Display options
Cite
Yu DS, Kim BK. SFannotation: A Simple and Fast Protein Function Annotation System. Genomics Inform. 2014;12(2):76-8doi: 10.5808/GI.2014.12.2.76.
Yu, D. S., & Kim, B. K. (2014). SFannotation: A Simple and Fast Protein Function Annotation System. Genomics & informatics, 12(2), 76-8. https://doi.org/10.5808/GI.2014.12.2.76
Yu, Dong Su, and Kim, Byung Kwon. "SFannotation: A Simple and Fast Protein Function Annotation System." Genomics & informatics vol. 12,2 (2014): 76-8. doi: https://doi.org/10.5808/GI.2014.12.2.76
Yu DS, Kim BK. SFannotation: A Simple and Fast Protein Function Annotation System. Genomics Inform. 2014 Jun;12(2):76-8. doi: 10.5808/GI.2014.12.2.76. Epub 2014 Jun 30. PMID: 25031571; PMCID: PMC4099352.
Copy Download .nbib Format: NLM
Share it on

Genomics Inform. 2014 Jun;12(2):76-8. doi: 10.5808/GI.2014.12.2.76. Epub 2014 Jun 30.

SFannotation: A Simple and Fast Protein Function Annotation System.

Genomics & informatics

Dong Su Yu, Byung Kwon Kim

Affiliations

  1. Korean BioInformation Center (KOBIC), Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Korea.
  2. BioNano Health Guard Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Korea.

PMID: 25031571 PMCID: PMC4099352 DOI: 10.5808/GI.2014.12.2.76

Abstract

Owing to the generation of vast amounts of sequencing data by using cost-effective, high-throughput sequencing technologies with improved computational approaches, many putative proteins have been discovered after assembly and structural annotation. Putative proteins are typically annotated using a functional annotation system that uses extant databases, but the expansive size of these databases often causes a bottleneck for rapid functional annotation. We developed SFannotation, a simple and fast functional annotation system that rapidly annotates putative proteins against four extant databases, Swiss-Prot, TIGRFAMs, Pfam, and the non-redundant sequence database, by using a best-hit approach with BLASTP and HMMSEARCH.

Keywords: bioinformatics; gene product; protein annotation

References

  1. Nucleic Acids Res. 2014 Jan;42(Database issue):D206-14 - PubMed
  2. Nucleic Acids Res. 2010 Jan;38(Database issue):D196-203 - PubMed
  3. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W29-37 - PubMed
  4. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W182-5 - PubMed
  5. BMC Bioinformatics. 2005 Jun 16;6:151 - PubMed
  6. Brief Bioinform. 2013 Jan;14(1):1-12 - PubMed
  7. Genome Res. 2003 Sep;13(9):2178-89 - PubMed
  8. Nucleic Acids Res. 2012 Jan;40(Database issue):D290-301 - PubMed
  9. Proc Natl Acad Sci U S A. 1999 Mar 16;96(6):2896-901 - PubMed
  10. Methods Mol Biol. 2012;881:471-503 - PubMed
  11. Nucleic Acids Res. 2013 Jan;41(Database issue):D387-95 - PubMed
  12. Nucleic Acids Res. 2009 Jan;37(Database issue):D387-92 - PubMed
  13. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W5-9 - PubMed
  14. BMC Bioinformatics. 2012 Feb 15;13:33 - PubMed
  15. Nat Methods. 2013 Mar;10(3):221-7 - PubMed
  16. BMC Bioinformatics. 2009 Dec 15;10:421 - PubMed

Publication Types