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David L. Masica, Ph.D. - Publications

Affiliations: 
2009 Johns Hopkins University, Baltimore, MD 
Area:
General Biophysics
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25 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Kasak L, Bakolitsa C, Hu Z, Yu C, Rine J, Dimster-Denk DF, Pandey G, De Baets G, Bromberg Y, Cao C, Capriotti E, Casadio R, Van Durme J, Giollo M, Karchin R, ... ... Masica D, et al. Assessing Computational Predictions of the Phenotypic Effect of Cystathionine-beta-Synthase Variants. Human Mutation. PMID 31301157 DOI: 10.1002/Humu.23868  0.388
2018 Beleva Guthrie V, Masica DL, Fraser A, Federico J, Fan Y, Camps M, Karchin R. Network Analysis of Protein Adaptation: modeling the functional impact of multiple mutations. Molecular Biology and Evolution. PMID 29522102 DOI: 10.1093/Molbev/Msy036  0.306
2018 Guidugli L, Shimelis H, Masica DL, Pankratz VS, Lipton GB, Singh N, Hu C, Monteiro ANA, Lindor NM, Goldgar DE, Karchin R, Iversen ES, Couch FJ. Assessment of the Clinical Relevance of BRCA2 Missense Variants by Functional and Computational Approaches. American Journal of Human Genetics. PMID 29394989 DOI: 10.1016/J.Ajhg.2017.12.013  0.379
2017 Glusman G, Rose PW, Prlić A, Dougherty J, Duarte JM, Hoffman AS, Barton GJ, Bendixen E, Bergquist T, Bock C, Brunk E, Buljan M, Burley SK, Cai B, Carter H, ... ... Masica DL, et al. Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework. Genome Medicine. 9: 113. PMID 29254494 DOI: 10.1186/S13073-017-0509-Y  0.681
2016 Tokheim C, Bhattacharya R, Niknafs N, Gygax DM, Kim R, Ryan MC, Masica D, Karchin R. Exome-scale discovery of hotspot mutation regions in human cancer using 3D protein structure. Cancer Research. PMID 27197156 DOI: 10.1158/0008-5472.Can-15-3190  0.335
2016 Masica DL, Karchin R. Towards Increasing the Clinical Relevance of In Silico Methods to Predict Pathogenic Missense Variants. Plos Computational Biology. 12: e1004725. PMID 27171182 DOI: 10.1371/Journal.Pcbi.1004725  0.381
2015 Douville C, Masica DL, Stenson PD, Cooper DN, Gygax DM, Kim R, Ryan M, Karchin R. Assessing the Pathogenicity of Insertion and Deletion Variants with the Variant Effect Scoring Tool (VEST-Indel). Human Mutation. PMID 26442818 DOI: 10.1002/Humu.22911  0.354
2015 Masica DL, Sosnay PR, Raraigh KS, Cutting GR, Karchin R. Missense variants in CFTR nucleotide-binding domains predict quantitative phenotypes associated with cystic fibrosis disease severity. Human Molecular Genetics. 24: 1908-17. PMID 25489051 DOI: 10.1093/Hmg/Ddu607  0.358
2015 Masica DL, Li S, Douville C, Manola J, Ferris RL, Burtness B, Forastiere AA, Koch WM, Chung CH, Karchin R. Predicting survival in head and neck squamous cell carcinoma from TP53 mutation. Human Genetics. 134: 497-507. PMID 25108461 DOI: 10.1007/S00439-014-1470-0  0.322
2014 Masica D, Li S, Douville C, Manola J, Ferris RL, Burtness B, Forastiere AA, Koch W, Karchin R, Chung CH. Evaluation of computational tools to determine prognostic significance of TP53 mutation in head and neck squamous cell carcinoma (HNSCC). Journal of Clinical Oncology. 32: 6035-6035. DOI: 10.1200/Jco.2014.32.15_Suppl.6035  0.324
2014 Masica DL, Karchin R. Abstract 5322: Collections of simultaneously altered genes as highly predictive markers of cancer cell drug response Cancer Research. 74: 5322-5322. DOI: 10.1158/1538-7445.Am2014-5322  0.306
