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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
- Non-optimal codon usage is a mechanism to achieve circadian clock conditionality.
Xu Y, Ma P, Shah P, Rokas A, Liu Y, Johnson CH
(2013) Nature 495: 116-20 - The molecular basis of hypodactyly (Hd): a deletion in Hoxa 13 leads to arrest of digital arch formation.
Mortlock DP, Post LC, Innis JW
(1996) Nat Genet 13: 284-9 - Kinesin-dependent axonal transport is mediated by the sunday driver (SYD) protein.
Bowman AB, Kamal A, Ritchings BW, Philp AV, McGrail M, Gindhart JG, Goldstein LS
(2000) Cell 103: 583-94 - Human genomics. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans.
GTEx Consortium
(2015) Science 348: 648-60 - G protein-coupled receptors in Anopheles gambiae.
Hill CA, Fox AN, Pitts RJ, Kent LB, Tan PL, Chrystal MA, Cravchik A, Collins FH, Robertson HM, Zwiebel LJ
(2002) Science 298: 176-8 - The functional impact of SLC6 transporter genetic variation.
Hahn MK, Blakely RD
(2007) Annu Rev Pharmacol Toxicol 47: 401-41 - Clustering autism: using neuroanatomical differences in 26 mouse models to gain insight into the heterogeneity.
Ellegood J, Anagnostou E, Babineau BA, Crawley JN, Lin L, Genestine M, DiCicco-Bloom E, Lai JK, Foster JA, Peñagarikano O, Geschwind DH, Pacey LK, Hampson DR, Laliberté CL, Mills AA, Tam E, Osborne LR, Kouser M, Espinosa-Becerra F, Xuan Z, Powell CM, Raznahan A, Robins DM, Nakai N, Nakatani J, Takumi T, van Eede MC, Kerr TM, Muller C, Blakely RD, Veenstra-VanderWeele J, Henkelman RM, Lerch JP
(2015) Mol Psychiatry 20: 118-25 - Lsh, a member of the SNF2 family, is required for genome-wide methylation.
Dennis K, Fan T, Geiman T, Yan Q, Muegge K
(2001) Genes Dev 15: 2940-4 - TFIIF-TAF-RNA polymerase II connection.
Henry NL, Campbell AM, Feaver WJ, Poon D, Weil PA, Kornberg RD
(1994) Genes Dev 8: 2868-78 - MiR-15 family regulates postnatal mitotic arrest of cardiomyocytes.
Porrello ER, Johnson BA, Aurora AB, Simpson E, Nam YJ, Matkovich SJ, Dorn GW, van Rooij E, Olson EN
(2011) Circ Res 109: 670-9 - 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 - 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 - Homeobox genes are expressed in the retina and brain of adult goldfish.
Levine EM, Schechter N
(1993) Proc Natl Acad Sci U S A 90: 2729-33 - Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism.
Opperman CH, Bird DM, Williamson VM, Rokhsar DS, Burke M, Cohn J, Cromer J, Diener S, Gajan J, Graham S, Houfek TD, Liu Q, Mitros T, Schaff J, Schaffer R, Scholl E, Sosinski BR, Thomas VP, Windham E
(2008) Proc Natl Acad Sci U S A 105: 14802-7 - Yeast casein kinase I homologues: an essential gene pair.
Robinson LC, Hubbard EJ, Graves PR, DePaoli-Roach AA, Roach PJ, Kung C, Haas DW, Hagedorn CH, Goebl M, Culbertson MR
(1992) Proc Natl Acad Sci U S A 89: 28-32 - Multiple GAL pathway gene clusters evolved independently and by different mechanisms in fungi.
Slot JC, Rokas A
(2010) Proc Natl Acad Sci U S A 107: 10136-41 - Oxidative cyclizations in orthosomycin biosynthesis expand the known chemistry of an oxygenase superfamily.
McCulloch KM, McCranie EK, Smith JA, Sarwar M, Mathieu JL, Gitschlag BL, Du Y, Bachmann BO, Iverson TM
(2015) Proc Natl Acad Sci U S A 112: 11547-52 - Reply to Braasch and Postlethwait: Evolutionary origin of the teleost A2 agouti genes (agouti signaling protein 2 and agouti-related protein 2) remains unclear.
Schiöth HB, Västermark Å, Cone RD
(2011) Proc Natl Acad Sci U S A 108: E49-50 - Influence of site of expression on the fetal gamma delta T-cell receptor repertoire.
Kyes S, Pao W, Hayday A
(1991) Proc Natl Acad Sci U S A 88: 7830-3 - Circadian yin-yang regulation and its manipulation to globally reprogram gene expression.
Xu Y, Weyman PD, Umetani M, Xiong J, Qin X, Xu Q, Iwasaki H, Johnson CH
(2013) Curr Biol 23: 2365-74 - Horizontal transfer of a large and highly toxic secondary metabolic gene cluster between fungi.
Slot JC, Rokas A
(2011) Curr Biol 21: 134-9 - A Global Coexpression Network Approach for Connecting Genes to Specialized Metabolic Pathways in Plants.
