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The publication data currently available has been vetted by Vanderbilt faculty, staff, administrators and trainees. The data itself is retrieved directly from NCBI's PubMed and is automatically updated on a weekly basis to ensure accuracy and completeness.

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Results: 1 to 10 of 69

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Federating Structural Models and Data: Outcomes from A Workshop on Archiving Integrative Structures.
Berman HM, Adams PD, Bonvin AA, Burley SK, Carragher B, Chiu W, DiMaio F, Ferrin TE, Gabanyi MJ, Goddard TD, Griffin PR, Haas J, Hanke CA, Hoch JC, Hummer G, Kurisu G, Lawson CL, Leitner A, Markley JL, Meiler J, Montelione GT, Phillips GN, Prisner T, Rappsilber J, Schriemer DC, Schwede T, Seidel CAM, Strutzenberg TS, Svergun DI, Tajkhorshid E, Trewhella J, Vallat B, Velankar S, Vuister GW, Webb B, Westbrook JD, White KL, Sali A
(2019) Structure 27: 1745-1759
MeSH Terms: Computational Biology, Crystallography, X-Ray, Databases, Protein, Magnetic Resonance Spectroscopy, Models, Molecular, Protein Conformation, Proteins
Added March 21, 2020
0 Communities
1 Members
0 Resources
7 MeSH Terms
Micro-Data-Independent Acquisition for High-Throughput Proteomics and Sensitive Peptide Mass Spectrum Identification.
Heaven MR, Cobbs AL, Nei YW, Gutierrez DB, Herren AW, Gunawardena HP, Caprioli RM, Norris JL
(2018) Anal Chem 90: 8905-8911
MeSH Terms: Algorithms, Chromatography, Liquid, Databases, Protein, Escherichia coli, Escherichia coli Proteins, HeLa Cells, High-Throughput Screening Assays, Humans, Peptides, Proteome, Proteomics, Software, Tandem Mass Spectrometry, Workflow
Added August 27, 2018
0 Communities
2 Members
0 Resources
14 MeSH Terms
Holistic Approach to Partial Covalent Interactions in Protein Structure Prediction and Design with Rosetta.
Combs SA, Mueller BK, Meiler J
(2018) J Chem Inf Model 58: 1021-1036
MeSH Terms: Crystallography, X-Ray, Databases, Protein, Electrons, Hydrogen Bonding, Models, Molecular, Protein Conformation, Proteins, Rotation
Added March 21, 2020
0 Communities
1 Members
0 Resources
MeSH Terms
Colorectal Cancer Cell Line Proteomes Are Representative of Primary Tumors and Predict Drug Sensitivity.
Wang J, Mouradov D, Wang X, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B, Sieber OM
(2017) Gastroenterology 153: 1082-1095
MeSH Terms: Antineoplastic Agents, Biomarkers, Tumor, Cell Line, Tumor, Chromatography, Liquid, Colorectal Neoplasms, Databases, Protein, Dose-Response Relationship, Drug, Drug Screening Assays, Antitumor, Gene Expression Profiling, Gene Expression Regulation, Neoplastic, Humans, Mutation, Neoplasm Proteins, Patient Selection, Polymorphism, Single Nucleotide, Precision Medicine, Proteome, Proteomics, Signal Transduction, Stromal Cells, Tandem Mass Spectrometry, Transcriptome, Tumor Microenvironment
Added July 17, 2017
0 Communities
1 Members
0 Resources
23 MeSH Terms
Hotspots of age-related protein degradation: the importance of neighboring residues for the formation of non-disulfide crosslinks derived from cysteine.
Friedrich MG, Wang Z, Oakley AJ, Schey KL, Truscott RJW
(2017) Biochem J 474: 2475-2487
MeSH Terms: Age Factors, Alanine, Cysteine, Databases, Protein, Disulfides, Eye Proteins, Humans, Lens, Crystalline, Models, Molecular, Oligopeptides, Proteolysis, Tandem Mass Spectrometry, beta-Crystallin A Chain
Added April 3, 2018
0 Communities
1 Members
0 Resources
MeSH Terms
proBAMsuite, a Bioinformatics Framework for Genome-Based Representation and Analysis of Proteomics Data.
Wang X, Slebos RJ, Chambers MC, Tabb DL, Liebler DC, Zhang B
(2016) Mol Cell Proteomics 15: 1164-75
MeSH Terms: Bcl-2-Like Protein 11, Computational Biology, Databases, Protein, Genome, Human, Humans, Molecular Sequence Annotation, Peptides, Proteomics, Sequence Analysis, DNA, Web Browser
Added February 15, 2016
0 Communities
2 Members
0 Resources
10 MeSH Terms
Integrating mRNA and Protein Sequencing Enables the Detection and Quantitative Profiling of Natural Protein Sequence Variants of Populus trichocarpa.
Abraham PE, Wang X, Ranjan P, Nookaew I, Zhang B, Tuskan GA, Hettich RL
(2015) J Proteome Res 14: 5318-26
MeSH Terms: Amino Acid Sequence, Amino Acid Substitution, Databases, Protein, Diploidy, Genetic Variation, Molecular Sequence Data, Plant Proteins, Populus, Proteomics, RNA, Messenger, RNA, Plant, Sequence Analysis, Protein, Sequence Analysis, RNA, Sequence Homology, Amino Acid, Tandem Mass Spectrometry
Added February 15, 2016
0 Communities
1 Members
0 Resources
15 MeSH Terms
l2 Multiple Kernel Fuzzy SVM-Based Data Fusion for Improving Peptide Identification.
Jian L, Xia Z, Niu X, Liang X, Samir P, Link AJ
(2016) IEEE/ACM Trans Comput Biol Bioinform 13: 804-9
MeSH Terms: Algorithms, Databases, Protein, Fuzzy Logic, Mass Spectrometry, Peptides, Proteomics, Software
Added February 15, 2016
0 Communities
1 Members
0 Resources
7 MeSH Terms
Optimization of Search Engines and Postprocessing Approaches to Maximize Peptide and Protein Identification for High-Resolution Mass Data.
Tu C, Sheng Q, Li J, Ma D, Shen X, Wang X, Shyr Y, Yi Z, Qu J
(2015) J Proteome Res 14: 4662-73
MeSH Terms: Algorithms, Cell Line, Tumor, Databases, Protein, Escherichia coli, Humans, Peptides, Proteome, Proteomics, Saccharomyces cerevisiae, Search Engine, Software, Tandem Mass Spectrometry
Added February 22, 2016
0 Communities
1 Members
0 Resources
12 MeSH Terms
Proteomic analysis of colon and rectal carcinoma using standard and customized databases.
Slebos RJ, Wang X, Wang X, Wang X, Zhang B, Tabb DL, Liebler DC
(2015) Sci Data 2: 150022
MeSH Terms: Colonic Neoplasms, Databases, Protein, Electronic Data Processing, Humans, Proteomics, Rectal Neoplasms
Added February 15, 2016
0 Communities
3 Members
0 Resources
6 MeSH Terms