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 70

System / cell line: relative ✕ Assay: gel ✕ Clear

Liver fatty acid binding protein expression in colorectal neoplasia.

PMID 15138477 · PMC2409459 · British journal of cancer · 2004 · 8 claims · 5 setups

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L-FABP is consistently lost/decreased in colorectal cancer compared with paired normal colon tissue

paired excised formalin-fixed normal gel maldi-tof immunohistochemistry
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
Upregulation of Copine1 in trabecular meshwork cells of POAG patients: a membrane proteomics approach.

PMID 18523666 · PMC2408776 · Molecular vision · 2008 · 7 claims · 5 setups

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Copine1 mRNA and protein expression are upregulated in glaucomatous TM (GTM) cells compared to normal TM (NTM) cells

trabecular ntm 2-d immunocytochemistry quantitative
A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.

PMID 19997597 · PMC2781549 · PloS one · 2009 · 8 claims · 7 setups

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The majority of proteins expressed in growing and non-growing S. aureus cells can be identified and quantified by a metabolic labeling proteomic approach

aureus 2-d 1-d gelc-ms
Comparing cellular proteomes by mass spectrometry.

PMID 19886975 · PMC2784314 · Genome biology · 2009 · 8 claims · 6 setups

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MS-based proteomics combined with cryo-electron tomography (CET) enables determination of absolute and relative protein abundances and localization

leptospira saccharomyces specified shotgun selected cryo-electron
A proteomic strategy to identify novel serum biomarkers for liver cirrhosis and hepatocellular cancer in individuals with fatty liver disease.

PMID 19656391 · PMC2729079 · BMC cancer · 2009 · 8 claims · 4 setups

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2D gel proteomic profiling of immunodepleted serum reveals protein spot patterns that differentiate pre-cirrhotic NAFLD, cirrhotic NAFLD, and cirrhotic NAFLD with HCC

immunodepleted serum liver gel direct semi-quantitative
Differential recruitment of pre-mRNA splicing factors to alternatively spliced transcripts in vivo.

PMID 16231974 · PMC1262628 · PLoS biology · 2005 · 8 claims · 8 setups

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Distinct combinations of pre-mRNA splicing factors are recruited to sites of alternatively spliced transcripts in intact cells, providing the first in vivo evidence for differential splicing factor association.

cos-1 cos-7 tau10-1 rt-pcr quantitative rna-fish
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

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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
Colocalization of increased transforming growth factor-beta-induced protein (TGFBIp) and Clusterin in Fuchs endothelial corneal dystrophy.

PMID 19011008 · PMC2719557 · Investigative ophthalmology & visual science · 2009 · 6 claims · 5 setups

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TGFBIp (multiple molecular weight forms) is significantly overexpressed in FECD HCEC-DM complex compared to normal endothelium

pooled hcec-dm corneal 2-d western real-time
Differential protein expression in human corneal endothelial cells cultured from young and older donors.

PMID 18852868 · PMC2565687 · Molecular vision · 2008 · 8 claims · 5 setups

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Cultured HCEC protein profiles show age-related differences between young and older donors

corneal 2-d trypsin-digested confluent 2-d gel maldi-tof
Proteomic analysis of differential proteins in pancreatic carcinomas: Effects of MBD1 knock-down by stable RNA interference.

PMID 18445260 · PMC2386481 · BMC cancer · 2008 · 8 claims · 5 setups

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Stable RNAi-mediated MBD1 knock-down was successfully established in the BxPC-3 pancreatic cancer cell line using a recombinant siRNA plasmid

bxpc-3 2-d maldi-tof-ms western
2D-DIGE proteomic characterization of head and neck squamous cell carcinoma.

PMID 19861202 · PMC2847880 · Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery · 2009 · 8 claims · 4 setups

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Cornulin is downregulated in HNSCC relative to normal adjacent tissue and represents a novel biomarker in HNSCC.

hnscc excised independent identified 2d-dige lc-ms immunohistochemistry
Proteomic approaches for studying alcoholism and alcohol-induced organ damage.

