Justin T. Page

Bioinformatic Software

PolyCat

BamBam

Suffix Grove


Publications
   
Page JT, Udall JA. (2015) Methods for mapping and Categorization of DNA Sequence Reads from Allopolyploid Organisms. BMC Genetics 16 (Supplement 2) (April 23): S4.

Page JT, Clement MJ, Udall JA. Genome Sequence Assembly by Suffix Tree Branch Extension. Journal of Bioinformatics Research Studies 2014, 1(2): 1.

Page JT, Liechty ZS, Huynh MD, Udall JA (2014). BamBam: genome sequence analysis tools for biologists. BMC Research Notes, 7(1), 1–5.

Page JT, Huynh MD, Liechty ZS, Grupp K, Stelly DM, Hulse AM, Ashrafi H, Van Deynze A, Wendel JF, Udall JA: Insights into the Evolution of Cotton Diploids and Polyploids from Whole-Genome Re-sequencing. G3 (Bethesda) 2013.

Page JT, Gingle AR, Udall JA: PolyCat: A Resource for Genome Categorization of Sequencing Reads From Allopolyploid Organisms. G3 (Bethesda) 2013, 3:517–525.

Rambani A, Page JT, Udall JA: Polyploidy and the petal transcriptome of Gossypium. BMC Plant Biol 2014, 14:3.

 
Yurchenko et al. Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium. BMC Plant Biology 2014, 14:312.

Schultheis AS, Davis N, Page JT, Fenwick AM, Bond JE, Shiozawa DK: Comparative transcriptomics allows for rapid development of population-level nuclear markers in Hesperoperla pacifica(Plecoptera:Perlidae). Freshwater Science 2014, 33:364–373.

Renny-Byfield S, Gallagher JP, Grover CE, Szadkowski E, Page JT, Udall JA, Wang X, Paterson AH, Wendel JF: Ancient gene duplicates in Gossypium (cotton) exhibit near-complete expression divergence. Genome Biol Evol 2014, 6:559–571.

Raney JA, Reynolds DJ, Elzinga DB, Page J, Udall JA, Jellen EN, Bonfacio A, Fairbanks DJ, Maughan PJ: Transcriptome Analysis of Drought Induced Stress in
Chenopodium quinoa. American Journal of Plant Sciences 2014, 2014.

Naoumkina M, Thyssen G, Fang DD, Hinchliffe DJ, Florane C, Yeater KM, Page JT, Udall JA: The Li2 mutation results in reduced subgenome expression bias in elongating fibers of allotetraploid cotton (Gossypium hirsutum L.). PLoS ONE 2014, 9:e90830.

Bowman MJ, Park W, Bauer PJ, Udall JA, Page JT, Raney J, Scheffler BE, Jones DC, Campbell BT: RNA-Seq transcriptome profiling of upland cotton (Gossypium hirsutum L.) root tissue under water-deficit stress. PLoS ONE 2013, 8:e82634.

Richardson BA, Page JT, Bajgain P, Sanderson SC, Udall JA: Deep sequencing of amplicons reveals widespread intraspecific hybridization and multiple origins of polyploidy in big sagebrush (Artemisia tridentata; Asteraceae). American Journal of Botany 2012, 99:1962–1975.

Price JC, Udall JA, Bodily PM, Ward JA, Schatz MC, Page JT, Jensen JD, Snell QO, Clement MJ: De novo identification of “heterotigs” towards accurate and in-phase assembly of complex plant genomes. 2012:1–7.

Paterson AH, Wendel JF, Gundlach H, Guo H, Jenkins J, Jin D, Llewellyn D, Showmaker KC, Shu S, Udall J, Yoo M-J, Byers R, Chen W, Doron-Faigenboim A, Duke MV, Gong L, Grimwood J, Grover C, Grupp K, Hu G, Lee T-H, Li J, Lin L, Liu T, Marler BS, Page JT, Roberts AW, Romanel E, Sanders WS, Szadkowski E, Tan X, Tang H, Xu C, Wang J, Wang Z, Zhang D, Zhang L, Ashrafi H, Bedon F, Bowers JE, Brubaker CL, Chee PW, Das S, Gingle AR, Haigler CH, Harker D, Hoffmann LV, Hovav R, Jones DC, Lemke C, Mansoor S, ur Rahman M, Rainville LN, Rambani A, Reddy UK, Rong J-K, Saranga Y, Scheffler BE, Scheffler JA, Stelly DM, Triplett BA, Van Deynze A, Vaslin MFS, Waghmare VN, Walford SA, Wright RJ, Zaki EA, Zhang T, Dennis ES, Mayer KFX, Peterson DG, Rokhsar DS, Wang X, Schmutz J: Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature 2012, 492:423–427.

