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Open Access Highly Accessed Methodology article

Screening and identification of seed-specific genes using digital differential display tools combined with microarray data from common wheat

Xinglu Yang1, Hongliang Xu1, Wenhui Li1, Le Li1, Jinyue Sun2, Yaxuan Li1, Yueming Yan1 and Yingkao Hu1*

Author Affiliations

1 College of Life Sciences, Capital Normal University, Beijing, 100048, China

2 Plant Biotechnology Institute, National Research Council Canada, Saskatoon, S7N 0W9, Canada

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BMC Genomics 2011, 12:513  doi:10.1186/1471-2164-12-513

Published: 17 October 2011

Additional files

Additional File 1:

The details of the libraries chosen for comparison. The libraries for comparison in wheat were released on July 19th, 2010, and the date for rice was on Apr 5, 2011.

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Additional File 2:

Summary of the 201 unigenes screened. The unigene ID, probeset and the ID of homologous genes of rice were provided.

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Open Data

Additional File 3:

Information of enriched GO terms of seed-specific genes in wheat and rice. GOID, term definition, p-value and probesets were listed in the file.

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Open Data

Additional File 4:

GO enrichment for seed-specific genes in rice. The result graphs display enriched GOIDs of 70 rice seed genes and their hierarchical relationships in "biological process(BP)", "cellular component(CC)" or "molecular function(MF)" GO categories. Non-significant GO terms within the hierarcical tree are shown as points. Boxes represent GO terms, term definition, p-value and detail information. Significantly enriched GO terms are marked yellow. The degree of color saturation of each node is positively correlated with the significance of enrichment of the corresponding GO term. Non-significant GO terms within the hierarcical tree are shown as points. Branches of the GO hierarchical tree without significant enriched GO terms are not shown. Edges stand for connections between different GO terms. Red edges stand for relationship between two enriched GO terms, black solid edges stand for relationship between enriched and unenriched terms, black dashed edges stand for relationship between two unenriched GO terms.

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Open Data