2013 Tarasevich BJ, Perez-Salas U, Masica DL, Philo J, Kienzle P, Krueger S, Majkrzak CF, Gray JL, Shaw WJ. Neutron reflectometry studies of the adsorbed structure of the amelogenin, LRAP. The Journal of Physical Chemistry. B. 117: 3098-109. PMID 23477285 DOI: 10.1021/Jp311936J  0.33
2013 Masica DL, Karchin R. Collections of simultaneously altered genes as biomarkers of cancer cell drug response. Cancer Research. 73: 1699-708. PMID 23338612 DOI: 10.1158/0008-5472.Can-12-3122  0.309
2013 Mansouri A, Masica D, Gray J, McKee M. Osteopontin ASARM peptide binding to crystal faces of hydroxyapatite [ndash] computational simulations Bone Abstracts. DOI: 10.1530/Boneabs.1.Pp460  0.513
2012 Masica DL, Sosnay PR, Cutting GR, Karchin R. Phenotype-optimized sequence ensembles substantially improve prediction of disease-causing mutation in cystic fibrosis. Human Mutation. 33: 1267-74. PMID 22573477 DOI: 10.1002/Humu.22110  0.354
2012 Roehrich A, Ash J, Zane A, Masica DL, Gray JJ, Goobes G, Drobny G. Solid-state NMR studies of biomineralization peptides and proteins Acs Symposium Series. 1120: 77-96. DOI: 10.1021/bk-2012-1120.ch004  0.458
2011 Masica DL, Gray JJ, Shaw WJ. Partial high-resolution structure of phosphorylated and non-phosphorylated leucine-rich amelogenin protein adsorbed to hydroxyapatite. The Journal of Physical Chemistry. C, Nanomaterials and Interfaces. 115: 13775-13785. PMID 21845207 DOI: 10.1021/Jp202965H  0.562
2011 McKee MD, Nakano Y, Masica DL, Gray JJ, Lemire I, Heft R, Whyte MP, Crine P, Millán JL. Enzyme replacement therapy prevents dental defects in a model of hypophosphatasia Journal of Dental Research. 90: 470-476. PMID 21212313 DOI: 10.1177/0022034510393517  0.488
2010 Masica DL, Ash JT, Ndao M, Drobny GP, Gray JJ. Toward a structure determination method for biomineral-associated protein using combined solid- state NMR and computational structure prediction. Structure (London, England : 1993). 18: 1678-87. PMID 21134646 DOI: 10.1016/J.Str.2010.09.013  0.573
2010 Masica DL, Schrier SB, Specht EA, Gray JJ. De novo design of peptide-calcite biomineralization systems Journal of the American Chemical Society. 132: 12252-12262. PMID 20712308 DOI: 10.1021/Ja1001086  0.562
2010 Addison WN, Masica DL, Gray JJ, McKee MD. Phosphorylation-dependent inhibition of mineralization by osteopontin ASARM peptides is regulated by PHEX cleavage Journal of Bone and Mineral Research. 25: 695-705. PMID 19775205 DOI: 10.1359/Jbmr.090832  0.518
2009 Chien YC, Masica DL, Gray JJ, Nguyen S, Vali H, McKee MD. Modulation of calcium oxalate dihydrate growth by selective crystal-face binding of phosphorylated osteopontin and polyaspartate peptide showing occlusion by sectoral (compositional) zoning Journal of Biological Chemistry. 284: 23491-23501. PMID 19581305 DOI: 10.1074/Jbc.M109.021899  0.523
2009 Masica DL, Gray JJ. Solution- and adsorbed-state structural ensembles predicted for the statherin-hydroxyapatite system Biophysical Journal. 96: 3082-3091. PMID 19383454 DOI: 10.1016/J.Bpj.2009.01.033  0.583
2007 Makrodimitris K, Masica DL, Kim ET, Gray JJ. Structure prediction of protein-solid surface interactions reveals a molecular recognition motif of statherin for hydroxyapatite Journal of the American Chemical Society. 129: 13713-13722. PMID 17929924 DOI: 10.1021/Ja074602V  0.556
2005 Daily MD, Masica D, Sivasubramanian A, Somarouthu S, Gray JJ. CAPRI rounds 3-5 reveal promising successes and future challenges for RosettaDock Proteins: Structure, Function and Genetics. 60: 181-186. PMID 15981262 DOI: 10.1002/Prot.20555  0.606
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