 

Presentations

Page JT, Gingle AR, Udall JA. A Resource for Genome Categorization of Sequencing Reads from Allopolyploid Organisms. BIOT 2012.

Houston, D.D., N.G. Davis, J.T. Page, P. Ridge, R.P. Evans & D.K. Shiozawa. Whole Transcriptome Sequencing Facilitates Nuclear Marker Development in Salmonid Fishes. Evolution. Snowbird, UT, USA. June 2013.

Davis, N.G., J.T. Page, D.K. Shiozawa. Application of Next-generation Transcriptomic Tools for Non-model Organisms: Gene Discovery and Marker Development within Plecoptera (Insecta). Society for Freshwater Science. Jacksonville, FL, USA. May 2013.

Bowman MJ, Park W, Udall JA, Page JT, Bauer PJ, Campbell BT. Tissue Specific Transcriptome Changes Occurring During Water Deficit Stress in Tetraploid Cotton. Annual Beltwide Cotton Conference. 2013 Jan.

Page JT, Huynh MD, Van Deynze A, Udall JA. Genome Resquencing of Select Cotton Diploid Accessions. International Plant and Animal Genome Conference. 2013 Jan.

Udall JA, Rambani A, Page JT, Grupp K, Wendel JF. The Correlation Of DNA Methylation and Homoeologous Gene Expression In Cotton Petals. International Plant and Animal Genome Conference. 2013 Jan.

Szadkowski E, Page JT, Udall JA, Jeddeloh JA, Grover CE, Grupp KK, Salmon A, Wendel JF. Unequal Accumulation Of Nucleotide Diversity In The Two Co-Resident Genomes Of Allopolyploid Cotton. International Plant and Animal Genome Conference. 2013 Jan.

Davis, N.G., J.T. Page, & D.K. Shiozawa. Transcriptome-Based Genetic Marker Development for Non-model Organisms. Desert Fishes Council. Death Valley, CA, USA. November 2012.

Udall JA, Page JT, Rambani A, Grupp K. Transcriptome and Methylation Analysis of Gossypium Petal Tissue. Department Seminar. 2012 Oct.

Park W, Udall JA, Page JT, Bauer P, Campbell BT. Transcriptomic approaches for the identification of drought-responsive genes in cotton. International Cotton Genomics Initiative. 2012 Oct.

Udall JA, Rambani A, Page JT, Grupp K, Wendel JF. The Correlation of DNA Methylation and Homeologous Gene Expression in Cotton Petals. Plant Biology 2012. 2012 Jul.

Udall JA, Page J, Grupp K, Jeddeloh J, Wendel JF. Diversity of duplicated gene pairs in allotetraploid Gossypium hirsutum. 2nd Annual Progress and Applications of Next-Generation Sequencing Workshop. 2012 May.

Udall JA, Salmon A, Grupp K, Page J, Jeddeloh J, Wendel JF. Diversity of 534 pairs of duplicated genes in allotetraploid G. hirsutum. Utah Plant Genetics Conference. 2012 Feb.

Rambani A, Page JT, Grupp K, Wendel JF, Udall JA. Homoeologous gene expression and DNA methylation in cotton petals. International Plant and Animal Genome Conference. 2012 Jan.

Udall JA, Bajgain P, Richardson B, Page J. Natural Sequence Diversity of Artemesia tridentata in the Western United States. Botany 2011. 2011 Jul.


Education

2016 - Ph.D. (Biology) *Anticipated*, Department of Biology, Brigham Young University, Provo, UT

2012 - B.S. (Computer Science-Bioinformatics), Department of Computer Science, Brigham Young University, Provo, UT


Grants and Awards

2014 - 2016 Cotton Incorporated Fellow

2012 - 2016 Graduate Scholarship, Department of Biology, Brigham Young University, Provo, UT

2006 - 2007, 2009 - 2012 Presidential Academic Scholarship, Brigham Young University, Provo, UT