@article{sjodin_upsc-base_2006,
	title = {{UPSC}-{BASE} - {Populus} transcriptomics online},
	volume = {48},
	issn = {0960-7412},
	doi = {10/cxqkhm},
	abstract = {The increasing accessibility and use of microarrays in transcriptomics has accentuated the need for purpose-designed storage and analysis tools. Here we present UPSC-BASE, a database for analysis and storage of Populus DNA microarray data. A microarray analysis pipeline has also been established to allow consistent and efficient analysis (from small to large scale) of samples in various experimental designs. A range of optimized experimental protocols is provided for each step in generating the data. Within UPSC-BASE, researchers can perform standard and advanced microarray analysis procedures in a user-friendly environment. Background corrections, normalizations, quality-control tools, visualizations, hypothesis tests and export tools are provided without requirements for expert-level knowledge. Although the database has been developed primarily for handling Populus DNA microarrays, most of the tools are generic and can be used for other types of microarray. UPSC-BASE is also a repository of Populus microarray information, providing data from 21 experiments on a total of 407 microarray hybridizations in the public domain of the database. There are also an additional 10 experiments containing 347 hybridizations, where the automatically analysed data are searchable.},
	language = {English},
	number = {5},
	journal = {Plant Journal},
	author = {Sjodin, Andreas and Bylesjo, Max and Skogstrom, Oskar and Eriksson, Daniel and Nilsson, Peter and Ryden, Patrik and Jansson, Stefan and Karlsson, Jan},
	month = dec,
	year = {2006},
	note = {Place: Hoboken
Publisher: Wiley
WOS:000242042900013},
	keywords = {bioconductor, cdna microarray data, database, design, expression profiling, functional genomics, gene-expression patterns, genomics, microarray, normalization, poplar, resource, sequence tags, tool, transcriptome},
	pages = {806--817},
}

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