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 29

System / cell line: pooled ✕ Assay: lc-ms ✕ Clear

Of mice and men: comparative proteomics of bronchoalveolar fluid.

PMID 20032019 · PMC3049194 · The European respiratory journal · 2010 · 8 claims · 8 setups

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Comparative shotgun proteomics of human and mouse BALF identifies conserved pathways (immunity, defence response, protease activity) alongside species-specific divergent pathways.

pooled oxidative unpooled balf shotgun functional protein-protein
Proteomic analysis of human aqueous humor using multidimensional protein identification technology.

PMID 20019884 · PMC2793904 · Molecular vision · 2009 · 8 claims · 4 setups

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Albumin/IgG depletion combined with MudPIT (2D-LC-MS/MS) enables high-confidence, extensive characterization of the human AH proteome

pooled albumin-bound analysis mudpit immunoaffinity bca
Proteomics analysis reveals novel components in the detergent-insoluble subproteome in Alzheimer's disease.

PMID 19746990 · PMC2784247 · Journal of proteome research · 2009 · 8 claims · 5 setups

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A label-free XIC-based LC-MS/MS quantitation strategy, combined with an FTLD-U comparator cohort, can be used to identify AD-specific changes in the detergent-insoluble brain subproteome.

pooled postmortem individual detergent-insoluble lc-ms sequential sds-page
Salivary proteomics for oral cancer biomarker discovery.

PMID 18829504 · PMC2877125 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2008 · 8 claims · 5 setups

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Subtractive salivary proteomics reveals proteins differentially present/expressed between OSCC patients and matched healthy controls.

pooled saliva shotgun two-dimensional elisa
Shotgun proteomic analysis of cerebrospinal fluid using off-gel electrophoresis as the first-dimension separation.

PMID 18778093 · PMC4582942 · Journal of proteome research · 2008 · 6 claims · 4 setups

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OGE first-dimension fractionation enabled identification of 156 unique CSF proteins compared to 115 identified using SCX fractionation on the same CSF pool

pooled csf spectra shotgun trypsin peptide
Localized-statistical quantification of human serum proteome associated with type 2 diabetes.

PMID 18795103 · PMC2529402 · PloS one · 2008 · 8 claims · 5 setups

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Developed LSPAD (localized statistics of protein abundance distribution) to calculate statistical significance of protein-abundance bias between two serum cohorts using a local Fisher's exact test window

pooled computational identified additional label-free lspad pathway-associated
Quantitative analysis of age specific variation in the abundance of human female parotid salivary proteins.

PMID 19764810 · PMC2834885 · Journal of proteome research · 2009 · 7 claims · 5 setups

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Protein expression in human female parotid saliva is age-dependent, with distinct protein sets differentially abundant between young and older healthy women

pooled hcic trypsin-digested normalized hydrophobic sds-page mudpit
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
Improved methods for the enrichment and analysis of glycated peptides.

PMID 18989935 · PMC2752342 · Analytical chemistry · 2008 · 7 claims · 4 setups

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Replacing off-line desalting with an online 50 mM NH4OAc wash (10 min) of boronate-bound glycated proteins improves the enrichment workflow while minimizing sample loss

glucose-glycated tryptic glycated lc-ms boronate lc-etd-ms database
Proteomic and functional characterisation of platelet microparticle size classes.

PMID 19806257 · PMC2861410 · Thrombosis and haemostasis · 2009 · 8 claims · 8 setups

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PMP separated by gel filtration into 4 size classes differ in protein content, phospholipid/protein ratio, and functional effects on platelets and endothelial cells

pooled pmp citrated huvec gel dynamic lipid
The development of an integrated platform to identify breast cancer glycoproteome changes in human serum.

PMID 19782370 · PMC4142217 · Journal of chromatography. A · 2010 · 8 claims · 6 setups

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M-LAC (multi-lectin affinity chromatography combining Con A, WGA and Jacalin) provides comprehensive capture of glycoproteins from biological fluids based on differing glycan specificities

pooled m-lac excised individual high-performance sds-page lectin
Serum S100A6 concentration predicts peritoneal tumor burden in mice with epithelial ovarian cancer and is associated with advanced stage in patients.