PMID 23584750 · PMC3860448 · Alcohol research & health : the journal of the National Institute on Alcohol Abuse and Alcoholism · 2008 · 8 claims · 7 setups

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Chronic alcohol abuse produces persistent changes in brain function (tolerance, dependence, craving) likely resulting from alterations in gene and protein expression

extracts trypsin-digested more yeast two-dimensional liquid mudpit
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

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

right excised 2-dimensional tandem sds-page
Biomarker discovery in neurodegenerative diseases: a proteomic approach.

PMID 18938247 · PMC2939006 · Neurobiology of disease · 2009 · 6 claims · 8 setups

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Proteomic profiling of CSF and plasma can identify candidate protein biomarkers that distinguish AD patients from controls with high sensitivity and specificity

csf plasma brain 2-dge lc-ms seldi-tof-ms
Proteomics of human neurodegenerative diseases.

PMID 18800015 · PMC2710115 · Journal of neuropathology and experimental neurology · 2008 · 8 claims · 8 setups

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Proteomic techniques applied to autopsy brain and CSF from patients with neurodegenerative diseases provide insight into pathogenesis and enable biomarker discovery

detergent-extractable thioflavin-s-stained tau-2-immunostained snca-immunoreactive 2-dimensional laser lc-ms-ms
A statistical model to identify differentially expressed proteins in 2D PAGE gels.

PMID 19763172 · PMC2734266 · PLoS computational biology · 2009 · 7 claims · 5 setups

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A mixture likelihood model incorporating both detected and non-detected proteins has higher statistical power to detect differential expression than standard approaches like the Student's t-test.

plasma simulated page simulated
Significance of somatic mutations and content alteration of mitochondrial DNA in esophageal cancer.

PMID 16620376 · PMC1459869 · BMC cancer · 2006 · 8 claims · 3 setups

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Somatic mtDNA mutations are frequent in esophageal cancer, found in 55% (11/20) of tumors analyzed

paired fragments ttge direct real-time
Cryptosporidium: genomic and biochemical features.

PMID 19187778 · PMC2819285 · Experimental parasitology · 2010 · 8 claims · 8 setups

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C. parvum lacks a plastid and mitochondrial genome, unlike other apicomplexans, limiting plastid-targeted drug strategies

parvum yeast recombinant gp40 pulsed-field happy genome
Deletion of dinucleotide repeat (Delta 14 allele) in the methylthioadenosine phosphorylase (MTAP) promoter and the allelotype of MTAP promoter in the Japanese population.

PMID 11985785 · PMC5927014 · Japanese journal of cancer research : Gann · 2002 · 8 claims · 4 setups

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DHL-9 lymphoma cells lack detectable MTAP enzyme activity despite possessing an intact (non-deleted) MTAP gene

dhl-9 genomic lymphoblastoid hela pcr allele-specific luciferase

Experiments

Liver fatty acid binding protein expression in colorectal neoplasia.

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

Upregulation of Copine1 in trabecular meshwork cells of POAG patients: a membrane proteomics approach.

A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.

Comparing cellular proteomes by mass spectrometry.

A proteomic strategy to identify novel serum biomarkers for liver cirrhosis and hepatocellular cancer in individuals with fatty liver disease.

Differential recruitment of pre-mRNA splicing factors to alternatively spliced transcripts in vivo.

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.

Colocalization of increased transforming growth factor-beta-induced protein (TGFBIp) and Clusterin in Fuchs endothelial corneal dystrophy.

Differential protein expression in human corneal endothelial cells cultured from young and older donors.

Proteomic analysis of differential proteins in pancreatic carcinomas: Effects of MBD1 knock-down by stable RNA interference.

2D-DIGE proteomic characterization of head and neck squamous cell carcinoma.

Proteomic approaches for studying alcoholism and alcohol-induced organ damage.

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

Biomarker discovery in neurodegenerative diseases: a proteomic approach.

Proteomics of human neurodegenerative diseases.

A statistical model to identify differentially expressed proteins in 2D PAGE gels.

Significance of somatic mutations and content alteration of mitochondrial DNA in esophageal cancer.

Cryptosporidium: genomic and biochemical features.

Deletion of dinucleotide repeat (Delta 14 allele) in the methylthioadenosine phosphorylase (MTAP) promoter and the allelotype of MTAP promoter in the Japanese population.