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 579

Assay: western ✕ Clear

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
Functional effects of KCNE3 mutation and its role in the development of Brugada syndrome.

PMID 19122847 · PMC2585750 · Circulation. Arrhythmia and electrophysiology · 2008 · 7 claims · 5 setups

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A missense R99H mutation in KCNE3 was identified in a Brugada Syndrome proband and cosegregates with the phenotype in the family (4/4 phenotype-positive, 0/3 phenotype-negative members carried it)

genomic cho-k1 left ventricular sscp whole-cell co-immunoprecipitation
Proteomic analyses of monocyte-derived macrophages infected with human immunodeficiency virus type 1 primary isolates from Hispanic women with and without cognitive impairment.

PMID 19115125 · PMC2947716 · Journal of neurovirology · 2009 · 7 claims · 5 setups

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HIV-1 isolates from CI patients induce a distinct macrophage proteome signature compared to isolates from NC patients and SF162

monocyte-derived mdm mdms western p24 seldi-tof sds-page
Functional genomics in zebrafish permits rapid characterization of novel platelet membrane proteins.

PMID 19109564 · PMC2680375 · Blood · 2009 · 8 claims · 6 setups

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Zebrafish morpholino knockdown combined with a laser-induced arterial thrombosis assay is a fast, powerful method for initial functional screening of novel platelet genes.

blood platelets platelet-rich platelet whole-genome quantitative flow
Functional role of the KLF6 tumour suppressor gene in gastric cancer.

PMID 19101139 · PMC2970616 · European journal of cancer (Oxford, England : 1990) · 2009 · 7 claims · 8 setups

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The KLF6 locus undergoes loss of heterozygosity (LOH) in a majority of gastric cancer samples and is associated with advanced tumour stage

gastric ags hs746t fluorescent direct quantitative
Frequent somatic mutations of GNAQ in uveal melanoma and blue naevi.

PMID 19078957 · PMC2696133 · Nature · 2009 · 8 claims · 8 setups

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GNAQ is frequently somatically mutated in blue nevi (83%) and uveal melanoma (46%)

archival nevus htert melan-a sanger pna-clamp soft
Placental proteomics: a shortcut to biological insight.

PMID 19070895 · PMC3532024 · Placenta · 2009 · 7 claims · 5 setups

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Developed a novel small cationic colloidal silica (smCCS) method to uniformly enrich the apical plasma membrane of the syncytiotrophoblast (STB) for proteomics analysis

placenta smccs-coated electron 2-dimensional immunoblot
Characterization of the placental macrophage secretome: implications for antiviral activity.

PMID 19070362 · PMC2947718 · Placenta · 2009 · 7 claims · 5 setups

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PM and MDM secrete different soluble proteins, some of which may contribute to decreased HIV-1 replication in PM

placental seldi-tof sds-page western
Genome-wide siRNA-based functional genomics of pigmentation identifies novel genes and pathways that impact melanogenesis in human cells.

PMID 19057677 · PMC2585813 · PLoS genetics · 2008 · 7 claims · 8 setups

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Genome-wide siRNA screening identified 92 novel genes that support melanin production in human melanocytes with a low false discovery rate.

mnt-1 melanocyte melanocytes genome-wide secondary quantitative
In-frame deletion in the seventh immunoglobulin-like repeat of filamin C in a family with myofibrillar myopathy.

PMID 19050726 · PMC2672961 · European journal of human genetics : EJHG · 2009 · 8 claims · 8 setups

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A 12-nucleotide deletion (c.2997_3008del) in FLNC exon 18, predicting an in-frame four-residue deletion (p.Val930_Thr933del) in the seventh Ig-like repeat of filamin C, was identified in a German family with MFM (mother and daughter).

genomic muscle skeletal direct topo genescan
Ratiocinative screen of eukaryotic integral membrane protein expression and solubilization for structure determination.

PMID 19031011 · PMC2756966 · Journal of structural and functional genomics · 2009 · 8 claims · 6 setups

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A discovery-oriented pipeline using standardized single-condition methods (one expression system, one detergent, one SEC buffer) can efficiently triage large numbers of eukaryotic IMP targets to identify well-behaved candidates for crystallization

cerevisiae ddm-solubilized sec-included tmhmm ligase-independent small-scale
Proteomic profiling of human plasma exosomes identifies PPARgamma as an exosome-associated protein.

PMID 19028452 · PMC2633355 · Biochemical and biophysical research communications · 2009 · 7 claims · 6 setups

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Developed a multi-step fractionation scheme (gel exclusion chromatography, rate zonal sucrose gradient centrifugation, high-speed centrifugation) to purify exosomes from human plasma

plasma-derived plasma lc-ms sds-page western
Proteomic analysis of RCL2 paraffin-embedded tissues.

