SNUGB: A versatile genome browser supporting comparative and functional fungal genomics

Kyongyong Jung, Jongsun Park, Jaeyoung Choi, Bongsoo Park, Seungill Kim, Kyohun Ahn, Jaehyuk Choi, Doil Choi, Seogchan Kang, Yong Hwan Lee

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

Background: Since the full genome sequences of Saccharomyces cerevisiae were released in 1996, genome sequences of over 90 fungal species have become publicly available. The heterogeneous formats of genome sequences archived in different sequencing centers hampered the integration of the data for efficient and comprehensive comparative analyses. The Comparative Fungal Genomics Platform (CFGP) was developed to archive these data via a single standardized format that can support multifaceted and integrated analyses of the data. To facilitate efficient data visualization and utilization within and across species based on the architecture of CFGP and associated databases, a new genome browser was needed. Results: The Seoul National University Genome Browser (SNUGB) integrates various types of genomic information derived from 98 fungal/oomycete (137 datasets) and 34 plant and animal (38 datasets) species, graphically presents germane features and properties of each genome, and supports comparison between genomes. The SNUGB provides three different forms of the data presentation interface, including diagram, table, and text, and six different display options to support visualization and utilization of the stored information. Information for individual species can be quickly accessed via a new tool named the taxonomy browser. In addition, SNUGB offers four useful data annotation/analysis functions, including 'BLAST annotation.' The modular design of SNUGB makes its adoption to support other comparative genomic platforms easy and facilitates continuous expansion. Conclusion: The SNUGB serves as a powerful platform supporting comparative and functional genomics within the fungal kingdom and also across other kingdoms. All data and functions are available at the web site http://genomebrowser.snu.ac.kr/.

Original languageEnglish (US)
Article number586
JournalBMC genomics
Volume9
DOIs
StatePublished - Dec 4 2008

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Genomics
Genome
Seoul
Oomycetes
Saccharomyces cerevisiae
Databases

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Genetics

Cite this

Jung, K., Park, J., Choi, J., Park, B., Kim, S., Ahn, K., ... Lee, Y. H. (2008). SNUGB: A versatile genome browser supporting comparative and functional fungal genomics. BMC genomics, 9, [586]. https://doi.org/10.1186/1471-2164-9-586
Jung, Kyongyong ; Park, Jongsun ; Choi, Jaeyoung ; Park, Bongsoo ; Kim, Seungill ; Ahn, Kyohun ; Choi, Jaehyuk ; Choi, Doil ; Kang, Seogchan ; Lee, Yong Hwan. / SNUGB : A versatile genome browser supporting comparative and functional fungal genomics. In: BMC genomics. 2008 ; Vol. 9.
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Jung, K, Park, J, Choi, J, Park, B, Kim, S, Ahn, K, Choi, J, Choi, D, Kang, S & Lee, YH 2008, 'SNUGB: A versatile genome browser supporting comparative and functional fungal genomics', BMC genomics, vol. 9, 586. https://doi.org/10.1186/1471-2164-9-586

SNUGB : A versatile genome browser supporting comparative and functional fungal genomics. / Jung, Kyongyong; Park, Jongsun; Choi, Jaeyoung; Park, Bongsoo; Kim, Seungill; Ahn, Kyohun; Choi, Jaehyuk; Choi, Doil; Kang, Seogchan; Lee, Yong Hwan.

In: BMC genomics, Vol. 9, 586, 04.12.2008.

Research output: Contribution to journalArticle

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AU - Jung, Kyongyong

AU - Park, Jongsun

AU - Choi, Jaeyoung

AU - Park, Bongsoo

AU - Kim, Seungill

AU - Ahn, Kyohun

AU - Choi, Jaehyuk

AU - Choi, Doil

AU - Kang, Seogchan

AU - Lee, Yong Hwan

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