subject area of
- A comparative analysis of HGSC and Celera human genome assemblies and gene sets Academic Article
- A computational framework for proteome-wide pursuit and prediction of metalloproteins using ICP-MS and MS/MS data Academic Article
- A general method to quantify quasi-equivalence in icosahedral viruses Academic Article
- A guide to the visual analysis and communication of biomolecular structural data Academic Article
- A hybrid method for peptide identification using integer linear optimization, local database search, and quadrupole time-of-flight or OrbiTrap tandem mass spectrometry Academic Article
- A hypergeometric probability model for protein identification and validation using tandem mass spectral data and protein sequence databases Academic Article
- A proteomic glimpse into human ureter proteome Academic Article
- A semiempirical free energy force field with charge-based desolvation Academic Article
- A structural snapshot of CYP2B4 in complex with paroxetine provides insights into ligand binding and clusters of conformational states Academic Article
- A systematic approach to modeling, capturing, and disseminating proteomics experimental data Academic Article
- An automated procedure for detecting protein folds from sub-nanometer resolution electron density Academic Article
- An online resource for GPCR structure determination and analysis Academic Article
- Analyzing molecular interactions Academic Article
- Antibody modeling assessment II. Structures and models Academic Article
- Asia growth in membrane protein structure Academic Article
- Automated generation and evaluation of specific MHC binding predictive tools: ARB matrix applications Academic Article
- Automated sequence-specific protein NMR assignment using the memetic algorithm match Academic Article
- Automatic annotation of matrix-assisted laser desorption/ionization n-glycan spectra Academic Article
- Automatic validation of phosphopeptide identifications from tandem mass spectra Academic Article
- Biogps: An extensible and customizable portal for querying and organizing gene annotation resources Academic Article
- Central limit theorem as an approximation for intensity-based scoring function Academic Article
- Chromosome-Based Proteomic Study for Identifying Novel Protein Variants from Human Hippocampal Tissue Using Customized neXtProt and GENCODE Databases Academic Article
- Classification of PDZ domains Academic Article
- Code developments to improve the efficiency of automated MS/MS spectra interpretation Academic Article
- Collecting and organizing systematic sets of protein data Academic Article
- Comparative assessment of large-scale proteomic studies of apoptotic proteolysis Academic Article
- Crystal structure of a conserved hypothetical protein (gi : 13879369) from Mouse at 1.90 A resolution reveals a new fold Academic Article
- Crystal structure of acireductone dioxygenase (ARD) from Mus musculus at 2.06 a resolution Academic Article
- Crystal structure of the C-terminal domain of mouse TLR9 Academic Article
- Curation of the mammalian palmitoylome indicates a pivotal role for palmitoylation in diseases and disorders of the nervous system and cancers Academic Article
- DataBiNS: a BioMoby-based data-mining workflow for biological pathways and non-synonymous SNPs Academic Article
- Design and synthesis of a cell-permeable synthetic transcription factor mimic Academic Article
- Design, synthesis, and validation of a β-turn mimetic library targeting protein-protein and peptide-receptor interactions Academic Article
- Developing advanced X-ray scattering methods combined with crystallography and computation Academic Article
- Differential recovery of peptides from sample tubes and the reproducibility of quantitative proteomic data Academic Article
- Expanding the proteome: Disordered and alternatively folded proteins Academic Article
- Exploration of uncharted regions of the protein universe Academic Article
- Exploring icosahedral virus structures with VIPER Academic Article
- Extracting accurate precursor information for tandem mass spectra by raw converter Academic Article
- Functional analysis of hairpin ribozyme active site architecture Academic Article
- Genome pool strategy for structural coverage of protein families Academic Article
- Human Proteinpedia enables sharing of human protein data Academic Article
- Identification of 2D-gel proteins: a comparison of MALDI/TOF peptide mass mapping to mu LC-ESI tandem mass spectrometry Academic Article
- Identification of direct residue contacts in protein-protein interaction by message passing Academic Article
- Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0 Academic Article
- Integration of cardiac proteome biology and medicine by a specialized knowledgebase Academic Article
- Integrative illustration for coronavirus outreach Academic Article
- Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis Academic Article
- Large-scate database searching using tandem mass spectra: looking up the answer in the back of the book Academic Article
- Linking folding and binding Academic Article
- Liquid chromatography-fourier transform ion cyclotron resonance mass spectrometric characterization of protein kinase c phosphorylation Academic Article
