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Title: Exploiting plant transcriptomic databases: resources, tools, and approaches
Authors: Lim, Peng Ken
Zheng, Xinghai
Goh, Jong Ching
Mutwil, Marek
Keywords: Science::Biological sciences
Issue Date: 2022
Source: Lim, P. K., Zheng, X., Goh, J. C. & Mutwil, M. (2022). Exploiting plant transcriptomic databases: resources, tools, and approaches. Plant Communications, 3(4), 100323-.
Project: MOE2018-T2-2-053 
Journal: Plant Communications 
Abstract: There are now more than 300 000 RNA sequencing samples available, stemming from thousands of experiments capturing gene expression in organs, tissues, developmental stages, and experimental treatments for hundreds of plant species. The expression data have great value, as they can be re-analyzed by others to ask and answer questions that go beyond the aims of the study that generated the data. Because gene expression provides essential clues to where and when a gene is active, the data provide powerful tools for predicting gene function, and comparative analyses allow us to study plant evolution from a new perspective. This review describes how we can gain new knowledge from gene expression profiles, expression specificities, co-expression networks, differential gene expression, and experiment correlation. We also introduce and demonstrate databases that provide user-friendly access to these tools.
ISSN: 2590-3462
DOI: 10.1016/j.xplc.2022.100323
Schools: School of Biological Sciences 
Rights: © 2022 The Author(s). Published by the Plant Communications Shanghai Editorial Office in association with Cell Press, an imprint of Elsevier Inc., on behalf of CSPB and CEMPS, CAS. This is an open access article under the CC BY-NC-ND license (
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SBS Journal Articles

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