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Items: 12

1.

Using single-cell multiple omics approaches to resolve tumor heterogeneity.

Ortega MA, Poirion O, Zhu X, Huang S, Wolfgruber TK, Sebra R, Garmire LX.

Clin Transl Med. 2017 Dec 28;6(1):46. doi: 10.1186/s40169-017-0177-y. Review.

2.

Granatum: a graphical single-cell RNA-Seq analysis pipeline for genomics scientists.

Zhu X, Wolfgruber TK, Tasato A, Arisdakessian C, Garmire DG, Garmire LX.

Genome Med. 2017 Dec 5;9(1):108. doi: 10.1186/s13073-017-0492-3.

3.

Phylogenetic Relationships, Breeding Implications, and Cultivation History of Hawaiian Taro (Colocasia Esculenta) Through Genome-Wide SNP Genotyping.

Helmkampf M, Wolfgruber TK, Bellinger MR, Paudel R, Kantar MB, Miyasaka SC, Kimball HL, Brown A, Veillet A, Read A, Shintaku M.

J Hered. 2018 Mar 16;109(3):272-282. doi: 10.1093/jhered/esx070.

4.

Improved maize reference genome with single-molecule technologies.

Jiao Y, Peluso P, Shi J, Liang T, Stitzer MC, Wang B, Campbell MS, Stein JC, Wei X, Chin CS, Guill K, Regulski M, Kumari S, Olson A, Gent J, Schneider KL, Wolfgruber TK, May MR, Springer NM, Antoniou E, McCombie WR, Presting GG, McMullen M, Ross-Ibarra J, Dawe RK, Hastie A, Rank DR, Ware D.

Nature. 2017 Jun 22;546(7659):524-527. doi: 10.1038/nature22971. Epub 2017 Jun 12.

PMID:
28605751
5.

High Quality Maize Centromere 10 Sequence Reveals Evidence of Frequent Recombination Events.

Wolfgruber TK, Nakashima MM, Schneider KL, Sharma A, Xie Z, Albert PS, Xu R, Bilinski P, Dawe RK, Ross-Ibarra J, Birchler JA, Presting GG.

Front Plant Sci. 2016 Mar 23;7:308. doi: 10.3389/fpls.2016.00308. eCollection 2016.

6.

Inbreeding drives maize centromere evolution.

Schneider KL, Xie Z, Wolfgruber TK, Presting GG.

Proc Natl Acad Sci U S A. 2016 Feb 23;113(8):E987-96. doi: 10.1073/pnas.1522008113. Epub 2016 Feb 8.

7.

Tandem repeats derived from centromeric retrotransposons.

Sharma A, Wolfgruber TK, Presting GG.

BMC Genomics. 2013 Mar 4;14:142. doi: 10.1186/1471-2164-14-142.

8.

The Hawaiian Freshwater Algal Database (HfwADB): a laboratory LIMS and online biodiversity resource.

Sherwood AR, Wang N, Carlile AL, Neumann JM, Wolfgruber TK, Presting GG.

BMC Ecol. 2012 Oct 25;12:22. doi: 10.1186/1472-6785-12-22.

9.

JunctionViewer: customizable annotation software for repeat-rich genomic regions.

Wolfgruber TK, Presting GG.

BMC Bioinformatics. 2010 Jan 12;11:23. doi: 10.1186/1471-2105-11-23.

10.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

11.

Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons.

Wolfgruber TK, Sharma A, Schneider KL, Albert PS, Koo DH, Shi J, Gao Z, Han F, Lee H, Xu R, Allison J, Birchler JA, Jiang J, Dawe RK, Presting GG.

PLoS Genet. 2009 Nov;5(11):e1000743. doi: 10.1371/journal.pgen.1000743. Epub 2009 Nov 20.

12.

Precise centromere mapping using a combination of repeat junction markers and chromatin immunoprecipitation-polymerase chain reaction.

Luce AC, Sharma A, Mollere OS, Wolfgruber TK, Nagaki K, Jiang J, Presting GG, Dawe RK.

Genetics. 2006 Oct;174(2):1057-61. Epub 2006 Sep 1.

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