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 292

Assay: peptide ✕ Clear

Editing of hnRNP K protein mRNA in colorectal adenocarcinoma and surrounding mucosa.

PMID 16404425 · PMC2361188 · British journal of cancer · 2006 · 7 claims · 8 setups

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A G274A base substitution in hnRNP K mRNA is present in colorectal tumours and surrounding mucosa but absent from corresponding genomic DNA, indicating an RNA editing event rather than a germline polymorphism.

colorectal cdna matched thyroid rt-pcr restriction genomic
Post-translational modifications of histones H3 and H4 associated with the histone methyltransferases Suv39h1 and G9a.

PMID 18096052 · PMC2246272 · Genome biology · 2007 · 6 claims · 4 setups

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Suv39h1 and G9a associate with previously reported methylation states (Suv39h1 with H3K9me3; G9a with H3K9me/me2)

crude hela-suv39h1 suv39h1 normal propionylation-based double maldi-tof
LOCATE: a mammalian protein subcellular localization database.

PMID 17986452 · PMC2238969 · Nucleic acids research · 2008 · 8 claims · 6 setups

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LOCATE is a curated, web-accessible database housing membrane organization and subcellular localization data for mouse and human proteins.

hela proteome indirect automated computational
OPTIC: orthologous and paralogous transcripts in clades.

PMID 17933761 · PMC2238935 · Nucleic acids research · 2008 · 6 claims · 7 setups

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OPTIC is a database providing gene predictions and orthology assignments for three clades: amniotes (human, dog, mouse, opossum, platypus, chicken), 12 Drosophila species, and 4 Caenorhabditis nematodes.

drosophila translated gene orthologous homology-based all-against-all tree-based
Mutations in the UBIAD1 gene, encoding a potential prenyltransferase, are causal for Schnyder crystalline corneal dystrophy.

PMID 17668063 · PMC1925147 · PloS one · 2007 · 8 claims · 7 setups

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Mutations in UBIAD1 are causal for Schnyder crystalline corneal dystrophy

pedigrees pedigree genomic ubiad1 microsatellite fine direct
Identification and characterisation of the angiotensin converting enzyme-3 (ACE3) gene: a novel mammalian homologue of ACE.

PMID 17597519 · PMC1925091 · BMC genomics · 2007 · 7 claims · 7 setups

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A novel single-domain ACE-like gene, ACE3, exists in mouse, rat, cow, dog and human genomes, located on the same chromosome downstream of ACE.

dog predicted ace3 panel blast sequence homology
Plasma proteomics of pancreatic cancer patients by multi-dimensional liquid chromatography and two-dimensional difference gel electrophoresis (2D-DIGE): up-regulation of leucine-rich alpha-2-glycoprotein in pancreatic cancer.

PMID 17303479 · PMC7105233 · Journal of chromatography. B, Analytical technologies in the biomedical and life sciences · 2007 · 5 claims · 5 setups

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Pre-fractionation of plasma with immuno-affinity depletion and anion-exchange chromatography prior to 2D-DIGE substantially increases the number of detectable protein spots compared with unfractionated plasma.

plasma excised fractionated 2d-dige multi-dimensional lc-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
Nitrosothiol reactivity profiling identifies S-nitrosylated proteins with unexpected stability.

PMID 19101475 · PMC2628636 · Chemistry & biology · 2008 · 8 claims · 7 setups

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Most protein nitrosothiols are rapidly denitrosylated by physiological GSH, but a small subset show markedly reduced GSH reactivity and remain stably S-nitrosylated

brain hemoglobin crystal send.1 biotin chemical snocap
A compatible exon-exon junction database for the identification of exon skipping events using tandem mass spectrum data.

PMID 19087293 · PMC2636810 · BMC bioinformatics · 2008 · 6 claims · 6 setups

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A theoretical exon-exon junction protein database accounting for all in-phase (frame-preserving) exon combinations can be built from the Ensembl Core Database using Perl/Bioperl/MySQL/Ensembl API.

ensembl liver candidate same database tandem decoy
TAC3 and TACR3 mutations in familial hypogonadotropic hypogonadism reveal a key role for Neurokinin B in the central control of reproduction.

PMID 19079066 · PMC4312696 · Nature genetics · 2009 · 8 claims · 5 setups

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Homozygous loss-of-function mutations in TAC3 or TACR3 cause congenital hypogonadotropic hypogonadism in four consanguineous families

consanguineous genomic hek293a hek293 genome sanger calcium
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
Proteomic profiling of amniotic fluid in preterm labor using two-dimensional liquid separation and mass spectrometry.

