Yamada K, Lim J, Dale JM, Chen H, Shinn P, Palm CJ,
Southwick AM, Wu HC, Kim C, Nguyen M, Pham P, Cheuk R,
Karlin-Newmann G, Liu SX, Lam B, Sakano H, Wu T, Yu G,
Miranda M, Quach HL, Tripp M, Chang CH, Lee JM, Toriumi M,
Chan MM, Tang CC, Onodera CS, Deng JM, Akiyama K, Ansari Y,
Arakawa T, Banh J, Banno F, Bowser L, Brooks S, Carninci P,
Chao Q, Choy N, Enju A, Goldsmith AD, Gurjal M, Hansen NF,
Hayashizaki Y, Johnson-Hopson C, Hsuan VW, Iida K, Karnes M, Khan S,
Koesema E, Ishida J, Jiang PX, Jones T, Kawai J, Kamiya A,
Meyers C, Nakajima M, Narusaka M, Seki M, Sakurai T, Satou M,
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Empirical analysis of transcriptional activity in the Arabidopsis genome.
Science. 2003 Oct 31;302(5646):842-6.
Functional analysis of a genome requires accurate gene structure information and
a complete gene inventory. A dual experimental strategy was used to verify and
correct the initial genome sequence annotation of the reference plant
Arabidopsis. Sequencing full-length cDNAs and hybridizations using RNA
populations from various tissues to a set of high-density oligonucleotide arrays
spanning the entire genome allowed the accurate annotation of thousands of gene
structures. We identified 5817 novel transcription units, including a substantial
amount of antisense gene transcription, and 40 genes within the genetically
defined centromeres. This approach resulted in completion of approximately 30% of
the Arabidopsis ORFeome as a resource for global functional experimentation of
the plant proteome.
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