Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 44

System / cell line: gel ✕ Assay: in-gel ✕ Clear

MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes.

PMID 17090601 · PMC1781136 · Nucleic acids research · 2007 · 8 claims · 8 setups

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MAPU is a unified, freely accessible database integrating organellar, cellular, tissue and body fluid proteomes generated by high-resolution mass spectrometry.

urine tear seminal breast gel lc-ms3 in-depth
The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins.

PMID 16948836 · PMC1794545 · Genome biology · 2006 · 8 claims · 6 setups

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Identified 1543 proteins in urine from ten healthy donors while essentially eliminating false-positive identifications

urine pooled urinary identified sds-page albumin decoy
Proteomic and phospho-proteomic profile of human platelets in basal, resting state: insights into integrin signaling.

PMID 19859549 · PMC2762604 · PloS one · 2009 · 8 claims · 8 setups

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A comprehensive platelet proteome of 1507 unique proteins was identified from ten independent human platelet samples, the most comprehensive platelet proteome assembled to date

platelets platelet anti-coagulated lc-ms phospho-proteomic membrane
Prediction of missed cleavage sites in tryptic peptides aids protein identification in proteomics.

PMID 17203985 · PMC2664920 · Journal of proteome research · 2007 · 8 claims · 4 setups

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An information-theoretic log-likelihood scoring method can predict experimentally observed missed cleavage sites from amino acid sequence alone with up to 90% accuracy.

pepseeker local known swissprot tandem peptide pmf
Use of proteomics for validation of the isolation process of clotting factor IX from human plasma.

PMID 19819359 · PMC2818390 · Journal of proteomics · 2010 · 8 claims · 8 setups

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Proteomic techniques (LC-MS/MS, iTRAQ, immunochemical/biochemical methods) can monitor and validate each production step of pd F IX isolation

plasma in-process chromatographic one-stage competitive elisa
The identification and characterization of a novel protein, c19orf10, in the synovium.

PMID 17362502 · PMC1906808 · Arthritis research & therapy · 2007 · 8 claims · 8 setups

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c19orf10 is a novel protein produced in significant amounts by fibroblast-like synoviocytes (FLSs), identified via proteomic analysis

fibroblast-like coli balb chicken two-dimensional recombinant monoclonal
Identification of 491 proteins in the tear fluid proteome reveals a large number of proteases and protease inhibitors.

PMID 16901338 · PMC1779605 · Genome biology · 2006 · 8 claims · 4 setups

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491 proteins were identified in human tear fluid using in-gel digestion and LC-MS/MS/MS3 on LTQ-FT and LTQ-Orbitrap instruments

closed-eye tear analysis sds-page in-solution gene
Direct in-gel fluorescence detection and cellular imaging of O-GlcNAc-modified proteins.

PMID 18683930 · PMC2649877 · Journal of the American Chemical Society · 2008 · 7 claims · 5 setups

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Y289L GalT-mediated transfer of UDP-GalNAz followed by Cu(I)-catalyzed azide-alkyne cycloaddition enables selective, highly sensitive fluorescent/biotin labeling of O-GlcNAc-modified proteins

α-crystallin forebrain hela chemoenzymatic in-gel nanolc-ms
Comparative cytochrome P450 proteomics in the livers of immunodeficient mice using 18O stable isotope labeling.

PMID 17296599 · PMC2315784 · Molecular & cellular proteomics : MCP · 2007 · 8 claims · 5 setups

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SDS-PAGE combined with post-digest 18O/16O labeling and LC-MS/MS enables relative quantification of multiple P450 proteins from liver microsomes, including highly homologous isoforms

liver recombinant tryptic sds-page western mascot
Proteomic analysis of protein deposits on worn daily wear silicone hydrogel contact lenses.

PMID 18989384 · PMC2579937 · Molecular vision · 2008 · 8 claims · 4 setups

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Worn silicone hydrogel contact lenses deposit a wide array of proteins from the tear film and other sources.

deposit excised pooled worn sds-page in-gel lc-ms-ms
Comparative analysis of the tear protein profile in mycotic keratitis patients.

PMID 18385783 · PMC2268856 · Molecular vision · 2008 · 8 claims · 5 setups

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A glutaredoxin-related protein is expressed only in the tears of fungal keratitis patients and is absent in control tears.

pooled in-gel peptide 2de two-dimensional maldi-tof post
In vivo pharmaco-proteomic analysis of hydroxyurea induced changes in the sickle red blood cell membrane proteome.

PMID 19914412 · PMC2818491 · Journal of proteomics · 2010 · 8 claims · 4 setups

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2D-DIGE combined with tandem mass spectrometry identified 32 distinct sickle RBC membrane proteins that significantly changed in abundance after in vivo HU therapy

sickle excised patients 2d-dige tandem immunoblot
Large-scale and high-confidence proteomic analysis of human seminal plasma.