PMID 19012186 · PMC3163445 · The journal of maternal-fetal & neonatal medicine : the official journal of the European Association of Perinatal Medicine, the Federation of Asia and Oceania Perinatal Societies, the International Society of Perinatal Obstetricians · 2008 · 8 claims · 6 setups

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Amniotic fluid protein composition can be analyzed by combining 2D liquid chromatography and mass spectrometry to identify differentially expressed proteins in preterm labor

pooled amniotic two-dimensional sds-page maldi-tof
Brain-specific proteins decline in the cerebrospinal fluid of humans with Huntington disease.

PMID 18984577 · PMC2649809 · Molecular & cellular proteomics : MCP · 2009 · 8 claims · 6 setups

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Brain-specific proteins are 1.8 times more likely to be observed in CSF than in plasma

csf brain normal 2d-dige label-free isotopic
Proteomic profiling of urine identifies specific fragments of SERPINA1 and albumin as biomarkers of preeclampsia.

PMID 18984079 · PMC2679897 · American journal of obstetrics and gynecology · 2008 · 8 claims · 7 setups

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Women with severe preeclampsia present a unique urinary proteomic fingerprint distinguishable from controls.

urine placenta placental seldi-tof tandem spiking
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
Versatile online-offline engine for automated acquisition of high-resolution tandem mass spectra.

PMID 18841935 · PMC2716176 · Analytical chemistry · 2008 · 7 claims · 6 setups

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An integrated hardware/software online-offline platform (TriVersa NanoMate + 12T LTQ FT Ultra + AUTOMATION WAREHOUSE) automates collection of high-resolution MS/MS data for polypeptides >3 kDa that cannot be acquired online on a chromatographic timescale

acid-extracted hela online offline
The dietary bioflavonoid, quercetin, selectively induces apoptosis of prostate cancer cells by down-regulating the expression of heat shock protein 90.

PMID 18726985 · PMC2826114 · The Prostate · 2008 · 7 claims · 8 setups

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Quercetin treatment of prostate cancer cells decreases cell proliferation and viability in a dose-dependent manner

pc-3 excised prostate viability difference nano
Global mapping of the topography and magnitude of proteolytic events in apoptosis.

PMID 18724940 · PMC2597167 · Cell · 2008 · 7 claims · 6 setups

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PROTOMAP, a method combining 1D SDS-PAGE fractionation with LC-MS/MS-derived sequence coverage and spectral counting visualized as 'peptographs', enables global mapping of proteolytic topography and magnitude

jurkat sds-page fragmentation caspase-3

Experiments

Editing of hnRNP K protein mRNA in colorectal adenocarcinoma and surrounding mucosa.

Post-translational modifications of histones H3 and H4 associated with the histone methyltransferases Suv39h1 and G9a.

LOCATE: a mammalian protein subcellular localization database.

OPTIC: orthologous and paralogous transcripts in clades.

Mutations in the UBIAD1 gene, encoding a potential prenyltransferase, are causal for Schnyder crystalline corneal dystrophy.

Identification and characterisation of the angiotensin converting enzyme-3 (ACE3) gene: a novel mammalian homologue of ACE.

Plasma proteomics of pancreatic cancer patients by multi-dimensional liquid chromatography and two-dimensional difference gel electrophoresis (2D-DIGE): up-regulation of leucine-rich alpha-2-glycoprotein in pancreatic cancer.

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

Nitrosothiol reactivity profiling identifies S-nitrosylated proteins with unexpected stability.

A compatible exon-exon junction database for the identification of exon skipping events using tandem mass spectrum data.

TAC3 and TACR3 mutations in familial hypogonadotropic hypogonadism reveal a key role for Neurokinin B in the central control of reproduction.

Placental proteomics: a shortcut to biological insight.

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

Proteomic profiling of amniotic fluid in preterm labor using two-dimensional liquid separation and mass spectrometry.

Brain-specific proteins decline in the cerebrospinal fluid of humans with Huntington disease.

Proteomic profiling of urine identifies specific fragments of SERPINA1 and albumin as biomarkers of preeclampsia.

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

Versatile online-offline engine for automated acquisition of high-resolution tandem mass spectra.

The dietary bioflavonoid, quercetin, selectively induces apoptosis of prostate cancer cells by down-regulating the expression of heat shock protein 90.

Global mapping of the topography and magnitude of proteolytic events in apoptosis.