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Creative Data Solutions (CDS) is a Vanderbilt Shared Resource and has extensive experience in providing effective and robust solutions to challenges pertaining to research data using modern informatics and bioinformatics approaches.
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Publications
- Estimation of the warfarin dose with clinical and pharmacogenetic data.
International Warfarin Pharmacogenetics Consortium, Klein TE, Altman RB, Eriksson N, Gage BF, Kimmel SE, Lee MT, Limdi NA, Page D, Roden DM, Wagner MJ, Caldwell MD, Johnson JA
(2009) N Engl J Med 360: 753-64 - MERLIN...and the geneticist's stone?
Nicolae DL, Cox NJ
(2002) Nat Genet 30: 3-4 - Multi-tissue transcriptome analyses identify genetic mechanisms underlying neuropsychiatric traits.
Gamazon ER, Zwinderman AH, Cox NJ, Denys D, Derks EM
(2019) Nat Genet 51: 933-940 - Direct analysis of protein complexes using mass spectrometry.
Link AJ, Eng J, Schieltz DM, Carmack E, Mize GJ, Morris DR, Garvik BM, Yates JR
(1999) Nat Biotechnol 17: 676-82 - Simple, Scalable Proteomic Imaging for High-Dimensional Profiling of Intact Systems.
Murray E, Cho JH, Goodwin D, Ku T, Swaney J, Kim SY, Choi H, Park YG, Park JY, Hubbert A, McCue M, Vassallo S, Bakh N, Frosch MP, Wedeen VJ, Seung HS, Chung K
(2015) Cell 163: 1500-14 - Comprehensive Characterization of Cancer Driver Genes and Mutations.
Bailey MH, Tokheim C, Porta-Pardo E, Sengupta S, Bertrand D, Weerasinghe A, Colaprico A, Wendl MC, Kim J, Reardon B, Ng PK, Jeong KJ, Cao S, Wang Z, Gao J, Gao Q, Wang F, Liu EM, Mularoni L, Rubio-Perez C, Nagarajan N, Cortés-Ciriano I, Zhou DC, Liang WW, Hess JM, Yellapantula VD, Tamborero D, Gonzalez-Perez A, Suphavilai C, Ko JY, Khurana E, Park PJ, Van Allen EM, Liang H, MC3 Working Group, Cancer Genome Atlas Research Network, Lawrence MS, Godzik A, Lopez-Bigas N, Stuart J, Wheeler D, Getz G, Chen K, Lazar AJ, Mills GB, Karchin R, Ding L
(2018) Cell 173: 371-385.e18 - Category-specific cortical activity precedes retrieval during memory search.
Polyn SM, Natu VS, Cohen JD, Norman KA
(2005) Science 310: 1963-6 - Individualised axitinib regimen for patients with metastatic renal cell carcinoma after treatment with checkpoint inhibitors: a multicentre, single-arm, phase 2 study.
Ornstein MC, Pal SK, Wood LS, Tomer JM, Hobbs BP, Jia XS, Allman KD, Martin A, Olencki T, Davis NB, Gilligan TD, Mortazavi A, Rathmell WK, Garcia JA, Rini BI
(2019) Lancet Oncol 20: 1386-1394 - Shotgun mass spec goes independent.
Liebler DC
(2004) Nat Methods 1: 16-7 - Characterizing cell subsets using marker enrichment modeling.
Diggins KE, Greenplate AR, Leelatian N, Wogsland CE, Irish JM
(2017) Nat Methods 14: 275-278 - Clinical analysis and interpretation of cancer genome data.
Van Allen EM, Wagle N, Levy MA
(2013) J Clin Oncol 31: 1825-33 - HER2 Testing and Clinical Decision Making in Gastroesophageal Adenocarcinoma: Guideline From the College of American Pathologists, American Society for Clinical Pathology, and the American Society of Clinical Oncology.