PMID 16709260 · PMC1779515 · Genome biology · 2006 · 8 claims · 6 setups

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923 proteins were identified with high confidence in seminal plasma from a single individual, combining results from three ejaculate samples

seminal same list combined sds-page database decoy
Pharmaco-proteomic study of hydroxyurea-induced modifications in the sickle red blood cell membrane proteome.

PMID 18849548 · PMC4260454 · Experimental biology and medicine (Maywood, N.J.) · 2008 · 6 claims · 6 setups

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50 μM HU treatment of SS RBC membranes causes statistically significant changes in a discrete set of membrane proteins, distinct from HbF induction.

sickle rbc excised 2d-dige tandem immunoblot
Using proteomic approach to identify tumor-associated antigens as markers in hepatocellular carcinoma.

PMID 18672925 · PMC2680441 · Journal of proteome research · 2008 · 8 claims · 6 setups

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34 immunoreactive protein spots were detected in 2DE Western blots probed with HCC patient sera but not normal sera

hepg2 excised identified recombinant two-dimensional western in-gel
Investigation of the human tear film proteome using multiple proteomic approaches.

PMID 18334958 · PMC2268847 · Molecular vision · 2008 · 8 claims · 6 setups

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Tear collection method (capillary vs. Schirmer strip) significantly impacts which proteins are detected in the tear film proteome.

tear spectra 1d-sds-page 2d-sds-page mudpit
Application of proteomics methods for pathogen discovery.

PMID 19751767 · PMC7119679 · Journal of virological methods · 2010 · 8 claims · 6 setups

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Proteomic techniques can detect and characterize unknown infectious agents in cell culture without prior knowledge of the pathogen

hlf sequences synthetic conventional 2d-dige gelc-ms
An open-source representation for 2-DE-centric proteomics and support infrastructure for data storage and analysis.

PMID 18179696 · PMC2231339 · BMC bioinformatics · 2008 · 8 claims · 4 setups

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AGML 2.0 is a comprehensive XML representation for 2-DE experiments comprising identification, protocol (MI2DG), and gel sections

general gel excised clinical 2-dimensional differential mass
The use of neuroproteomics in drug abuse research.

PMID 19926406 · PMC3947580 · Drug and alcohol dependence · 2010 · 8 claims · 8 setups

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Neuroproteomic technologies (2D-DIGE, iTRAQ, ICAT, etc.) enable identification of protein-level changes underlying effects of drugs of abuse such as amphetamine, morphine, cocaine, and alcohol.

rodent brain postmortem sectioned 2d-dige itraq heat
Immunohistochemical and proteomic evaluation of nuclear ubiquitous casein and cyclin-dependent kinases substrate in invasive ductal carcinoma of the breast.

PMID 20069058 · PMC2801467 · Journal of biomedicine & biotechnology · 2009 · 7 claims · 5 setups

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NUCKS is highly overexpressed in invasive ductal carcinoma (IDC) of the breast compared to matched normal tissue.

matched idc nucks rabbits lc-ms sds-page western

Experiments

MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes.

The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins.

Proteomic and phospho-proteomic profile of human platelets in basal, resting state: insights into integrin signaling.

Prediction of missed cleavage sites in tryptic peptides aids protein identification in proteomics.

Use of proteomics for validation of the isolation process of clotting factor IX from human plasma.

The identification and characterization of a novel protein, c19orf10, in the synovium.

Identification of 491 proteins in the tear fluid proteome reveals a large number of proteases and protease inhibitors.

Direct in-gel fluorescence detection and cellular imaging of O-GlcNAc-modified proteins.

Comparative cytochrome P450 proteomics in the livers of immunodeficient mice using 18O stable isotope labeling.

Proteomic analysis of protein deposits on worn daily wear silicone hydrogel contact lenses.

Comparative analysis of the tear protein profile in mycotic keratitis patients.

In vivo pharmaco-proteomic analysis of hydroxyurea induced changes in the sickle red blood cell membrane proteome.

Large-scale and high-confidence proteomic analysis of human seminal plasma.

Pharmaco-proteomic study of hydroxyurea-induced modifications in the sickle red blood cell membrane proteome.

Using proteomic approach to identify tumor-associated antigens as markers in hepatocellular carcinoma.

Investigation of the human tear film proteome using multiple proteomic approaches.

Application of proteomics methods for pathogen discovery.

An open-source representation for 2-DE-centric proteomics and support infrastructure for data storage and analysis.

The use of neuroproteomics in drug abuse research.

Immunohistochemical and proteomic evaluation of nuclear ubiquitous casein and cyclin-dependent kinases substrate in invasive ductal carcinoma of the breast.