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Items: 36

1.

Construction and Optimization of a Large Gene Coexpression Network in Maize Using RNA-Seq Data.

Huang J, Vendramin S, Shi L, McGinnis KM.

Plant Physiol. 2017 Sep;175(1):568-583. doi: 10.1104/pp.17.00825. Epub 2017 Aug 2.

2.

Computational Analysis of LncRNA from cDNA Sequences.

Boerner S, McGinnis KM.

Methods Mol Biol. 2016;1402:255-269. doi: 10.1007/978-1-4939-3378-5_20.

PMID:
26721497
3.

RNA-directed DNA methylation enforces boundaries between heterochromatin and euchromatin in the maize genome.

Li Q, Gent JI, Zynda G, Song J, Makarevitch I, Hirsch CD, Hirsch CN, Dawe RK, Madzima TF, McGinnis KM, Lisch D, Schmitz RJ, Vaughn MW, Springer NM.

Proc Natl Acad Sci U S A. 2015 Nov 24;112(47):14728-33. doi: 10.1073/pnas.1514680112. Epub 2015 Nov 9.

4.

Paramutation in evolution, population genetics and breeding.

Springer NM, McGinnis KM.

Semin Cell Dev Biol. 2015 Aug;44:33-8. doi: 10.1016/j.semcdb.2015.08.010. Epub 2015 Sep 11. Review.

PMID:
26325077
5.

Genetic perturbation of the maize methylome.

Li Q, Eichten SR, Hermanson PJ, Zaunbrecher VM, Song J, Wendt J, Rosenbaum H, Madzima TF, Sloan AE, Huang J, Burgess DL, Richmond TA, McGinnis KM, Meeley RB, Danilevskaya ON, Vaughn MW, Kaeppler SM, Jeddeloh JA, Springer NM.

Plant Cell. 2014 Dec;26(12):4602-16. doi: 10.1105/tpc.114.133140. Epub 2014 Dec 19.

6.

Accessible DNA and relative depletion of H3K9me2 at maize loci undergoing RNA-directed DNA methylation.

Gent JI, Madzima TF, Bader R, Kent MR, Zhang X, Stam M, McGinnis KM, Dawe RK.

Plant Cell. 2014 Dec;26(12):4903-17. doi: 10.1105/tpc.114.130427. Epub 2014 Dec 2.

7.

Differential nuclease sensitivity profiling of chromatin reveals biochemical footprints coupled to gene expression and functional DNA elements in maize.

Vera DL, Madzima TF, Labonne JD, Alam MP, Hoffman GG, Girimurugan SB, Zhang J, McGinnis KM, Dennis JH, Bass HW.

Plant Cell. 2014 Oct;26(10):3883-93. doi: 10.1105/tpc.114.130609. Epub 2014 Oct 31.

8.

Diverse gene-silencing mechanisms with distinct requirements for RNA polymerase subunits in Zea mays.

Sloan AE, Sidorenko L, McGinnis KM.

Genetics. 2014 Nov;198(3):1031-42. doi: 10.1534/genetics.114.168518. Epub 2014 Aug 27.

9.

Chromatin structure and gene expression changes associated with loss of MOP1 activity in Zea mays.

Madzima TF, Huang J, McGinnis KM.

Epigenetics. 2014 Jul;9(7):1047-59. doi: 10.4161/epi.29022. Epub 2014 May 1.

10.

Genome-wide prediction of nucleosome occupancy in maize reveals plant chromatin structural features at genes and other elements at multiple scales.

Fincher JA, Vera DL, Hughes DD, McGinnis KM, Dennis JH, Bass HW.

Plant Physiol. 2013 Jun;162(2):1127-41. doi: 10.1104/pp.113.216432. Epub 2013 Apr 9.

11.

Changes in nucleosome position at transcriptional start sites of specific genes in Zea mays mediator of paramutation1 mutants.

Labonne JD, Dorweiler JE, McGinnis KM.

Epigenetics. 2013 Apr;8(4):398-408. doi: 10.4161/epi.24199. Epub 2013 Mar 28.

12.

Spreading of heterochromatin is limited to specific families of maize retrotransposons.

Eichten SR, Ellis NA, Makarevitch I, Yeh CT, Gent JI, Guo L, McGinnis KM, Zhang X, Schnable PS, Vaughn MW, Dawe RK, Springer NM.

PLoS Genet. 2012;8(12):e1003127. doi: 10.1371/journal.pgen.1003127. Epub 2012 Dec 13.

13.

Computational identification and functional predictions of long noncoding RNA in Zea mays.

Boerner S, McGinnis KM.

PLoS One. 2012;7(8):e43047. doi: 10.1371/journal.pone.0043047. Epub 2012 Aug 16.

14.

Identification of epigenetic regulators of a transcriptionally silenced transgene in maize.

Madzima TF, Mills ES, Gardiner JM, McGinnis KM.

