The following article contains poster presentations related to Scaffold Software. Click on the link to view a PDF version.
Recent
- Label free DIA and DDA nano LC/MS/MS improved quantitative profiling of redox stress mediated proteomic changes in mouse dendritic cells (2021)
- Enhancing Quantitative Data-Independent-Acquisition Proteomics of Partially Heterogenous Samples with Missing Value Imputation (2021)
- Generating globally FDR-controlled DDA-based spectral libraries for analyzing wide-window DIA-experiments (2021)
- Incorporating In-Source Fragments Improves Metabolite Identification Accuracy in Untargeted LC−MS and LC−MS/MS Datasets (2019)
- Generating high-quality libraries for DIA-MS with empirically-corrected peptide predictions (2019)
- Comparison of Quantitative Reproducibility Between DDA Precursor and DIA Fragment Quantification Techniques (2018)
- Quantitative Interrogation of Large Mass Spectromtery Datasets Using a Flexible Hierarchical Organization Scheme (2017)
Archive
- Creation of an in-house Designer Library for MS-based Fecal Metabolomics & Analysis of Gut Microbiome Biotransformation Products (2017)
- Rapid Core Lab Implementation of Metabolomics using Quickstart guide and Elements Software (2016)
- HPLC-MS metabolomics analysis of brain tissue reveals age, brain region and gender-specific effects of Centella asiatica (2016)
- Using Advanced Multivariate Analysis Features with Automated Database Searching Algorithms to Simplify Metabolomics Study Conduct and Understanding (2016)
- Improving Peptide and Protein Identification Rates Using a Novel Semi-Supervised Approach in Scaffold (2013)
- Protein Cluster Identification and Quantitation with Scaffold (2013)
- Using MS/MS Total Ion Current Quantification in Scaffold 3 Software- Comparison to Spectral Counting (2011)
- Probabilistically Assigning Sites of Protein Modification with Scaffold PTM (2011)
- Testing for Differences Between Complex Samples in Proteomics Datasets (2009)
- Quantitation Across Multiple iTRAQ Samples Using Scaffold Q+ (2009)
- Improving Sensitivity by Combining Results from Multiple MS/MS Search Methodologies with the Scaffold Computer Algorithm (2007)
- The Effect of Data Analysis Choices on the Number of Proteins Identified in MS/MS Proteomics Experiments (2006)
- Improving Computer Interpretation of Linear Ion Trap Proteomics Data Using Scaffold (2006)
- Identifying Peptides the Way Experts Do: A Scientist-Driven Scoring System for Improving MS/MS Peptide Identification Confidence (2006)
- Use of Multiple Peptide Identification Programs to Increase Peptide and Protein Identifications in Human Whole Saliva (2006)
- Scaffold: A Program to Probabilistically Combine Results from Multiple MS/MS Database Search Engines (2005)
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