion mobility separation.
2020-10-19 | PXD020761 | Pride
Project description:A comprehensive and high-quality E. coli spectral assay library for 56,182 proteotypic peptides mapped to 4,014 (91.5%) of the 4,389 annotated proteins using one- and two-dimensional fractionated samples, and ion mobility separation.
2020-10-19 | PXD020785 | Pride
Project description:For a comprehensive analysis of the human serum proteome, we constructed a spectral library for DIA-MS. Our spectral library contained information on 20,303 peptides derived from 1,597 human serum proteins. We believe that the constructed spectral library will be useful for proteomic analysis of human serum by DIA-MS.
2024-04-10 | PXD041558 | JPOST Repository
Project description:<p>Accurate metabolite identification remains one of the primary challenges in a metabolomics study. A reliable chemical spectral library increases the confidence in annotation, and the availability of raw and annotated data in public databases facilitates the transfer of Liquid chromatography coupled to mass spectrometry (LC–MS) methods across laboratories. Here, we illustrate how the combination of MS2 spectra, accurate mass, and retention time can improve the confidence of annotation and provide techniques to create a reliable library for all ion fragmentation (AIF) data with a focus on the characterization of the retention time. The resulting spectral library incorporates information on adducts and in-source fragmentation in AIF data, while noise peaks are effectively minimized through multiple deconvolution processes. We also report the development of the Mass Spectral LIbrary MAnager (MS-LIMA) tool to accelerate library sharing and transfer across laboratories. This library construction strategy improves the confidence in annotation for AIF data in LC–MS-based metabolomics and will facilitate the sharing of retention time and mass spectral data in the metabolomics community.</p>
2019-10-30 | MTBLS1040 | MetaboLights