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ProteomicsComprehensive peptide quantification for data independent acquisition mass spectrometry using chromatogram libraries
Raw DDA and DIA data to support Searle et al. 2018. Comprehensive peptide quantification for data independent acquisition mass spectrometry using chromatogram libraries. bioRxiv doi:10.1101/277822
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) 
2018-08-08 | MSV000082805 | MassIVE
OtherIdentification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm.
Data obtained from PASSEL: [[https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/PASS_View?datasetPassword=LN8283b&identifier=PASS00024 PASS00024]]. Data file: 93yo_sol_cat_qtof_old_runs_01_23.mgf. Published as part of . From the Abstract: {{i}} ... A complex digest of proteins from human catarac...
ORGANISM(S): Human, Human_adenovirus_54, Human_adenovirus_a, Human_adenovirus_b, Human_adenovirus_c, Human_adenovirus_d, Human_adenovirus_e, Human_adenovirus_f, Human_adenovirus_g, Human_astrovirus, Human_bocavirus, Human_bocavirus_2, Human_bocavirus_3, Human_bocavirus_4, Human_coronavirus_229e, Human_coronavirus_hku1, Human_coronavirus_nl63, Human_coronavirus_oc43, Human_cosavirus_a, Human_cosavirus_b, Human_cosavirus_d, Human_cosavirus_e, Human_enteric_coronavirus_4408, Human_enterovirus_100, Human_enterovirus_a, Human_enterovirus_b, Human_enterovirus_c, Human_enterovirus_d, Human_erythrovirus_v9, Human_herpesvirus_1, Human_herpesvirus_2, Human_herpesvirus_3, Human_herpesvirus_4_type_1, Human_herpesvirus_4_type_2, Human_herpesvirus_5, Human_herpesvirus_6a, Human_herpesvirus_6b, Human_herpesvirus_7, Human_herpesvirus_8_type_p, Human_immunodeficiency_virus_1, Human_immunodeficiency_virus_2, Human_metapneumovirus, Human_papillomavirus_fa75_ki88_03, Human_papillomavirus_rtrx7, Human_papillomavirus_type_10, Human_papillomavirus_type_100, Human_papillomavirus_type_101, Human_papillomavirus_type_103, Human_papillomavirus_type_104, Human_papillomavirus_type_105, Human_papillomavirus_type_108, Human_papillomavirus_type_109, Human_papillomavirus_type_112, Human_papillomavirus_type_113, Human_papillomavirus_type_16, Human_papillomavirus_type_24, Human_papillomavirus_type_26, Human_papillomavirus_type_32, Human_papillomavirus_type_34, Human_papillomavirus_type_4, Human_papillomavirus_type_41, Human_papillomavirus_type_48, Human_papillomavirus_type_49, Human_papillomavirus_type_5, Human_papillomavirus_type_50, Human_papillomavirus_type_53, Human_papillomavirus_type_60, Human_papillomavirus_type_63, Human_papillomavirus_type_6b, Human_papillomavirus_type_7, Human_papillomavirus_type_71, Human_papillomavirus_type_88, Human_papillomavirus_type_9, Human_papillomavirus_type_92, Human_papillomavirus_type_96, Human_papillomavirus_type_98, Human_papillomavirus_type_99, Human_papillomavirus___1, Human_papillomavirus___18, Human_papillomavirus___2, Human_papillomavirus___54, Human_papillomavirus___61, Human_papillomavirus___cand90, Human_parainfluenza_virus_1, Human_parainfluenza_virus_2, Human_parainfluenza_virus_3, Human_parechovirus, Human_parvovirus_4, Human_parvovirus_b19, Human_picobirnavirus, Human_respiratory_syncytial_virus, Human_rhinovirus_a, Human_rhinovirus_b, Human_rhinovirus_c, Human_tmev_like_cardiovirus, Human_t_lymphotropic_virus_1, Human_t_lymphotropic_virus_2, Human_t_lymphotropic_virus_4 
GPM11210015924 | GPMDB
ProteomicsComparison of monoculture to coculture colon cancer cell-line generated spheroids
Chromatogram library generated of pooled sample. Coculture spheroids formed from fibroblast and colon cancer cell lines, and monoculture spheroids formed from the colon cancer cell line HCT116.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-11-13 | MSV000093395 | MassIVE
ProteomicsHigh sensitivity limited material proteomics empowered by data-independent acquisition on linear ion traps
LIT-DIA data from HeLa tryptic peptide dilution series
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-06-24 | MSV000089718 | MassIVE
ProteomicsSingle-point Calibration
Mass spectrometry (MS) measurements are not inherently calibrated. Researchers use various calibration methods to assign meaning to arbitrary signal intensities and improve precision. Internal calibration (IC) methods use internal standards (IS) such as synthesized or recombinant proteins or peptide...
ORGANISM(S): Saccharomyces Cerevisiae 
2019-02-02 | PXD011297 | panorama
ProteomicsMatrix-matched calibration curves
Mass spectrometry is a powerful tool for quantifying protein abundance in complex samples. Advances in sample preparation and the development of data independent acquisition (DIA) mass spectrometry approaches have increased the number of peptides and proteins measured per sample. However, methods to...
ORGANISM(S): Homo Sapiens Saccharomyces Cerevisiae 
PXD014815 | panorama
ProteomicsData-independent acquisition mass spectrometry to quantify protein levels in FFPE tumor biopsies for molecular diagnostics
Mass spectrometry-based protein quantitation is currently used to measure therapeutically relevant protein biomarkers in CAP/CLIA setting to predict likely responses of known therapies. Selected reaction monitoring (SRM) is the method of choice due to its outstanding analytical performance. However,...
ORGANISM(S): Homo Sapiens 
PXD010934 | panorama
ProteomicsLinear Ion Trap Global to Targeted Proteomics: A workflow for targeted proteomics assay development using a versatile linear ion trap
Advances in proteomics and mass spectrometry have enabled the study of limited cell populations, such as single-cell proteomics, where high-mass accuracy instruments are typically required. While triple quadrupoles offer fast and sensitive nominal resolution measurements, these instruments are effec...
ORGANISM(S): Mus Musculus 
PXD052847 | panorama
ProteomicsEvaluating the Performance of the Astral Mass Analyzer for Quantitative Proteomics Using Data Independent Acquisition
We evaluate the quantitative performance of the newly released Asymmetric Track Lossless (Astral) analyzer. Using data independent acquisition, the Orbitrap Astral mass spectrometer quantifies 5 times more peptides per unit time than state-of-the-art Orbitrap mass spectrometers, which have long been...
ORGANISM(S): Homo Sapiens 
PXD042704 | panorama
ProteomicsA Peptide-Centric Quantitative Proteomics Dataset for the Phenotypic Assessment of Alzheimer’s Disease
Alzheimer’s disease (AD) is a looming public health disaster with limited interventions. Desperately needed progress in therapeutic development rests on more detailed understanding of molecular pathogenesis. The vast majority of existing data for AD pathogenesis in humans is from standard neuropatho...
ORGANISM(S): Homo Sapiens 
PXD034525 | panorama
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