G3 (Bethesda). 2011 Jun;1(1):75-83. doi: 10.1534/g3.111.000232. Epub 2011 Jun 1.

15.

RNAi for functional genomics in plants.

McGinnis KM.

Brief Funct Genomics. 2010 Mar;9(2):111-7. doi: 10.1093/bfgp/elp052. Epub 2010 Jan 6. Review.

PMID:
20053816
16.

Genome-wide analyses of alternative splicing in plants: opportunities and challenges.

Barbazuk WB, Fu Y, McGinnis KM.

Genome Res. 2008 Sep;18(9):1381-92. doi: 10.1101/gr.053678.106. Epub 2008 Jul 30. Review.

17.

Transcriptionally silenced transgenes in maize are activated by three mutations defective in paramutation.

McGinnis KM, Springer C, Lin Y, Carey CC, Chandler V.

Genetics. 2006 Jul;173(3):1637-47. Epub 2006 May 15.

18.

Recessive-interfering mutations in the gibberellin signaling gene SLEEPY1 are rescued by overexpression of its homologue, SNEEZY.

Strader LC, Ritchie S, Soule JD, McGinnis KM, Steber CM.

Proc Natl Acad Sci U S A. 2004 Aug 24;101(34):12771-6. Epub 2004 Aug 12.

19.

Surgical management of leiomyosarcoma of the mediastinum.

Conner WC, Fink GW, McGinnis KM, Alfieris GM.

Ann Thorac Surg. 2004 Jan;77(1):334-6. Review.

PMID:
14726097
20.

The Arabidopsis SLEEPY1 gene encodes a putative F-box subunit of an SCF E3 ubiquitin ligase.

McGinnis KM, Thomas SG, Soule JD, Strader LC, Zale JM, Sun TP, Steber CM.

Plant Cell. 2003 May;15(5):1120-30.

21.

Totally endoscopic robotic thymectomy for myasthenia gravis.

Ashton RC Jr, McGinnis KM, Connery CP, Swistel DG, Ewing DR, DeRose JJ Jr.

Ann Thorac Surg. 2003 Feb;75(2):569-71.

PMID:
12607676
22.

Cytochrome c translocation does not lead to caspase activation in maitotoxin-treated SH-SY5Y neuroblastoma cells.

McGinnis KM, Gnegy ME, Falk N, Nath R, Wang KK.

Neurochem Int. 2003 May;42(6):517-23.

PMID:
12547651
23.

The HD mutation does not alter neuronal death in the striatum of Hdh(Q92) knock-in mice after mild focal ischemia.

Namura S, Hirt L, Wheeler VC, McGinnis KM, Hilditch-Maguire P, Moskowitz MA, MacDonald ME, Persichetti F.

Neurobiol Dis. 2002 Oct;11(1):147-54.

PMID:
12460554
24.

Caspase-mediated calcineurin activation contributes to IL-2 release during T cell activation.

Mukerjee N, McGinnis KM, Gnegy ME, Wang KK.

Biochem Biophys Res Commun. 2001 Aug 3;285(5):1192-9.

PMID:
11478781
25.
26.

Huntingtin's WW domain partners in Huntington's disease post-mortem brain fulfill genetic criteria for direct involvement in Huntington's disease pathogenesis.

Passani LA, Bedford MT, Faber PW, McGinnis KM, Sharp AH, Gusella JF, Vonsattel JP, MacDonald ME.

Hum Mol Genet. 2000 Sep 1;9(14):2175-82.

PMID:
10958656
27.

Caspase-mediated proteolytic activation of calcineurin in thapsigargin-mediated apoptosis in SH-SY5Y neuroblastoma cells.

Mukerjee N, McGinnis KM, Park YH, Gnegy ME, Wang KK.

Arch Biochem Biophys. 2000 Jul 15;379(2):337-43.

PMID:
10898953
28.

Procaspase-3 and poly(ADP)ribose polymerase (PARP) are calpain substrates.

McGinnis KM, Gnegy ME, Park YH, Mukerjee N, Wang KK.

Biochem Biophys Res Commun. 1999 Sep 16;263(1):94-9.

PMID:
10486259
29.
31.
32.

Evidence for activation of caspase-3-like protease in excitotoxin- and hypoxia/hypoglycemia-injured neurons.

Nath R, Probert A Jr, McGinnis KM, Wang KK.

J Neurochem. 1998 Jul;71(1):186-95.

33.
34.

Methylmercury increases intracellular concentrations of Ca++ and heavy metals in NG108-15 cells.

Hare MF, McGinnis KM, Atchison WD.

J Pharmacol Exp Ther. 1993 Sep;266(3):1626-35.

PMID:
8371160
36.

Analyses of the Ss and Slp proteins in a hemolytic assay for murine C41.

Atkinson JP, McGinnis KM, Peterein J, Shreffler DC.

Immunobiology. 1980;158(1-2):5-9. No abstract available.

PMID:
7203520

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