@article {49685,
	title = {Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies.},
	journal = {Nucleic Acids Res},
	volume = {31},
	year = {2003},
	month = {2003 Oct 1},
	pages = {5654-66},
	abstract = {<p>The spliced alignment of expressed sequence data to genomic sequence has proven a key tool in the comprehensive annotation of genes in eukaryotic genomes. A novel algorithm was developed to assemble clusters of overlapping transcript alignments (ESTs and full-length cDNAs) into maximal alignment assemblies, thereby comprehensively incorporating all available transcript data and capturing subtle splicing variations. Complete and partial gene structures identified by this method were used to improve The Institute for Genomic Research Arabidopsis genome annotation (TIGR release v.4.0). The alignment assemblies permitted the automated modeling of several novel genes and >1000 alternative splicing variations as well as updates (including UTR annotations) to nearly half of the approximately 27 000 annotated protein coding genes. The algorithm of the Program to Assemble Spliced Alignments (PASA) tool is described, as well as the results of automated updates to Arabidopsis gene annotations.</p>},
	keywords = {algorithms, Alternative Splicing, Arabidopsis, DNA, Complementary, Expressed Sequence Tags, Genome, Plant, Introns, Plant Proteins, RNA, Plant, sequence alignment, software, Transcription, Genetic, Untranslated Regions},
	issn = {1362-4962},
	author = {Haas, Brian J and Delcher, Arthur L and Mount, Stephen M and Wortman, Jennifer R and Smith, Roger K and Hannick, Linda I and Maiti, Rama and Ronning, Catherine M and Rusch, Douglas B and Town, Christopher D and Salzberg, Steven L and White, Owen}
}
@article {49688,
	title = {Evidence for a plastid origin of plant ethylene receptor genes.},
	journal = {Plant Physiol},
	volume = {130},
	year = {2002},
	month = {2002 Sep},
	pages = {10-4},
	keywords = {Amino Acid Sequence, Anabaena, Arabidopsis, Cyanobacteria, Molecular Sequence Data, Plant Proteins, Plastids, Protein Kinases, Receptors, Cell Surface, Sequence Homology, Amino Acid},
	issn = {0032-0889},
	doi = {10.1104/pp.005397},
	author = {Mount, Stephen M and Chang, Caren}
}
