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 25

System / cell line: lysates ✕ Assay: identification ✕ Clear

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

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

Full-text index only

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 proteins differentially expressed in the conventional renal cell carcinoma by proteomic analysis.

PMID 15953868 · PMC2782202 · Journal of Korean medical science · 2005 · 6 claims · 4 setups

Full-text index only

Eight proteins from 11 differentially expressed spots were identified in conventional RCC versus normal kidney tissue by 2D-PAGE and MALDI-TOF-MS

conventional trypsin-digested lysates 2d-page maldi-tof bradford
iTRAQ proteomic identification of pVHL-dependent and -independent targets of Egln1 prolyl hydroxylase knockdown in renal carcinoma cells.

PMID 19159641 · PMC2716563 · Advances in enzyme regulation · 2009 · 7 claims · 4 setups

Full-text index only

Egln1 knockdown induces P1465 hydroxylation and Ser5 phosphorylation of Rpb1 only in VHL(+) cells, not VHL(-) cells

786-o itraq-labeled scx-fractionated spectra itraq strong capillary
Tags for labeling protein N-termini with subtiligase for proteomics.

PMID 18762420 · PMC2590642 · Bioorganic & medicinal chemistry letters · 2008 · 6 claims · 4 setups

Full-text index only

Arginine-rich peptide esters (3, 4, 5) are markedly more soluble than the original TEVest2 ester (1) and give significantly higher N-terminal tagging of proteins by subtiligase at higher concentrations.

jurkat neutravidin-coated synthetic proteomic sds-page sandwich aqueous
Surface-enhanced laser desorption/ionization time-of-flight proteomic profiling of breast carcinomas identifies clinicopathologically relevant groups of patients similar to previously defined clusters from cDNA expression.

PMID 18510725 · PMC2481497 · Breast cancer research : BCR · 2008 · 7 claims · 7 setups

Full-text index only

Unsupervised hierarchical clustering of 130 SELDI-TOF peaks yielded six peak clusters and five distinct groups of breast cancer patients.

lysates breast microarrays imac-preseparated seldi-tof pilot immunohistochemistry
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

Full-text index only

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
Breast cancer proteomics reveals correlation between estrogen receptor status and differential phosphorylation of PGRMC1.

PMID 18922159 · PMC2614521 · Breast cancer research : BCR · 2008 · 8 claims · 5 setups

Full-text index only

PGRMC1 protein spots are differentially abundant between ER-negative and ER-positive breast tumors, with two of three spots more abundant in ER-negative tumors

sections pooled mcf7 paraffin-embedded 2d-page shrimp viability
Protein isoaspartate methyltransferase prevents apoptosis induced by oxidative stress in endothelial cells: role of Bcl-Xl deamidation and methylation.

PMID 18806875 · PMC2532751 · PloS one · 2008 · 8 claims · 8 setups

Full-text index only

PCMT overexpression protects porcine aortic endothelial cells (PAEC) from H2O2-induced apoptosis, raising the threshold H2O2 concentration required to trigger cell death.

porcine paec umbilical huvec methyltransferase sds-page fragmentation
Genomic and proteomic profiling of oxidative stress response in human diploid fibroblasts.

PMID 18654835 · PMC4973579 · Biogerontology · 2009 · 8 claims · 7 setups

Full-text index only

Treatment of HCA3 human diploid fibroblasts with a mild dose of H2O2 (600 μM) induces premature senescence without killing the cells.

hca3 differentially mudpit cdna semi-quantitative
Pilot proteomic profile of differentially regulated proteins in right atrial appendage before and after cardiac surgery using cardioplegia and cardiopulmonary bypass.

PMID 18824761 · PMC2629397 · Circulation · 2008 · 8 claims · 3 setups

Full-text index only

CP/CPB causes multiple consistent, reproducible changes in the human myocardial (right atrial) protein profile

right excised 2-dimensional tandem sds-page
Proteomic analyses associate cystatin B with restricted HIV-1 replication in placental macrophages.

PMID 18951626 · PMC3867668 · Placenta · 2008 · 6 claims · 6 setups

Full-text index only

Placental macrophages support significantly lower HIV-1 replication than monocyte-derived macrophages

placental mdm hiv-1 seldi-tof sds-page
Generation of a restriction minus enteropathogenic Escherichia coli E2348/69 strain that is efficiently transformed with large, low copy plasmids.

PMID 18681975 · PMC2518929 · BMC microbiology · 2008 · 8 claims · 7 setups

Full-text index only

E2348/69 possesses a type I restriction-modification system encoded by an hsdMSR-like operon identified by homology to known Hsd proteins.

e2348 hep-2 blast colony transformation
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

Full-text index only

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
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

Full-text index only

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
Transcriptional and proteomic profiling in a cellular model of DYT1 dystonia.