Wisecaver JH, Borowsky AT, Tzin V, Jander G, Kliebenstein DJ, Rokas A
(2017) Plant Cell 29: 944-959 - A validated gene expression model of high-risk multiple myeloma is defined by deregulated expression of genes mapping to chromosome 1.
Shaughnessy JD, Zhan F, Burington BE, Huang Y, Colla S, Hanamura I, Stewart JP, Kordsmeier B, Randolph C, Williams DR, Xiao Y, Xu H, Epstein J, Anaissie E, Krishna SG, Cottler-Fox M, Hollmig K, Mohiuddin A, Pineda-Roman M, Tricot G, van Rhee F, Sawyer J, Alsayed Y, Walker R, Zangari M, Crowley J, Barlogie B
(2007) Blood 109: 2276-84 - PARP-14, a member of the B aggressive lymphoma family, transduces survival signals in primary B cells.
Cho SH, Goenka S, Henttinen T, Gudapati P, Reinikainen A, Eischen CM, Lahesmaa R, Boothby M
(2009) Blood 113: 2416-25 - The transforming growth factor-beta superfamily of receptors.
de Caestecker M
(2004) Cytokine Growth Factor Rev 15: 1-11 - Site-specific inversions in repeated Xenopus laevis homeobox gene 2 sequences.
Fritz AF, Martin G, Wright CV, De Robertis EM
(1988) Nucleic Acids Res 16: 9058 - Interleukin-1 gene cluster polymorphisms predict risk of ESRD.
Wetmore JB, Hung AM, Lovett DH, Sen S, Quershy O, Johansen KL
(2005) Kidney Int 68: 278-84 - Shared gene expression profiles in individuals with autoimmune disease and unaffected first-degree relatives of individuals with autoimmune disease.
Maas K, Chen H, Shyr Y, Olsen NJ, Aune T
(2005) Hum Mol Genet 14: 1305-14 - p53 and Delta Np63 alpha differentially bind and regulate target genes involved in cell cycle arrest, DNA repair and apoptosis.
Schavolt KL, Pietenpol JA
(2007) Oncogene 26: 6125-32 - Combined 17 alpha-hydroxylase/17,20-lyase deficiency due to a 7-basepair duplication in the N-terminal region of the cytochrome P45017 alpha (CYP17) gene.
Yanase T, Sanders D, Shibata A, Matsui N, Simpson ER, Waterman MR
(1990) J Clin Endocrinol Metab 70: 1325-9 - Replication and characterisation of genetic variants in the fibrinogen gene cluster with plasma fibrinogen levels and haematological traits in the Third National Health and Nutrition Examination Survey.
Jeff JM, Brown-Gentry K, Crawford DC
(2012) Thromb Haemost 107: 458-67 - Transcriptome analysis in a rat model of L-DOPA-induced dyskinesia.
Konradi C, Westin JE, Carta M, Eaton ME, Kuter K, Dekundy A, Lundblad M, Cenci MA
(2004) Neurobiol Dis 17: 219-36 - Infragranular gene expression disturbances in the prefrontal cortex in schizophrenia: signature of altered neural development?
Arion D, Horváth S, Lewis DA, Mirnics K
(2010) Neurobiol Dis 37: 738-46 - Interactions of the p53 protein family in cellular stress response in gastrointestinal tumors.
Vilgelm AE, Washington MK, Wei J, Chen H, Prassolov VS, Zaika AI
(2010) Mol Cancer Ther 9: 693-705 - Multiple germline kappa light chains generate anti-insulin B cells in nonobese diabetic mice.
Woodward EJ, Thomas JW
(2005) J Immunol 175: 1073-9 - Cutting edge: molecular portrait of human autoimmune disease.
Maas K, Chan S, Parker J, Slater A, Moore J, Olsen N, Aune TM
(2002) J Immunol 169: 5-9 - Members of the large Maf transcription family regulate insulin gene transcription in islet beta cells.
Matsuoka TA, Zhao L, Artner I, Jarrett HW, Friedman D, Means A, Stein R
(2003) Mol Cell Biol 23: 6049-62 - Pulmonary Arterial Hypertension: A Current Perspective on Established and Emerging Molecular Genetic Defects.
Machado RD, Southgate L, Eichstaedt CA, Aldred MA, Austin ED, Best DH, Chung WK, Benjamin N, Elliott CG, Eyries M, Fischer C, Gräf S, Hinderhofer K, Humbert M, Keiles SB, Loyd JE, Morrell NW, Newman JH, Soubrier F, Trembath RC, Viales RR, Grünig E
(2015) Hum Mutat 36: 1113-27 - Transcriptional remodeling of rapidly stimulated HL-1 atrial myocytes exhibits concordance with human atrial fibrillation.
Mace LC, Yermalitskaya LV, Yi Y, Yang Z, Morgan AM, Murray KT
(2009) J Mol Cell Cardiol 47: 485-92 - Nfu facilitates the maturation of iron-sulfur proteins and participates in virulence in Staphylococcus aureus.
Mashruwala AA, Pang YY, Rosario-Cruz Z, Chahal HK, Benson MA, Mike LA, Skaar EP, Torres VJ, Nauseef WM, Boyd JM
(2015) Mol Microbiol 95: 383-409
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