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ProteomicsMaxLFQ label-free quantification algorithm benchmark datasets
We developed a set of algorithms for label-free quantification, termed MaxLFQ, embedded into MaxQuant. This contains two datasets to benchmark MaxLFQ: The proteome benchmark dataset consists of of HeLa and E. coli lysates mixed at defined ratios. The dynamic range benchmark dataset consists of UPS1...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) Homo Sapiens (ncbitaxon:9606) 
2017-12-19 | MSV000081831 | MassIVE
ProteomicsRobust collection and processing for label-free single voxel proteomics
With advanced mass spectrometry (MS)-based proteomics, genome-scale proteome coverage can be achieved from bulk tissues. However, such bulk measurement lacks spatial resolution and obscures important tissue heterogeneity, which make it impossible for proteome mapping of tissue microenvironment. Here...
ORGANISM(S): Homo Sapiens (human) 
2024-11-01 | PXD045043 | JPOST Repository
ProteomicsReproducibility of label-free single-shot phosphoproteomics applied to CRC cell lines
There is a need for robust phosphopeptide enrichment methods to allow signaling network analysis in cancer cell lines and tissues with minimal fractionation. With recent instrument developments thousands of unique phosphopeptides can be detected by single-shot LC-MS/MS. However, successful phosphopr...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-28 | MSV000080715 | MassIVE
OtherMS1-Based Label-Free Proteomics Using a Quadrupole Orbitrap Mass Spectrometer.
Data from ProteomeXchange, PXD ID: PXD001385. File: QEP1_SpikeIn_230914_3_3ng_270914.mzml. Published as part of J Proteome Res. 2015 Mar 24 . From the Abstract: {{i}} Presented is a data set for benchmarking MS1-based label-free quantitative proteomics using a quadrupole orbitrap mass spectrometer....
ORGANISM(S): Homo_sapiens_viruses, Human_female, Escherichia_coli_k_12_substr__mg1655 
GPM32320014338 | GPMDB
Resource Reanalysis 
UnknownMetaprotein expression modeling for label-free quantitative proteomics.
Not available
S-EPMC3436780 | biostudies-literature
ProteomicsRobust proteome profiling of cysteine-reactive fragments using label-free chemoproteomics - HEK293T - Global expression proteomics
In this manuscript we describe our work on the development of a label-free chemoproteomics screening platform for cysteine reactive covalent fragments on a 96 well plate format. This platform profiles cysteine reactive fragments by competition with the hyper-reactive iodoacetamide desthiobiotin (IA-...
ORGANISM(S): Homo sapiens (Human) 
2024-11-18 | PXD054105 | Pride
Data independant acquistion Label free quantification 
Proteomicshuman NSCLC sh-QKI-6 A549 cell label-free quantification and LC/MS proteomics analysis
Label-Free Quantitation of Differentially Expressed Proteins in Sh-QKI6 and sh-NC
ORGANISM(S): Homo sapiens (Human) 
2022-06-09 | PXD027013 | Pride
Human Nsclc Label-free quantification Qki-6 
ProteomicsIntensity-based label-free proteomics using a quadrupole orbitrap mass spectrometer
We present a unique data set for benchmarking label free quantitative proteomics using a quadrupole orbitrap mass spectrometer. Soluble Escherichia coli digest was spiked into a HeLa digest in four different concentrations, simulating protein expression differences. The data set, which is available ...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2015-03-25 | PXD001385 | Pride
Q exactive Quadrupole orbitrap Proteomics Label-free 
UnknownQPROT: Statistical method for testing differential expression using protein-level intensity data in label-free quantitative proteomics.
Not available
S-EPMC4630079 | biostudies-literature
ProteomicsLabel-Free Single Cell Proteomics Utilizing Ultrafast LC and MS Instrumentation: A Valuable Complementary Technique to Multiplexing.
In recent years, single cell proteomics became one of the hottest topics within the field of proteomics. The potential ability to map the proteomic fingerprint to transcriptomic data would master the understanding of how gene expression translates into actual phenotypes and cellular functions. In co...
ORGANISM(S): Homo sapiens (Human) 
2023-02-09 | PXD039208 | Pride
Dia Label-free-proteomics Data-completness Dda 
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