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).
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Novel peptide identification from tandem mass spectra using ESTs and sequence database compression.
PMID 17437027 · PMC1865584 · Molecular systems biology · 2007 · 7 claims · 6 setups
Traditional protein-sequence-database search engines fail to identify peptides from alternative splicing and coding SNP isoforms despite acquisition of good-quality tandem mass spectra
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Mouse-specific tandem IgY7-SuperMix immunoaffinity separations for improved LC-MS/MS coverage of the plasma proteome.
PMID 19722698 · PMC2783519 · Journal of proteome research · 2009 · 7 claims · 6 setups
Tandem IgY7-SuperMix separation nearly doubles overall proteome coverage compared to IgY7 flow-through alone (523 vs 263 confidently identified proteins)
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A comprehensive proteomics and genomics analysis reveals novel transmembrane proteins in human platelets and mouse megakaryocytes including G6b-B, a novel immunoreceptor tyrosine-based inhibitory motif protein.
PMID 17186946 · PMC1860054 · Molecular & cellular proteomics : MCP · 2007 · 8 claims · 8 setups
Three complementary membrane-enrichment proteomic methods (lectin affinity, biotin/NeutrAvidin affinity, free flow electrophoresis) combined with LC-MS/MS identify 136 transmembrane proteins in human platelets, including many novel ones.
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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
A comprehensive platelet proteome of 1507 unique proteins was identified from ten independent human platelet samples, the most comprehensive platelet proteome assembled to date
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The oxazolidinone derivative locostatin induces cytokine appeasement.
PMID 19917702 · PMC2799496 · Journal of immunology (Baltimore, Md. : 1950) · 2009 · 7 claims · 7 setups
RKIP is differentially localized (not differentially expressed) on the proteomic map after in vivo T cell recall compared to resting state
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Proteolysis of the endothelial cell protein C receptor by neutrophil proteinase 3.
PMID 17459006 · PMC1890847 · Journal of thrombosis and haemostasis : JTH · 2007 · 8 claims · 8 setups
Activated neutrophils decrease EPCR surface expression on endothelial cells over time
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Proteomic analysis of human aqueous humor using multidimensional protein identification technology.
PMID 20019884 · PMC2793904 · Molecular vision · 2009 · 8 claims · 4 setups
Albumin/IgG depletion combined with MudPIT (2D-LC-MS/MS) enables high-confidence, extensive characterization of the human AH proteome
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Proteomic and genetic approaches identify Syk as an AML target.
PMID 19800574 · PMC2803063 · Cancer cell · 2009 · 8 claims · 8 setups
EGFR inhibitors (e.g., gefitinib) induce AML differentiation through a non-EGFR, off-target mechanism
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Proteomics of the human malaria parasite Plasmodium falciparum.
PMID 16445353 · PMC2721975 · Expert review of proteomics · 2006 · 8 claims · 8 setups
Completion of the P. falciparum genome sequence together with advances in mass spectrometry has enabled large-scale proteomic analysis of the parasite that was previously limited by inability to identify proteins from 2D gels
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HIV-1 Nef binds the DOCK2-ELMO1 complex to activate rac and inhibit lymphocyte chemotaxis.
PMID 14737186 · PMC314466 · PLoS biology · 2004 · 8 claims · 8 setups
HIV-1 Nef binds the DOCK2-ELMO1 complex (which also contains Rac) in T cells
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Quantitative serum proteomics using dual stable isotope coding and nano LC-MS/MSMS.
PMID 19817497 · PMC4684172 · Journal of proteome research · 2009 · 7 claims · 6 setups
DSIC labeling achieves high efficiency: 100% for Cysteine (acrylamide) and 98% for Lysine (succinic anhydride)
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Statistical learning of peptide retention behavior in chromatographic separations: a new kernel-based approach for computational proteomics.
PMID 18053132 · PMC2254445 · BMC bioinformatics · 2007 · 6 claims · 5 setups
The paired oligo-border kernel (POBK) combined with SVMs predicts peptide adsorption/elution in SAX-SPE and retention time in IP-RP-HPLC more accurately than existing methods.
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The HCV Envelope Glycoprotein Down-Modulates NF-κB Signalling and Associates With Stimulation of the Host Endoplasmic Reticulum Stress Pathway.
PMID 35371105 · PMC8964954 · Frontiers in immunology · 2022 · 8 claims · 8 setups
HCV E1E2 glycoproteins, and more so E2, down-modulate HIV-1 LTR activation in 293T, TZM-bl and Huh7 cells
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Proteomics studies reveal important information on small molecule therapeutics: a case study on plasma proteins.
PMID 18973825 · PMC7185545 · Drug discovery today · 2008 · 8 claims · 8 setups
Abundant plasma proteins (albumin, IgG, transferrin) act as 'molecular sponges' that bind and transport low molecular weight proteins/peptides and drugs, extending their half-life by preventing rapid renal clearance.