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FmTFDb: a foxtail millet transcription factors database for expediting functional genomics in millets

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Abstract

Foxtail millet has recently been regarded as a model crop for studying the systems biology of millets and bioenergy grass species. For expediting the functional genomic studies in this model crop as well as in the related millets and bioenergy grasses, we have developed a comprehensive transcription factor database. Our foxtail millet transcription factors database (FmTFDb: http://59.163.192.91/FmTFDb/index.html) encompasses 2,297 putative TFs in 55 families along with its sequence features, chromosomal locations, tissue-specific gene expression data, gene ontology (GO) assignment, and phylogeny. FmTFDb is intended to provide the users an unrestricted public access in retrieving and visualizing the individual members of a TF family through a set of query interfaces and analysis tools, including the BLAST search, annotation query interfaces, and tools to identify enriched GO terms and to visualize physical maps. This FmTFDb will serve as a promising central resource for researchers as well as breeders who are dedicated towards crop improvement of millets and bioenergy grasses.

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Acknowledgments

Authors’ work in this area was financially supported by the core Grant of National Institute of Plant Genome Research (NIPGR), New Delhi, India. Mr. Mehanathan Muthamilarasan acknowledges the award of Junior Research Fellowship from University Grants Commission, New Delhi. Assistance of Dr. Debasis Chattopadhyay, NIPGR in providing server facility is greatly appreciated. Computational resources under BTISNET Program (DISC facility) are thankfully acknowledged.

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Authors and Affiliations

  1. National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, JNU Campus, New Delhi, 110 067, India

    Venkata Suresh Bonthala, Mehanathan Muthamilarasan, Riti Roy & Manoj Prasad

Authors
  1. Venkata Suresh Bonthala
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  2. Mehanathan Muthamilarasan
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  3. Riti Roy
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  4. Manoj Prasad
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Corresponding author

Correspondence to Manoj Prasad.

Additional information

Venkata Suresh Bonthala, Mehanathan Muthamilarasan are contributed equally to this work.

Electronic supplementary material

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11033_2014_3574_MOESM1_ESM.pdf

Supplemental file 1. Tutorial for using the FmTFDb. The step-wise description on using the database enables the user to access the web resource efficiently. (PDF 3053 kb)

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Bonthala, V.S., Muthamilarasan, M., Roy, R. et al. FmTFDb: a foxtail millet transcription factors database for expediting functional genomics in millets. Mol Biol Rep 41, 6343–6348 (2014). https://doi.org/10.1007/s11033-014-3574-y

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  • DOI: https://doi.org/10.1007/s11033-014-3574-y

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