PMID 19665049 · PMC2774817 · Neuroscience · 2009 · 8 claims · 7 setups

Full-text index only

Accumulation of mutant torsinA(ΔE) in the nuclear envelope is not sufficient to cause transcriptional dysregulation

pc6-3 hek293 microarray 2-dige mass
Differential 14-3-3 affinity capture reveals new downstream targets of phosphatidylinositol 3-kinase signaling.

PMID 19648646 · PMC2773716 · Molecular & cellular proteomics : MCP · 2009 · 7 claims · 6 setups

Full-text index only

Four known insulin-regulated proteins (PFK-2, PRAS40, AS160, MYO1C) show high d0/d4 ratios, i.e. increased 14-3-3 binding upon insulin stimulation, validating the screen

hek293 hela far-western quantitative tio2
Increase in endoplasmic reticulum stress-related proteins and genes in adipose tissue of obese, insulin-resistant individuals.

PMID 18567819 · PMC2518495 · Diabetes · 2008 · 8 claims · 3 setups

Full-text index only

UPR/ER stress-related proteins (calreticulin, PDI A3, glutathione-S-transferase P) are upregulated in adipose tissue of obese versus lean humans

subcutaneous same adipose two-dimensional western real-time
Mass spectrometry for proteomics.

PMID 18718552 · PMC2642903 · Current opinion in chemical biology · 2008 · 8 claims · 8 setups

Full-text index only

New instrumentation (Orbitrap) and new fragmentation methods (ETD) have enabled exciting new areas of proteomic application

digested intact yeast large shotgun top-down quantitative
Analysis of proteomic profiles and functional properties of human peripheral blood myeloid dendritic cells, monocyte-derived dendritic cells and the dendritic cell-like KG-1 cells reveals distinct characteristics.

PMID 17331236 · PMC1868942 · Genome biology · 2007 · 8 claims · 8 setups

Full-text index only

moDCs and KG-1 cells show significant proteomic differences from primary mDCs, particularly in proteins involved in cell growth/maintenance and cell-cell interaction/integrity.

mdcs mdc freshly peripheral two-dimensional maldi-tof capture
Proteomic analysis of tumor necrosis factor-alpha resistant human breast cancer cells reveals a MEK5/Erk5-mediated epithelial-mesenchymal transition phenotype.

PMID 19087274 · PMC2656902 · Breast cancer research : BCR · 2008 · 8 claims · 7 setups

Full-text index only

MEK5 over-expression promotes a TNF-α resistance phenotype in MCF-7 breast cancer cells

mcf-7-mek5 mcf-7 western clonogenic immunofluorescence

Experiments

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

Identification of proteins differentially expressed in the conventional renal cell carcinoma by proteomic analysis.

iTRAQ proteomic identification of pVHL-dependent and -independent targets of Egln1 prolyl hydroxylase knockdown in renal carcinoma cells.

Tags for labeling protein N-termini with subtiligase for proteomics.

Surface-enhanced laser desorption/ionization time-of-flight proteomic profiling of breast carcinomas identifies clinicopathologically relevant groups of patients similar to previously defined clusters from cDNA expression.

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

Breast cancer proteomics reveals correlation between estrogen receptor status and differential phosphorylation of PGRMC1.

Protein isoaspartate methyltransferase prevents apoptosis induced by oxidative stress in endothelial cells: role of Bcl-Xl deamidation and methylation.

Genomic and proteomic profiling of oxidative stress response in human diploid fibroblasts.

Pilot proteomic profile of differentially regulated proteins in right atrial appendage before and after cardiac surgery using cardioplegia and cardiopulmonary bypass.

Proteomic analyses associate cystatin B with restricted HIV-1 replication in placental macrophages.

Generation of a restriction minus enteropathogenic Escherichia coli E2348/69 strain that is efficiently transformed with large, low copy plasmids.

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

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

Transcriptional and proteomic profiling in a cellular model of DYT1 dystonia.

Differential 14-3-3 affinity capture reveals new downstream targets of phosphatidylinositol 3-kinase signaling.

Increase in endoplasmic reticulum stress-related proteins and genes in adipose tissue of obese, insulin-resistant individuals.

Mass spectrometry for proteomics.

Analysis of proteomic profiles and functional properties of human peripheral blood myeloid dendritic cells, monocyte-derived dendritic cells and the dendritic cell-like KG-1 cells reveals distinct characteristics.

Proteomic analysis of tumor necrosis factor-alpha resistant human breast cancer cells reveals a MEK5/Erk5-mediated epithelial-mesenchymal transition phenotype.