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Results: 1 to 20 of 88

1.

TARGeT: a web-based pipeline for retrieving and characterizing gene and transposable element families from genomic sequences.

Han Y, Burnette JM 3rd, Wessler SR.

Nucleic Acids Res. 2009 Jun;37(11):e78. doi: 10.1093/nar/gkp295. Epub 2009 May 8.

PMID:
19429695
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Genome-wide analysis of WOX gene family in rice, sorghum, maize, Arabidopsis and poplar.

Zhang X, Zong J, Liu J, Yin J, Zhang D.

J Integr Plant Biol. 2010 Nov;52(11):1016-26. doi: 10.1111/j.1744-7909.2010.00982.x.

PMID:
20977659
[PubMed - indexed for MEDLINE]
3.

MITE-Hunter: a program for discovering miniature inverted-repeat transposable elements from genomic sequences.

Han Y, Wessler SR.

Nucleic Acids Res. 2010 Dec;38(22):e199. doi: 10.1093/nar/gkq862. Epub 2010 Sep 29.

PMID:
20880995
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes.

Kurtz S, Narechania A, Stein JC, Ware D.

BMC Genomics. 2008 Oct 31;9:517. doi: 10.1186/1471-2164-9-517.

PMID:
18976482
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Whole genome surveys of rice, maize and sorghum reveal multiple horizontal transfers of the LTR-retrotransposon Route66 in Poaceae.

Roulin A, Piegu B, Fortune PM, Sabot F, D'Hont A, Manicacci D, Panaud O.

BMC Evol Biol. 2009 Mar 16;9:58. doi: 10.1186/1471-2148-9-58.

PMID:
19291296
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.

Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, Currie J, Angelova A, Collura K, Wissotski M, Ashley E, Morrow D, Fernandes J, Walbot V, Yu Y.

PLoS Genet. 2009 Nov;5(11):e1000740. doi: 10.1371/journal.pgen.1000740. Epub 2009 Nov 20.

PMID:
19936069
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

The rice R gene family: two distinct subfamilies containing several miniature inverted-repeat transposable elements.

Hu J, Reddy VS, Wessler SR.

Plant Mol Biol. 2000 Mar;42(5):667-78.

PMID:
10809440
[PubMed - indexed for MEDLINE]
8.

TEnest: automated chronological annotation and visualization of nested plant transposable elements.

Kronmiller BA, Wise RP.

Plant Physiol. 2008 Jan;146(1):45-59. Epub 2007 Nov 21.

PMID:
18032588
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Transposable element annotation of the rice genome.

Juretic N, Bureau TE, Bruskiewich RM.

Bioinformatics. 2004 Jan 22;20(2):155-60.

PMID:
14734305
[PubMed - indexed for MEDLINE]
Free Article
10.

Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize.

Xu JH, Messing J.

Mol Plant. 2008 Sep;1(5):760-9. doi: 10.1093/mp/ssn038. Epub 2008 Aug 1.

PMID:
19825579
[PubMed - indexed for MEDLINE]
11.

Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.

Yang L, Liu T, Li B, Sui Y, Chen J, Shi J, Wing RA, Chen M.

PLoS One. 2012;7(11):e50236. doi: 10.1371/journal.pone.0050236. Epub 2012 Nov 21.

PMID:
23185584
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The class III peroxidase multigenic family in rice and its evolution in land plants.

Passardi F, Longet D, Penel C, Dunand C.

Phytochemistry. 2004 Jul;65(13):1879-93.

PMID:
15279994
[PubMed - indexed for MEDLINE]
13.

Genome wide identification of Dof transcription factor gene family in sorghum and its comparative phylogenetic analysis with rice and Arabidopsis.

Kushwaha H, Gupta S, Singh VK, Rastogi S, Yadav D.

Mol Biol Rep. 2011 Nov;38(8):5037-53. doi: 10.1007/s11033-010-0650-9. Epub 2010 Dec 16.

PMID:
21161392
[PubMed - indexed for MEDLINE]
14.

Kiddo, a new transposable element family closely associated with rice genes.

Yang G, Dong J, Chandrasekharan MB, Hall TC.

Mol Genet Genomics. 2001 Nov;266(3):417-24.

PMID:
11713671
[PubMed - indexed for MEDLINE]
15.

Rice transposable elements: a survey of 73,000 sequence-tagged-connectors.

Mao L, Wood TC, Yu Y, Budiman MA, Tomkins J, Woo S, Sasinowski M, Presting G, Frisch D, Goff S, Dean RA, Wing RA.

Genome Res. 2000 Jul;10(7):982-90.

PMID:
10899147
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Genome-wide analysis and identification of genes related to expansin gene family in indica rice.

Hemalatha N, Rajesh MK, Narayanan NK.

Int J Bioinform Res Appl. 2011;7(2):162-7.

PMID:
21576074
[PubMed - indexed for MEDLINE]
17.

Targeted analysis of orthologous phytochrome A regions of the sorghum, maize, and rice genomes using comparative gene-island sequencing.

Morishige DT, Childs KL, Moore LD, Mullet JE.

Plant Physiol. 2002 Dec;130(4):1614-25.

PMID:
12481045
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

ProFITS of maize: a database of protein families involved in the transduction of signalling in the maize genome.

Ling Y, Du Z, Zhang Z, Su Z.

BMC Genomics. 2010 Oct 19;11:580. doi: 10.1186/1471-2164-11-580.

PMID:
20955618
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Identification of a high frequency transposon induced by tissue culture, nDaiZ, a member of the hAT family in rice.

Huang J, Zhang K, Shen Y, Huang Z, Li M, Tang D, Gu M, Cheng Z.

Genomics. 2009 Mar;93(3):274-81. doi: 10.1016/j.ygeno.2008.11.007. Epub 2008 Dec 23.

PMID:
19071208
[PubMed - indexed for MEDLINE]
Free Article
20.

A genomic and expression compendium of the expanded PEBP gene family from maize.

Danilevskaya ON, Meng X, Hou Z, Ananiev EV, Simmons CR.

Plant Physiol. 2008 Jan;146(1):250-64. Epub 2007 Nov 9.

PMID:
17993543
[PubMed - indexed for MEDLINE]
Free PMC Article

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