PMID 19012729 · PMC4506168 · Journal of cellular and molecular medicine · 2008 · 8 claims · 8 setups

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RCL2-fixed paraffin-embedded (RCL2P) tissue consistently gives the highest protein yield compared to FFPE and frozen tissue across extraction protocols

normal rcl2p ffpe frozen yield 1-dimensional 2-dimensional
Integrative microRNA and proteomic approaches identify novel osteoarthritis genes and their collaborative metabolic and inflammatory networks.

PMID 19011694 · PMC2582945 · PloS one · 2008 · 8 claims · 8 setups

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A 16-microRNA signature (9 up, 7 down) distinguishes osteoarthritic from normal cartilage.

patient-derived normal integrated taqman qrt-pcr northern
Analysis of a set of missense, frameshift, and in-frame deletion variants of BRCA1.

PMID 18992264 · PMC2682550 · Mutation research · 2009 · 8 claims · 8 setups

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A combined functional assay, bioinformatics prediction, and structural modeling approach can classify BRCA1 variants of uncertain significance

saccharomyces cerevisiae hek-293t yeast yeast β-galactosidase dual
Detection of genetic association and a functional polymorphism of dynamin 1 gene with nicotine dependence in European and African Americans.

PMID 18987626 · PMC2656577 · Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology · 2009 · 8 claims · 5 setups

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DNM1 SNP rs3003609 is significantly associated with Smoking Quantity (SQ) and Heaviness of Smoking Index (HSI) in the European-American (EA) sample, surviving correction for multiple testing.

nuclear same sh-sy5y snp haplotype-based quantitative
mtDNA depletion confers specific gene expression profiles in human cells grown in culture and in xenograft.

PMID 18980691 · PMC2612029 · BMC genomics · 2008 · 8 claims · 8 setups

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mtDNA depletion confers specific, shared gene expression profiles in A549 cells grown in culture and as xenografts

a549 growth oxygen mtdna
RNA-Seq transcriptome profiling identifies CRISPLD2 as a glucocorticoid responsive gene that modulates cytokine function in airway smooth muscle cells.

PMID 24926665 · PMC4057123 · PloS one · 2014 · 8 claims · 8 setups

Has reproduction · 87

Dexamethasone treatment (1 µM, 18 h) of primary human ASM cells differentially regulates 316 genes, including both known and previously uninvestigated glucocorticoid-responsive genes.

airway asm most single rna-seq quantitative qrt-pcr
Proteomic analyses associate cystatin B with restricted HIV-1 replication in placental macrophages.

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

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

placental mdm hiv-1 seldi-tof sds-page
Localization studies of rare missense mutations in cystic fibrosis transmembrane conductance regulator (CFTR) facilitate interpretation of genotype-phenotype relationships.

PMID 18951463 · PMC2785447 · Human mutation · 2008 · 5 claims · 5 setups

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R1070P and R1070W CFTR mutants show apical membrane localization/insertion defects consistent with their associated disease severity

polarized mdck mdck-cftr patients confocal surface western

Experiments

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

Functional effects of KCNE3 mutation and its role in the development of Brugada syndrome.

Proteomic analyses of monocyte-derived macrophages infected with human immunodeficiency virus type 1 primary isolates from Hispanic women with and without cognitive impairment.

Functional genomics in zebrafish permits rapid characterization of novel platelet membrane proteins.

Functional role of the KLF6 tumour suppressor gene in gastric cancer.

Frequent somatic mutations of GNAQ in uveal melanoma and blue naevi.

Placental proteomics: a shortcut to biological insight.

Characterization of the placental macrophage secretome: implications for antiviral activity.

Genome-wide siRNA-based functional genomics of pigmentation identifies novel genes and pathways that impact melanogenesis in human cells.

In-frame deletion in the seventh immunoglobulin-like repeat of filamin C in a family with myofibrillar myopathy.

Ratiocinative screen of eukaryotic integral membrane protein expression and solubilization for structure determination.

Proteomic profiling of human plasma exosomes identifies PPARgamma as an exosome-associated protein.

Proteomic analysis of RCL2 paraffin-embedded tissues.

Integrative microRNA and proteomic approaches identify novel osteoarthritis genes and their collaborative metabolic and inflammatory networks.

Analysis of a set of missense, frameshift, and in-frame deletion variants of BRCA1.

Detection of genetic association and a functional polymorphism of dynamin 1 gene with nicotine dependence in European and African Americans.

mtDNA depletion confers specific gene expression profiles in human cells grown in culture and in xenograft.

RNA-Seq transcriptome profiling identifies CRISPLD2 as a glucocorticoid responsive gene that modulates cytokine function in airway smooth muscle cells.

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

Localization studies of rare missense mutations in cystic fibrosis transmembrane conductance regulator (CFTR) facilitate interpretation of genotype-phenotype relationships.