Bartley AN, Washington MK, Colasacco C, Ventura CB, Ismaila N, Benson AB, Carrato A, Gulley ML, Jain D, Kakar S, Mackay HJ, Streutker C, Tang L, Troxell M, Ajani JA
(2017) J Clin Oncol 35: 446-464 - Beyond mind-reading: multi-voxel pattern analysis of fMRI data.
Norman KA, Polyn SM, Detre GJ, Haxby JV
(2006) Trends Cogn Sci 10: 424-30 - Mass spectrometry to classify non-small-cell lung cancer patients for clinical outcome after treatment with epidermal growth factor receptor tyrosine kinase inhibitors: a multicohort cross-institutional study.
Taguchi F, Solomon B, Gregorc V, Roder H, Gray R, Kasahara K, Nishio M, Brahmer J, Spreafico A, Ludovini V, Massion PP, Dziadziuszko R, Schiller J, Grigorieva J, Tsypin M, Hunsucker SW, Caprioli R, Duncan MW, Hirsch FR, Bunn PA, Carbone DP
(2007) J Natl Cancer Inst 99: 838-46 - Quality of protein crystal structures.
Brown EN, Ramaswamy S
(2007) Acta Crystallogr D Biol Crystallogr 63: 941-50 - Clonal Hematopoiesis: Crossroads of Aging, Cardiovascular Disease, and Cancer: JACC Review Topic of the Week.
Libby P, Sidlow R, Lin AE, Gupta D, Jones LW, Moslehi J, Zeiher A, Jaiswal S, Schulz C, Blankstein R, Bolton KL, Steensma D, Levine RL, Ebert BL
(2019) J Am Coll Cardiol 74: 567-577 - Spotlight: Gastric Intestinal Metaplasia.
Shah SC, Gupta S, Li D, Morgan D, Mustafa RA, Gawron AJ
(2020) Gastroenterology 158: 704 - The developmental trajectory of pediatric asthma in 3- to-10-year-olds.
Wu P, Carroll KN, Gebretsadik T, Dupont WD, Mitchel EF, Hartert TV
(2012) J Allergy Clin Immunol 129: 1397-8 - Network-assisted protein identification and data interpretation in shotgun proteomics.
Li J, Zimmerman LJ, Park BH, Tabb DL, Liebler DC, Zhang B
(2009) Mol Syst Biol 5: 303 - Variants near FOXE1 are associated with hypothyroidism and other thyroid conditions: using electronic medical records for genome- and phenome-wide studies.
Denny JC, Crawford DC, Ritchie MD, Bielinski SJ, Basford MA, Bradford Y, Chai HS, Bastarache L, Zuvich R, Peissig P, Carrell D, Ramirez AH, Pathak J, Wilke RA, Rasmussen L, Wang X, Pacheco JA, Kho AN, Hayes MG, Weston N, Matsumoto M, Kopp PA, Newton KM, Jarvik GP, Li R, Manolio TA, Kullo IJ, Chute CG, Chisholm RL, Larson EB, McCarty CA, Masys DR, Roden DM, de Andrade M
(2011) Am J Hum Genet 89: 529-42 - Genetic architecture of microRNA expression: implications for the transcriptome and complex traits.
Gamazon ER, Ziliak D, Im HK, LaCroix B, Park DS, Cox NJ, Huang RS
(2012) Am J Hum Genet 90: 1046-63 - Scan-statistic approach identifies clusters of rare disease variants in LRP2, a gene linked and associated with autism spectrum disorders, in three datasets.
Ionita-Laza I, Makarov V, ARRA Autism Sequencing Consortium, Buxbaum JD
(2012) Am J Hum Genet 90: 1002-13 - Fluorescence in situ hybridization testing algorithm improves lung cancer detection in bronchial brushing specimens.
Voss JS, Kipp BR, Halling KC, Henry MR, Jett JR, Clayton AC, Rickman OB
(2010) Am J Respir Crit Care Med 181: 478-85 - A blood-based proteomic classifier for the molecular characterization of pulmonary nodules.
