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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Toward proteome-scale identification and quantification of isoaspartyl residues in biological samples.
PMID 19663459 · PMC2756321 · Journal of proteome research · 2009 · 8 claims · 4 setups
In ECD MS/MS, isoaspartyl (but not aspartyl) residues produce specific fragments c_n•+58.0054 (C2H2O2) and z_(l-n)-56.9976 (C2HO2), which serve as markers for Asp isomerization
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Using proteomic approach to identify tumor-associated antigens as markers in hepatocellular carcinoma.
PMID 18672925 · PMC2680441 · Journal of proteome research · 2008 · 8 claims · 6 setups
34 immunoreactive protein spots were detected in 2DE Western blots probed with HCC patient sera but not normal sera
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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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Dissociation of the carbohydrate-binding and splicing activities of galectin-1.
PMID 18662664 · PMC2590671 · Archives of biochemistry and biophysics · 2008 · 7 claims · 7 setups
GST-Gal3 and GST-Gal1 pull down the general transcription factor TFII-I from HeLa nuclear extract, identified by mass spectrometry and confirmed by immunoblot
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Proteomic analysis of stage I primary lung adenocarcinoma aimed at individualisation of postoperative therapy.
PMID 18212748 · PMC2243141 · British journal of cancer · 2008 · 5 claims · 6 setups
LC-MS/MS proteomic analysis of stage I lung adenocarcinoma specimens identified myosin IIA and vimentin as candidate biomarker proteins with signal intensities that differed significantly among patient outcome groups
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High accuracy mass spectrometry analysis as a tool to verify and improve gene annotation using Mycobacterium tuberculosis as an example.
PMID 18597682 · PMC2483986 · BMC genomics · 2008 · 8 claims · 5 setups
High-accuracy MS proteomics (LTQ-Orbitrap) can be used to verify and improve gene annotation by identifying peptides specific to one of two competing annotation datasets.
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Cellular proteins in influenza virus particles.
PMID 18535660 · PMC2390764 · PLoS pathogens · 2008 · 8 claims · 6 setups
Purified influenza virions contain 36 host-encoded cellular proteins in addition to the 9 previously known viral proteins.
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Mass spectrometry-based proteomic analyses of contact lens deposition.
PMID 18334948 · PMC2254969 · Molecular vision · 2008 · 8 claims · 2 setups
Silicone hydrogel contact lenses deposit substantially less total protein than traditional soft (non-silicone) lens materials
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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
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
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Investigation of the human tear film proteome using multiple proteomic approaches.
PMID 18334958 · PMC2268847 · Molecular vision · 2008 · 8 claims · 6 setups
Tear collection method (capillary vs. Schirmer strip) significantly impacts which proteins are detected in the tear film proteome.
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Identification of 491 proteins in the tear fluid proteome reveals a large number of proteases and protease inhibitors.
PMID 16901338 · PMC1779605 · Genome biology · 2006 · 8 claims · 4 setups
491 proteins were identified in human tear fluid using in-gel digestion and LC-MS/MS/MS3 on LTQ-FT and LTQ-Orbitrap instruments
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Application of proteomics methods for pathogen discovery.
PMID 19751767 · PMC7119679 · Journal of virological methods · 2010 · 8 claims · 6 setups
Proteomic techniques can detect and characterize unknown infectious agents in cell culture without prior knowledge of the pathogen
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Protein expression patterns in primary carcinoma of the vagina.
PMID 15199389 · PMC2409807 · British journal of cancer · 2004 · 5 claims · 4 setups
Cluster analysis of 2-DE proteomic data allows accurate discrimination between normal vaginal mucosa, primary vaginal carcinoma and primary cervical carcinoma
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Genomic and proteomic profiling I: leiomyomas in African Americans and Caucasians.
PMID 17716379 · PMC2063502 · Reproductive biology and endocrinology : RB&E · 2007 · 7 claims · 6 setups
268 genes (177 over-expressed, 91 under-expressed) are differentially expressed in leiomyomas of African Americans compared to Caucasians (P<0.01, 2-fold cutoff)
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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
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.