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Profile Publications(61)
XB-PERS-702

Publications By Peter D. Vize

Results 1 - 20 of 61 results

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Xenopus genomic data and browser resources.
Vize PD, Zorn AM.
Dev Biol. June 15, 2017; 426 (2): 194-199.

Transcriptome dynamics over a lunar month in a broadcast spawning Acroporid coral.
Oldach MJ, Workentine M, Matz MV, Fan TY, Vize PD.
Mol Ecol. January 31, 2017;

Genome evolution in the allotetraploid frog Xenopus laevis.
Session AM, Uno Y, Kwon T, Chapman JA, Toyoda A, Takahashi S, Fukui A, Hikosaka A, Suzuki A, Kondo M, van Heeringen SJ, Quigley I, Heinz S, Ogino H, Ochi H, Hellsten U, Lyons JB, Simakov O, Putnam N, Stites J, Kuroki Y, Tanaka T, Michiue T, Watanabe M, Bogdanovic O, Lister R, Georgiou G, Paranjpe SS, van Kruijsbergen I, Shu S, Carlson J, Kinoshita T, Ohta Y, Mawaribuchi S, Jenkins J, Grimwood J, Schmutz J, Mitros T, Mozaffari SV, Suzuki Y, Haramoto Y, Yamamoto TS, Takagi C, Heald R, Miller K, Haudenschild C, Kitzman J, Nakayama T, Izutsu Y, Robert J, Fortriede J, Burns K, Lotay V, Karimi K, Yasuoka Y, Dichmann DS, Flajnik MF, Houston DW, Shendure J, DuPasquier L, Vize PD, Zorn AM, Ito M, Marcotte EM, Wallingford JB, Ito Y, Asashima M, Ueno N, Matsuda Y, Veenstra GJ, Fujiyama A, Harland RM, Taira M, Rokhsar DS.
Nature. October 20, 2016; 538 (7625): 336-343.

Database and Informatic Challenges in Representing Both Diploid and Tetraploid Xenopus Species in Xenbase.
Vize PD, Liu Y, Karimi K.
Cytogenet Genome Res. October 12, 2016; .

Lunar Phase Modulates Circadian Gene Expression Cycles in the Broadcast Spawning Coral Acropora millepora.
Brady AK, Willis BL, Harder LD, Vize PD.
Biol Bull. April 1, 2016; 230 (2): 130-42.

Xenbase: Core features, data acquisition, and data processing.
James-Zorn C, Ponferrada VG, Burns KA, Fortriede JD, Lotay VS, Liu Y, Brad Karpinka J, Karimi K, Zorn AM, Vize PD.
Genesis. August 1, 2015; 53 (8): 486-97.

Model organism databases.
Vize PD, Westerfield M.
Genesis. August 1, 2015; 53 (8): 449.

Xenbase, the Xenopus model organism database; new virtualized system, data types and genomes.
Karpinka JB, Fortriede JD, Burns KA, James-Zorn C, Ponferrada VG, Lee J, Karimi K, Zorn AM, Vize PD.
Nucleic Acids Res. January 1, 2015; 43 (Database issue): D756-63.

Finding Our Way through Phenotypes.
Deans AR, Lewis SE, Huala E, Anzaldo SS, Ashburner M, Balhoff JP, Blackburn DC, Blake JA, Burleigh JG, Chanet B, Cooper LD, Courtot M, Csösz S, Cui H, Dahdul W, Das S, Dececchi TA, Dettai A, Diogo R, Druzinsky RE, Dumontier M, Franz NM, Friedrich F, Gkoutos GV, Haendel M, Harmon LJ, Hayamizu TF, He Y, Hines HM, Ibrahim N, Jackson LM, Jaiswal P, James-Zorn C, Köhler S, Lecointre G, Lapp H, Lawrence CJ, Le Novère N, Lundberg JG, Macklin J, Mast AR, Midford PE, Mikó I, Mungall CJ, Oellrich A, Osumi-Sutherland D, Parkinson H, Ramírez MJ, Richter S, Robinson PN, Ruttenberg A, Schulz KS, Segerdell E, Seltmann KC, Sharkey MJ, Smith AD, Smith B, Specht CD, Squires RB, Thacker RW, Thessen A, Fernandez-Triana J, Vihinen M, Vize PD, Vogt L, Wall CE, Walls RL, Westerfeld M, Wharton RA, Wirkner CS, Woolley JB, Yoder MJ, Zorn AM, Mabee P.
PLoS Biol. January 1, 2015; 13 (1): e1002033.

Staging the self-assembly process: inspiration from biological development.
Bhalla N, Bentley PJ, Vize PD, Jacob C.
Artif Life. January 1, 2014; 20 (1): 29-53.

The Virtual Xenbase: transitioning an online bioinformatics resource to a private cloud.
Karimi K, Vize PD.
Database (Oxford). January 1, 2014; 2014

Separate Introns Gained within Short and Long Soluble Peridinin-Chlorophyll a-Protein Genes during Radiation of Symbiodinium (Dinophyceae) Clade A and B Lineages.
Reichman JR, Vize PD.
PLoS One. January 1, 2014; 9 (10): e110608.

Enhanced XAO: the ontology of Xenopus anatomy and development underpins more accurate annotation of gene expression and queries on Xenbase.
Segerdell E, Ponferrada VG, James-Zorn C, Burns KA, Fortriede JD, Dahdul WM, Vize PD, Zorn AM.
J Biomed Semantics. October 18, 2013; 4 (1): 31.

mRNA fluorescence in situ hybridization to determine overlapping gene expression in whole-mount mouse embryos.
Neufeld SJ, Zhou X, Vize PD, Cobb J.
Dev Dyn. September 1, 2013; 242 (9): 1094-100.

Xenbase: expansion and updates of the Xenopus model organism database.
James-Zorn C, Ponferrada VG, Jarabek CJ, Burns KA, Segerdell EJ, Lee J, Snyder K, Bhattacharyya B, Karpinka JB, Fortriede J, Bowes JB, Zorn AM, Vize PD.
Nucleic Acids Res. January 1, 2013; 41 (Database issue): D865-70.

The Xenbase literature curation process.
Bowes JB, Snyder KA, James-Zorn C, Ponferrada VG, Jarabek CJ, Burns KA, Bhattacharyya B, Zorn AM, Vize PD.
Database (Oxford). January 1, 2013; 2013 bas046.

Ecological complexity of coral recruitment processes: effects of invertebrate herbivores on coral recruitment and growth depends upon substratum properties and coral species.
Davies SW, Matz MV, Vize PD.
PLoS One. January 1, 2013; 8 (9): e72830.

Photoreception and signal transduction in corals: proteomic and behavioral evidence for cytoplasmic calcium as a mediator of light responsivity.
Hilton JD, Brady AK, Spaho SA, Vize PD.
Biol Bull. December 1, 2012; 223 (3): 291-9.

Multicolor fluorescent in situ mRNA hybridization (FISH) on whole mounts and sections.
Lea R, Bonev B, Dubaissi E, Vize PD, Papalopulu N.
Methods Mol Biol. January 1, 2012; 917 431-44.

Antibody development and use in chromogenic and fluorescent immunostaining.
Dubaissi E, Panagiotaki N, Papalopulu N, Vize PD.
Methods Mol Biol. January 1, 2012; 917 411-29.

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