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MetabolomicsA benchmark spike-in data set for biomarker identification in metabolomics
The development and the validation of innovative approaches for biomarker selection are of paramount importance in many -omics technologies. Unfortunately, the actual testing of new methods on real data is difficult, because in real data sets, one can never be sure about the “true” biomarkers. In th...
2013-10-24 | MTBLS59 | MetaboLights
MetabolomicsUrine Latin Square Spike-In for testing the NMR quantification tool, MetaboQuant
To test the quantification performance of MetaboQuant and other NMR quantification tools, a set of eight metabolites were added to replicates of a urine sample in varying concentrations. The metabolites were alanine, creatinine, histidine, betaine, acetate, phosphocreatine, β-hydroxybutyrate (BHBA) ...
2013-01-10 | MTBLS25 | MetaboLights
MetabolomicsPomegranate Peel Extract as an Inhibitor of SARS-CoV-2 Spike Binding to Human ACE2 Receptor (in vitro): A Promising Source of Novel Antiviral Drugs
Plant extracts are rich in bioactive compounds, such as polyphenols, sesquiterpenes, and triterpenes, which potentially have antiviral activities. As a consequence of the coronavirus disease 2019 pandemic, caused by the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) virus, thousands of...
2021-10-06 | MTBLS2309 | MetaboLights
TranscriptomicsComparison of systematic sequencing errors using spike-in standards
While the importance of random sequencing errors decreases at higher DNA or RNA sequencing depths, systematic sequencing errors (SSEs) dominate at high sequencing depths and can be difficult to distinguish from biological variants. These SSEs can cause base quality scores to underestimate the proba...
ORGANISM(S): Homo sapiens 
2012-03-03 | E-GEOD-36217 | biostudies-arrayexpress
ProteomicsStructural dynamics in the evolution of SARS-CoV-2 spike glycoprotein: HDX-MS analysis of the spike of the original Wuhan isolate, G614 spike mutant, and the isolated ancestral RBD - in apo state and in complex with the ACE2 receptor
The spike glycoprotein of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) mediates binding to the ACE2 receptor and subsequent membrane fusion. It exists in a range of conformations, including a closed state unable to bind the ACE2 receptor, and an open state that does so but displa...
ORGANISM(S): Homo sapiens (Human) 
2023-03-15 | PXD039760 | Pride
Sars-cov-2 Spike glycoprotein Hdx-ms 
ProteomicsStructural dynamics in the evolution of SARS-CoV-2 spike glycoprotein: HDX-MS analysis of the spike of alpha, beta, delta and omicron variants - in apo state and in complex with the ACE2 receptor
The spike glycoprotein of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) mediates binding to the ACE2 receptor and subsequent membrane fusion. It exists in a range of conformations, including a closed state unable to bind the ACE2 receptor, and an open state that does so but displa...
ORGANISM(S): Homo sapiens (Human) 
2023-03-15 | PXD039762 | Pride
Sars-cov-2 Spike glycoprotein Hdx-ms 
TranscriptomicsPreferred analysis methods for Affymetrix GeneChips. II. An expanded, balanced, wholly-defined spike-in dataset
We present a new wholly defined Affymetrix spike-in dataset consisting of 18 microarrays. Over 5700 RNAs are spiked in at relative concentrations ranging from 1- to 4-fold, and the arrays from each condition are balanced with respect to both total RNA amount and degree of positive- versus negative-f...
ORGANISM(S): Drosophila melanogaster 
2010-04-28 | E-GEOD-21344 | biostudies-arrayexpress
Genomics"The Wild West of Spike-in Normalization": Benchmarking the ChIP-seq spike-in normalization method
"The Wild West of Spike-in Normalization": Benchmarking the ChIP-seq spike-in normalization method
PRJNA1144087 | ENA
ProteomicsGlycoprofile Comparison of SARS-CoV-2 Spike Proteins Expressed in CHO and HEK Cell Lines
This study assessed the N-glycosylation profiles of a full-length trimeric spike protein expressed in either HEK or CHO cells. Glycopeptide analysis was performed using a tandem mass spectrometry workflow and BioPharma Finder™ using HEK and CHO glycan databases for protein characterisation. The resu...
ORGANISM(S): Homo sapiens (Human) 
2025-09-15 | PXD054718 | Pride
Covid-19 Hek cells Ms-ms Sars-cov-2 N-glycosylation Cho cells 
GenomicsSensitive and reproducible cell-free methylome quantification with synthetic spike-in controls
We designed spike-in controls for cfMeDIP-seq experiments. These spike-in controls mitigate batch effects and allow for absolute quantification of cell-free DNA.
EGAS00001005069 | EGA
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