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Items: 16

1.

Widespread long-range cis-regulatory elements in the maize genome.

Ricci WA, Lu Z, Ji L, Marand AP, Ethridge CL, Murphy NG, Noshay JM, Galli M, Mejía-Guerra MK, Colomé-Tatché M, Johannes F, Rowley MJ, Corces VG, Zhai J, Scanlon MJ, Buckler ES, Gallavotti A, Springer NM, Schmitz RJ, Zhang X.

Nat Plants. 2019 Nov 18. doi: 10.1038/s41477-019-0547-0. [Epub ahead of print]

PMID:
31740773
2.

A k-mer grammar analysis to uncover maize regulatory architecture.

Mejía-Guerra MK, Buckler ES.

BMC Plant Biol. 2019 Mar 15;19(1):103. doi: 10.1186/s12870-019-1693-2.

3.

Evolutionarily informed deep learning methods for predicting relative transcript abundance from DNA sequence.

Washburn JD, Mejia-Guerra MK, Ramstein G, Kremling KA, Valluru R, Buckler ES, Wang H.

Proc Natl Acad Sci U S A. 2019 Mar 19;116(12):5542-5549. doi: 10.1073/pnas.1814551116. Epub 2019 Mar 6.

4.

Genome-Wide TSS Identification in Maize.

Mejia-Guerra MK, Li W, Doseff AI, Grotewold E.

Methods Mol Biol. 2018;1830:239-256. doi: 10.1007/978-1-4939-8657-6_14.

PMID:
30043374
5.

A Maize Gene Regulatory Network for Phenolic Metabolism.

Yang F, Li W, Jiang N, Yu H, Morohashi K, Ouma WZ, Morales-Mantilla DE, Gomez-Cano FA, Mukundi E, Prada-Salcedo LD, Velazquez RA, Valentin J, Mejía-Guerra MK, Gray J, Doseff AI, Grotewold E.

Mol Plant. 2017 Mar 6;10(3):498-515. doi: 10.1016/j.molp.2016.10.020. Epub 2016 Nov 19.

6.

Identification and Characterization of Maize salmon silks Genes Involved in Insecticidal Maysin Biosynthesis.

Casas MI, Falcone-Ferreyra ML, Jiang N, Mejía-Guerra MK, Rodríguez E, Wilson T, Engelmeier J, Casati P, Grotewold E.

Plant Cell. 2016 Jun;28(6):1297-309. doi: 10.1105/tpc.16.00003. Epub 2016 May 24. Erratum in: Plant Cell. 2016 Aug;28(8):1984-7.

7.

Core Promoter Plasticity Between Maize Tissues and Genotypes Contrasts with Predominance of Sharp Transcription Initiation Sites.

Mejía-Guerra MK, Li W, Galeano NF, Vidal M, Gray J, Doseff AI, Grotewold E.

Plant Cell. 2015 Dec;27(12):3309-20. doi: 10.1105/tpc.15.00630. Epub 2015 Dec 1.

8.

Large-scale transcriptional profiling of lignified tissues in Tectona grandis.

Galeano E, Vasconcelos TS, Vidal M, Mejia-Guerra MK, Carrer H.

BMC Plant Biol. 2015 Sep 15;15:221. doi: 10.1186/s12870-015-0599-x.

9.

Important biological information uncovered in previously unaligned reads from chromatin immunoprecipitation experiments (ChIP-Seq).

Ouma WZ, Mejia-Guerra MK, Yilmaz A, Pareja-Tobes P, Li W, Doseff AI, Grotewold E.

Sci Rep. 2015 Mar 2;5:8635. doi: 10.1038/srep08635.

10.

The Maize TFome--development of a transcription factor open reading frame collection for functional genomics.

Burdo B, Gray J, Goetting-Minesky MP, Wittler B, Hunt M, Li T, Velliquette D, Thomas J, Gentzel I, dos Santos Brito M, Mejía-Guerra MK, Connolly LN, Qaisi D, Li W, Casas MI, Doseff AI, Grotewold E.

Plant J. 2014 Oct;80(2):356-66. doi: 10.1111/tpj.12623. Epub 2014 Aug 26.

11.

Unraveling the KNOTTED1 regulatory network in maize meristems.

Bolduc N, Yilmaz A, Mejia-Guerra MK, Morohashi K, O'Connor D, Grotewold E, Hake S.

Genes Dev. 2012 Aug 1;26(15):1685-90. doi: 10.1101/gad.193433.112.

12.

A genome-wide regulatory framework identifies maize pericarp color1 controlled genes.

Morohashi K, Casas MI, Falcone Ferreyra ML, Falcone Ferreyra L, Mejía-Guerra MK, Pourcel L, Yilmaz A, Feller A, Carvalho B, Emiliani J, Rodriguez E, Pellegrinet S, McMullen M, Casati P, Grotewold E.

Plant Cell. 2012 Jul;24(7):2745-64. doi: 10.1105/tpc.112.098004. Epub 2012 Jul 20. Erratum in: Plant Cell. 2012 Sep;24(9):3853. Falcone Ferreyra, Lorena [corrected to Falcone Ferreyra, Maria Lorena]. Plant Cell. 2016 Dec;28(12 ):3058-3060.

13.

From plant gene regulatory grids to network dynamics.

Mejia-Guerra MK, Pomeranz M, Morohashi K, Grotewold E.

Biochim Biophys Acta. 2012 May;1819(5):454-65. doi: 10.1016/j.bbagrm.2012.02.016. Epub 2012 Mar 2. Review.

PMID:
22406342
14.

Emergence of switch-like behavior in a large family of simple biochemical networks.

Siegal-Gaskins D, Mejia-Guerra MK, Smith GD, Grotewold E.

PLoS Comput Biol. 2011 May;7(5):e1002039. doi: 10.1371/journal.pcbi.1002039. Epub 2011 May 12.

15.

AGRIS: the Arabidopsis Gene Regulatory Information Server, an update.

Yilmaz A, Mejia-Guerra MK, Kurz K, Liang X, Welch L, Grotewold E.

Nucleic Acids Res. 2011 Jan;39(Database issue):D1118-22. doi: 10.1093/nar/gkq1120. Epub 2010 Nov 8.

16.

In silico identification of regulatory elements of GRIN1 genes.

Mejía-Guerra MK, Lareo LR.

OMICS. 2005 Spring;9(1):106-15.

PMID:
15805781

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