- Loop modeling: sampling, filtering, and scoring Academic Article
- MDB: The metalloprotein database and browser at The Scripps Research Institute Academic Article
- MS1, MS2, and SQT: three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications Academic Article
- Mass spectrometry in high-throughput proteomics: ready for the big time Academic Article
- Metabolomic data streaming for biology-dependent data acquisition Academic Article
- ModBase, a database of annotated comparative protein structure models and associated resources Academic Article
- Native atom types for knowledge-based potentials: application to binding energy prediction Academic Article
- NeuroPedia: neuropeptide database and spectral library Academic Article
- Outcome of a workshop on applications of protein models in biomedical research Academic Article
- Outcome of the first wwPDB Hybrid/Integrative Methods Task Force Workshop Academic Article
- PSEA-Quant: a protein set enrichment analysis on label-free and label-based protein quantification data Academic Article
- PatternLab for proteomics: a tool for differential shotgun proteomics Academic Article
- PatternLab: from mass spectra to label-free differential shotgun proteomics Academic Article
- PepExplorer: a similarity-driven tool for analyzing de novo sequencing results Academic Article
- Pivotal role of computers and software in mass spectrometry - SEQUEST and 20 years of tandem MS database searching Academic Article
- ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity Academic Article
- Protein identification using 2D-LC-MS/MS Academic Article
- Proteome analysis of rhoptry-enriched fractions isolated from Plasmodium merozoites Academic Article
- Proteomic analysis of tumor necrosis factor-alpha (TNF-α)-induced L6 myotube secretome reveals novel TNF-α-dependent myokines in diabetic skeletal muscle Academic Article
- Quantitative proteomics of human fibroblasts with I1061T mutation in Niemann-Pick C1 (NPC1) protein provides insights into the disease pathogenesis Academic Article
- Quantitative proteomics of parotid saliva in primary Sjögren's syndrome Academic Article
- Recognition templates for predicting adenylate-binding sites in proteins Academic Article
- Refining homology models by combining replica-exchange molecular dynamics and statistical potentials Academic Article
- Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB Academic Article
- Revealing disease-associated pathways by network integration of untargeted metabolomics Academic Article
- Search engine processor: filtering and organizing peptide spectrum matches Academic Article
- Shotgun protein identification and quantification by mass spectrometry Academic Article
- Shotgun protein identification and quantification by mass spectrometry in neuroproteomics Academic Article
- Shotgun proteomics in neuroscience Academic Article
- Simicon: A web tool for protein-ligand model comparison through calculation of equivalent atomic contacts Academic Article
- Site-directed combinatorial construction of chimaeric genes: general method for optimizing assembly of gene fragments Academic Article
- Statistical models for protein validation using tandem mass spectral data and protein amino acid sequence databases Academic Article
- Synergistic computational and experimental proteomics approaches for more accurate detection of active serine hydrolases in yeast Academic Article
- The RCSB Protein Data Bank: views of structural biology for basic and applied research and education Academic Article
- The RCSB protein data bank: New resources for research and education Academic Article
- The RCSB protein data bank: Redesigned web site and web services Academic Article
- The cAMP binding domain: An ancient signaling module Academic Article
- The challenge of protein structure determination - lessons from structural genomics Academic Article
- The complete complement of C1q-domain-containing proteins in Homo sapiens Academic Article
- The gene wiki: Community intelligence applied to human gene annotation Academic Article
- The membrane protein data bank Academic Article
- The minimum information about a proteomics experiment (MIAPE) Academic Article
- The proteome of Toxoplasma gondii: integration with the genome provides novel insights into gene expression and annotation Academic Article
- The role of dynamic conformational ensembles in biomolecular recognition Academic Article
- The transcription factor encyclopedia Academic Article
- Understanding the enzymatic activity of 4-oxalocrotonate tautomerase and its mutant analogues: A computational study Academic Article
- VIPERdb(2): an enhanced and web API enabled relational database for structural virology Academic Article
- VIPERdb: a relational database for structural virology Academic Article
- Validation of tandem mass spectrometry database search results using DTASelect Academic Article
- XCMS2: Processing tandem mass spectrometry data for metabolite identification and structural characterization Academic Article
- bNAber: database of broadly neutralizing HIV antibodies Academic Article
- pE-DB: a database of structural ensembles of intrinsically disordered and of unfolded proteins Academic Article