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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Identification of biomarkers from mass spectrometry data using a "common" peak approach.
PMID 16869977 · PMC1550264 · BMC bioinformatics · 2006 · 8 claims · 1 setups
"Common" peaks—those exhibited by many subjects—can be identified and used as biomarkers in high-dimensional mass spectrometry data
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A novel wavelet-based thresholding method for the pre-processing of mass spectrometry data that accounts for heterogeneous noise.
PMID 18615428 · PMC2855839 · Proteomics · 2008 · 6 claims · 4 setups
Noise in SELDI-TOF/MALDI-TOF mass spectrometry data is heteroscedastic across the m/z range, with larger variance at lower m/z values, contrary to the homogeneous noise assumption of existing wavelet denoising methods.
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Sample preparation for serum/plasma profiling and biomarker identification by mass spectrometry.
PMID 17166507 · PMC7094463 · Journal of chromatography. A · 2007 · 8 claims · 8 setups
Standardizing sample preparation procedures for serum/plasma profiling is critical for obtaining reliable biomarkers, since slight procedural changes can produce very different protein profiles.
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On the analysis of glycomics mass spectrometry data via the regularized area under the ROC curve.
PMID 18076765 · PMC2211327 · BMC bioinformatics · 2007 · 8 claims · 4 setups
The TGDR-AUC algorithm regularizes the empirical AUC by replacing the non-differentiable 0-1 loss with a smooth sigmoid surrogate function and applies constrained threshold gradient descent regularization