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Items: 1 to 20 of 23


A gene expression microarray for Nicotiana benthamiana based on de novo transcriptome sequence assembly.

Goralski M, Sobieszczanska P, Obrepalska-Steplowska A, Swiercz A, Zmienko A, Figlerowicz M.

Plant Methods. 2016 May 20;12:28. doi: 10.1186/s13007-016-0128-4. eCollection 2016.


Genome-wide identification and functional prediction of novel and fungi-responsive lincRNAs in Triticum aestivum.

Zhang H, Hu W, Hao J, Lv S, Wang C, Tong W, Wang Y, Wang Y, Liu X, Ji W.

BMC Genomics. 2016 Mar 15;17:238. doi: 10.1186/s12864-016-2570-0.


Positionally-conserved but sequence-diverged: identification of long non-coding RNAs in the Brassicaceae and Cleomaceae.

Mohammadin S, Edger PP, Pires JC, Schranz ME.

BMC Plant Biol. 2015 Sep 11;15:217. doi: 10.1186/s12870-015-0603-5.


RNA sequencing and functional analysis implicate the regulatory role of long non-coding RNAs in tomato fruit ripening.

Zhu B, Yang Y, Li R, Fu D, Wen L, Luo Y, Zhu H.

J Exp Bot. 2015 Aug;66(15):4483-95. doi: 10.1093/jxb/erv203. Epub 2015 May 6.


Characteristics and significance of intergenic polyadenylated RNA transcription in Arabidopsis.

Moghe GD, Lehti-Shiu MD, Seddon AE, Yin S, Chen Y, Juntawong P, Brandizzi F, Bailey-Serres J, Shiu SH.

Plant Physiol. 2013 Jan;161(1):210-24. doi: 10.1104/pp.112.205245. Epub 2012 Nov 6.


Euchromatic subdomains in rice centromeres are associated with genes and transcription.

Wu Y, Kikuchi S, Yan H, Zhang W, Rosenbaum H, Iniguez AL, Jiang J.

Plant Cell. 2011 Nov;23(11):4054-64. doi: 10.1105/tpc.111.090043. Epub 2011 Nov 11.


Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing.

Xin M, Wang Y, Yao Y, Song N, Hu Z, Qin D, Xie C, Peng H, Ni Z, Sun Q.

BMC Plant Biol. 2011 Apr 7;11:61. doi: 10.1186/1471-2229-11-61.


Ratio-based analysis of differential mRNA processing and expression of a polyadenylation factor mutant pcfs4 using arabidopsis tiling microarray.

Zheng J, Xing D, Wu X, Shen Y, Kroll DM, Ji G, Li QQ.

PLoS One. 2011 Feb 25;6(2):e14719. doi: 10.1371/journal.pone.0014719.


A hidden Markov support vector machine framework incorporating profile geometry learning for identifying microbial RNA in tiling array data.

Yu WH, Høvik H, Chen T.

Bioinformatics. 2010 Jun 1;26(11):1423-30. doi: 10.1093/bioinformatics/btq162. Epub 2010 Apr 15.


Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome.

Zhang G, Guo G, Hu X, Zhang Y, Li Q, Li R, Zhuang R, Lu Z, He Z, Fang X, Chen L, Tian W, Tao Y, Kristiansen K, Zhang X, Li S, Yang H, Wang J, Wang J.

Genome Res. 2010 May;20(5):646-54. doi: 10.1101/gr.100677.109. Epub 2010 Mar 19.


Gene expression profiles deciphering rice phenotypic variation between Nipponbare (Japonica) and 93-11 (Indica) during oxidative stress.

Liu F, Xu W, Wei Q, Zhang Z, Xing Z, Tan L, Di C, Yao D, Wang C, Tan Y, Yan H, Ling Y, Sun C, Xue Y, Su Z.

PLoS One. 2010 Jan 8;5(1):e8632. doi: 10.1371/journal.pone.0008632.


AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling.

Rehrauer H, Aquino C, Gruissem W, Henz SR, Hilson P, Laubinger S, Naouar N, Patrignani A, Rombauts S, Shu H, Van de Peer Y, Vuylsteke M, Weigel D, Zeller G, Hennig L.

Plant Physiol. 2010 Feb;152(2):487-99. doi: 10.1104/pp.109.150185. Epub 2009 Dec 23.


Evolutionary and expression signatures of pseudogenes in Arabidopsis and rice.

Zou C, Lehti-Shiu MD, Thibaud-Nissen F, Prakash T, Buell CR, Shiu SH.

Plant Physiol. 2009 Sep;151(1):3-15. doi: 10.1104/pp.109.140632. Epub 2009 Jul 29.


An approach to comparing tiling array and high throughput sequencing technologies for genomic transcript mapping.

Sasidharan R, Agarwal A, Rozowsky J, Gerstein M.

BMC Res Notes. 2009 Jul 24;2:150. doi: 10.1186/1756-0500-2-150.


Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays.

Hazen SP, Naef F, Quisel T, Gendron JM, Chen H, Ecker JR, Borevitz JO, Kay SA.

Genome Biol. 2009 Feb 11;10(2):R17. doi: 10.1186/gb-2009-10-2-r17.


The functional role of pack-MULEs in rice inferred from purifying selection and expression profile.

Hanada K, Vallejo V, Nobuta K, Slotkin RK, Lisch D, Meyers BC, Shiu SH, Jiang N.

Plant Cell. 2009 Jan;21(1):25-38. doi: 10.1105/tpc.108.063206. Epub 2009 Jan 9.


Highly diversified molecular evolution of downstream transcription start sites in rice and Arabidopsis.

Tanaka T, Koyanagi KO, Itoh T.

Plant Physiol. 2009 Mar;149(3):1316-24. doi: 10.1104/pp.108.131656. Epub 2008 Dec 31.


At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana.

Laubinger S, Zeller G, Henz SR, Sachsenberg T, Widmer CK, Naouar N, Vuylsteke M, Schölkopf B, Rätsch G, Weigel D.

Genome Biol. 2008;9(7):R112. doi: 10.1186/gb-2008-9-7-r112. Epub 2008 Jul 9.


Green transcription factors: a chlamydomonas overview.

Riaño-Pachón DM, Corrêa LG, Trejos-Espinosa R, Mueller-Roeber B.

Genetics. 2008 May;179(1):31-9. doi: 10.1534/genetics.107.086090.


Transcriptional analysis of highly syntenic regions between Medicago truncatula and Glycine max using tiling microarrays.

Li L, He H, Zhang J, Wang X, Bai S, Stolc V, Tongprasit W, Young ND, Yu O, Deng XW.

Genome Biol. 2008;9(3):R57. doi: 10.1186/gb-2008-9-3-r57. Epub 2008 Mar 19.

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