| Technology | University of Michigan | Operon prediction for sequenced bacterial genomes without experimental information | Detail |
| Structure | Scripps Research Institute | This paper describes a method of time-controlled seeding to separate the stages of nucleation
and growth in protein crystallization using a microfluidic device. We quantified microfluidic
seeding using a model protein, developed a strategy to produce diffraction-quality crystals of
proteins recalcitrant to traditional methods, and solved de novo the X-ray crystal structure of
Oligoendopeptidase F. | Detail |
| Technology | Scripps Research Institute | We describe a new approach for infectious disease
surveillance that facilitates rapid identification of known and
emerging pathogens. The process uses broad-range polymerase
chain reaction (PCR) to amplify nucleic acid targets
from large groupings of organisms, electrospray ionization
mass spectrometry for accurate mass measurements of
PCR products, and base composition signature analysis to
identify organisms in a sample. We demonstrate this principle
by using 14 isolates of 9 diverse Coronavirus spp.,
including the severe acute respiratory syndrome–associated
coronavirus (SARS-CoV). | Detail |
| Structure | Scripps Research Institute | This study demonstrates that high-resolution
electron density maps and refined models can be obtained from in situ
diffraction of crystals grown in microcapillaries. | Detail |
| Software | Pacific Northwest National Laboratory | The visual Platform for Proteomics Peptide and Protein data exploration (PQuad) is a multi-resolution environment that visually integrates genomic and proteomic data for prokaryotic systems, overlays categorical annotation and compares differential expression experiments. | Detail |
| Technology | Caprion Proteomics Inc. | Multidimensional fingerprinting (MDF) utilizes measurable peptide characteristics to identify
proteins | Detail |
| Software | Pacific Northwest National Laboratory | VIPER: an advanced software package to support high-throughput LC-MS peptide identification | Detail |
| Technology | Pacific Northwest National Laboratory | MASIC (MS/MS Automated Selected Ion Chromatogram generator) generates selected ion chromatograms (SICs) for all of the parent ions chosen for fragmentation in an LC-MS/MS analysis. | Detail |
| Software | Pacific Northwest National Laboratory | Decon2Ls is a software package used for detecting features in MS data by using the isotopic signatures of expected components. | Detail |
| Software | Pacific Northwest National Laboratory | Protein Digestion Simulator Basic Tool | Detail |
| Technology | Pacific Northwest National Laboratory | The utility of accurate mass and LC elution time information in the analysis of complex proteomes. | Detail |
| Software | Pacific Northwest National Laboratory | This software can be used to generate a Mass and Time Tag database (Microsoft Access format) from local MS/MS search engine results (currently X!Tandem) that can act as input to VIPER for matching high resolution LC-MS features to peptides. | Detail |
| Technology | Scripps Research Institute | Antiviral effects of antisense morpholino oligomers in murine coronavirus infection models. | Detail |
| Technology | Scripps Research Institute | Inhibition, escape, and attenuated growth of severe acute respiratory syndrome coronavirus treated with antisense morpholino oligomers. | Detail |
| Software | Caprion Proteomics Inc. | A tool, PIPER, has been developed that uses protein expression data to improve protein identification fidelity in proteomics experiments using mass spectrometry | Detail |
| Technology | Pacific Northwest National Laboratory | Silica-based monolithic capillary columns with integrated nanoESI emitters have been developed to provide high-quality and robust microSPE-nanoLC-ESI-MS analyses. | Detail |
| Software | Pacific Northwest National Laboratory | A multidimensional recalibration approach that utilizes existing information on the likely mixture composition and takes into account conditions of mass measurements and that corrects the mass calibration for binned sets of individual peaks. | Detail |
| Technology | Pacific Northwest National Laboratory | A procedure for fabricating fused silica emitters for electrospray ionization-mass spectrometry (ESI-MS) in which the end of a bare fused silica capillary is immersed into aqueous hydrofluoric acid, and water is pumped through the capillary to prevent etching of the interior. | Detail |
| Software | Pacific Northwest National Laboratory | A collection of algorithms referred to as liquid chromatography-based mass spectrometric warping and alignment of retention times of peptides (LCMSWARP), which use a dynamic elution time warping approach similar to traditional algorithms that correct for variations in LC elution times using piecewise linear functions. | Detail |
| Software | Pacific Northwest National Laboratory | An artificial neural network that facilitates prediction of reverse-phased liquid chromatography retention times. | Detail |
| Technology | Pacific Northwest National Laboratory | A combined electrodynamic ion funnel and ion trap coupled to an orthogonal acceleration time-of-flight mass spectrometer. | Detail |
| Technology | Pacific Northwest National Laboratory | Electrospray ionization mass spectrometry combined with high efficiency capillary liquid chromatography. | Detail |
| Technology | Pacific Northwest National Laboratory | Electrospray ionization mass spectrometry. | Detail |
| Software | Pacific Northwest National Laboratory | A tool has been developed that determines parent charge state and monoisotopic more accurately than previously developed methods. | Detail |
| Technology | Einstein Biodefense Proteomic Research Center | Prediction of disulfide connectivity in proteins by correlated mutation analysis | Detail |
| Software | Pacific Northwest National Laboratory | DAnTE is a software tool that allows users to perform various downstream data analysis, data reduction, and data comparison steps for proteomic data. | Detail |