PMID 19888321 · PMC2765613 · PloS one · 2009 · 8 claims · 8 setups

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Serum S100A6 concentration correlates with peritoneal tumor burden in a mouse OVCA xenograft model, based on inverse regression calibration against bioluminescent imaging data.

serum skov-3 pooled ovca lc-ms antigen whole-animal
Proteomic analysis of nipple aspirate fluid from women with early-stage breast cancer using isotope-coded affinity tags and tandem mass spectrometry reveals differential expression of vitamin D binding protein.

PMID 16542425 · PMC1431555 · BMC cancer · 2006 · 8 claims · 5 setups

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ICAT tandem MS can identify and quantify differences in specific protein expression between NAF from tumor-bearing and disease-free breasts

paired icat-labeled spectra naf icat sds-page liquid
A dynamic range compression and three-dimensional peptide fractionation analysis platform expands proteome coverage and the diagnostic potential of whole saliva.

PMID 19813771 · PMC2789208 · Journal of proteome research · 2009 · 7 claims · 7 setups

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Coupling DRC (hexapeptide libraries) with 3D peptide fractionation (IEF + SCX + µLC-MS/MS) substantially increases the number of proteins identified in whole saliva

saliva offgel-fractionated identified sds-page trypsin strong
Mapping protein abundance patterns in the brain using voxelation combined with liquid chromatography and mass spectrometry.

PMID 19654045 · PMC2818068 · Methods (San Diego, Calif.) · 2010 · 8 claims · 5 setups

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Voxelation combined with LC-MS enables high-throughput spatial mapping of protein abundance across mouse brain voxels

brain digested voxel amt-tag lc-ms bca
Mass spectrometry-based proteomic analyses of contact lens deposition.

PMID 18334948 · PMC2254969 · Molecular vision · 2008 · 8 claims · 2 setups

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Silicone hydrogel contact lenses deposit substantially less total protein than traditional soft (non-silicone) lens materials

worn bradford nano-lc-ms
Enhancer Reprogramming Confers Dependence on Glycolysis and IGF Signaling in KMT2D Mutant Melanoma.

PMID 33086062 · PMC7649750 · Cell reports · 2020 · 8 claims · 8 setups

Has reproduction · 59

KMT2D is a potent tumor suppressor in melanoma

hmel-brafv600e tyr-creert2 tma kmt2d pooled xenograft genetically
The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins.

PMID 16948836 · PMC1794545 · Genome biology · 2006 · 8 claims · 6 setups

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Identified 1543 proteins in urine from ten healthy donors while essentially eliminating false-positive identifications

urine pooled urinary identified sds-page albumin decoy
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
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

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DSIC labeling achieves high efficiency: 100% for Cysteine (acrylamide) and 98% for Lysine (succinic anhydride)

standard dsic-labeled immunodepleted serum labeling quantitative in-solution

Experiments

Of mice and men: comparative proteomics of bronchoalveolar fluid.

Proteomic analysis of human aqueous humor using multidimensional protein identification technology.

Proteomics analysis reveals novel components in the detergent-insoluble subproteome in Alzheimer's disease.

Salivary proteomics for oral cancer biomarker discovery.

Shotgun proteomic analysis of cerebrospinal fluid using off-gel electrophoresis as the first-dimension separation.

Localized-statistical quantification of human serum proteome associated with type 2 diabetes.

Quantitative analysis of age specific variation in the abundance of human female parotid salivary proteins.

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

Improved methods for the enrichment and analysis of glycated peptides.

Proteomic and functional characterisation of platelet microparticle size classes.

The development of an integrated platform to identify breast cancer glycoproteome changes in human serum.

Serum S100A6 concentration predicts peritoneal tumor burden in mice with epithelial ovarian cancer and is associated with advanced stage in patients.

Proteomic analysis of nipple aspirate fluid from women with early-stage breast cancer using isotope-coded affinity tags and tandem mass spectrometry reveals differential expression of vitamin D binding protein.

A dynamic range compression and three-dimensional peptide fractionation analysis platform expands proteome coverage and the diagnostic potential of whole saliva.

Mapping protein abundance patterns in the brain using voxelation combined with liquid chromatography and mass spectrometry.

Mass spectrometry-based proteomic analyses of contact lens deposition.

Enhancer Reprogramming Confers Dependence on Glycolysis and IGF Signaling in KMT2D Mutant Melanoma.

The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins.

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.

Quantitative serum proteomics using dual stable isotope coding and nano LC-MS/MSMS.