Li XJ, Hayward C, Fong PY, Dominguez M, Hunsucker SW, Lee LW, McLean M, Law S, Butler H, Schirm M, Gingras O, Lamontagne J, Allard R, Chelsky D, Price ND, Lam S, Massion PP, Pass H, Rom WN, Vachani A, Fang KC, Hood L, Kearney P
(2013) Sci Transl Med 5: 207ra142 - Distinguishing Ménétrier's disease from its mimics.
Rich A, Toro TZ, Tanksley J, Fiske WH, Lind CD, Ayers GD, Piessevaux H, Washington MK, Coffey RJ
(2010) Gut 59: 1617-24 - More than a gut feeling: predicting surgical necrotising enterocolitis.
Weitkamp JH
(2014) Gut 63: 1205-6 - PASADENA hyperpolarization of succinic acid for MRI and NMR spectroscopy.
Chekmenev EY, Hövener J, Norton VA, Harris K, Batchelder LS, Bhattacharya P, Ross BD, Weitekamp DP
(2008) J Am Chem Soc 130: 4212-3 - Genius: a genetic algorithm for automated structure elucidation from 13C NMR spectra.
Meiler J, Will M
(2002) J Am Chem Soc 124: 1868-70 - CTDGFinder: A Novel Homology-Based Algorithm for Identifying Closely Spaced Clusters of Tandemly Duplicated Genes.
Ortiz JF, Rokas A
(2017) Mol Biol Evol 34: 215-229 - Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines.
Geeleher P, Cox NJ, Huang RS
(2014) Genome Biol 15: R47 - High-quality draft assemblies of mammalian genomes from massively parallel sequence data.
Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, Berlin AM, Aird D, Costello M, Daza R, Williams L, Nicol R, Gnirke A, Nusbaum C, Lander ES, Jaffe DB
(2011) Proc Natl Acad Sci U S A 108: 1513-8 - Intermolecular associations determine the dynamics of the circadian KaiABC oscillator.
Qin X, Byrne M, Mori T, Zou P, Williams DR, McHaourab H, Johnson CH
(2010) Proc Natl Acad Sci U S A 107: 14805-10 - Rapid protein fold determination using unassigned NMR data.
Meiler J, Baker D
(2003) Proc Natl Acad Sci U S A 100: 15404-9 - Competition and allostery govern substrate selectivity of cyclooxygenase-2.
Mitchener MM, Hermanson DJ, Shockley EM, Brown HA, Lindsley CW, Reese J, Rouzer CA, Lopez CF, Marnett LJ
(2015) Proc Natl Acad Sci U S A 112: 12366-71 - Breakdown of the brain's functional network modularity with awareness.
Godwin D, Barry RL, Marois R
(2015) Proc Natl Acad Sci U S A 112: 3799-804 - Genomic landscape of human allele-specific DNA methylation.
Fang F, Hodges E, Molaro A, Dean M, Hannon GJ, Smith AD
(2012) Proc Natl Acad Sci U S A 109: 7332-7 - The rational design and construction of a cuboidal iron-sulfur protein.
Coldren CD, Hellinga HW, Caradonna JP
(1997) Proc Natl Acad Sci U S A 94: 6635-40 - Oscillatory patterns in temporal lobe reveal context reinstatement during memory search.
Manning JR, Polyn SM, Baltuch GH, Litt B, Kahana MJ
(2011) Proc Natl Acad Sci U S A 108: 12893-7 - Anonymization of electronic medical records for validating genome-wide association studies.
Loukides G, Gkoulalas-Divanis A, Malin B
(2010) Proc Natl Acad Sci U S A 107: 7898-903 - The patterns of natural variation in human genes.
Crawford DC, Akey DT, Nickerson DA
(2005) Annu Rev Genomics Hum Genet 6: 287-312
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