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dc.creatorJi, S
dc.creatorLi, YX
dc.creatorZhou, ZH
dc.creatorKumar, S
dc.creatorYe, J
dc.date.accessioned2021-02-01T00:35:47Z
dc.date.available2021-02-01T00:35:47Z
dc.date.issued2009-04-21
dc.identifier.issn1471-2105
dc.identifier.issn1471-2105
dc.identifier.doihttp://dx.doi.org/10.34944/dspace/5562
dc.identifier.other19383139 (pubmed)
dc.identifier.urihttp://hdl.handle.net/20.500.12613/5580
dc.description.abstractBackground: Drosophila gene expression pattern images document the spatiotemporal dynamics of gene expression during embryogenesis. A comparative analysis of these images could provide a fundamentally important way for studying the regulatory networks governing development. To facilitate pattern comparison and searching, groups of images in the Berkeley Drosophila Genome Project (BDGP) high-throughput study were annotated with a variable number of anatomical terms manually using a controlled vocabulary. Considering that the number of available images is rapidly increasing, it is imperative to design computational methods to automate this task. Results: We present a computational method to annotate gene expression pattern images automatically. The proposed method uses the bag-of-words scheme to utilize the existing information on pattern annotation and annotates images using a model that exploits correlations among terms. The proposed method can annotate images individually or in groups (e.g., according to the developmental stage). In addition, the proposed method can integrate information from different two-dimensional views of embryos. Results on embryonic patterns from BDGP data demonstrate that our method significantly outperforms other methods. Conclusion: The proposed bag-of-words scheme is effective in representing a set of annotations assigned to a group of images, and the model employed to annotate images successfully captures the correlations among different controlled vocabulary terms. The integration of existing annotation information from multiple embryonic views improves annotation performance. © 2009 Ji et al; licensee BioMed Central Ltd.
dc.format.extent119-119
dc.language.isoen
dc.relation.haspartBMC Bioinformatics
dc.relation.isreferencedbySpringer Science and Business Media LLC
dc.rightsCC BY
dc.subjectAnimals
dc.subjectComputational Biology
dc.subjectDatabases, Genetic
dc.subjectDrosophila
dc.subjectGene Expression
dc.subjectGene Expression Profiling
dc.subjectPattern Recognition, Automated
dc.titleA bag-of-words approach for Drosophila gene expression pattern annotation
dc.typeArticle
dc.type.genreJournal Article
dc.relation.doi10.1186/1471-2105-10-119
dc.ada.noteFor Americans with Disabilities Act (ADA) accommodation, including help with reading this content, please contact scholarshare@temple.edu
dc.creator.orcidKumar, Sudhir|0000-0002-9918-8212
dc.date.updated2021-02-01T00:35:42Z
refterms.dateFOA2021-02-01T00:35:48Z


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