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COMBREX: a project to accelerate the functional annotation of prokaryotic genomes.
Nucleic Acids Res. 2011 Jan;39(Database issue):D11-4. doi: 10.1093/nar/gkq1168. Epub 2010 Nov 21.
2
COMBREX: COMputational BRidge to EXperiments.
Biochem Soc Trans. 2011 Apr;39(2):581-3. doi: 10.1042/BST0390581.
3
COMBREX-DB: an experiment centered database of protein function: knowledge, predictions and knowledge gaps.
Nucleic Acids Res. 2016 Jan 4;44(D1):D330-5. doi: 10.1093/nar/gkv1324. Epub 2015 Dec 3.
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RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation.
Nucleic Acids Res. 2021 Jan 8;49(D1):D1020-D1028. doi: 10.1093/nar/gkaa1105.
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The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST).
Nucleic Acids Res. 2014 Jan;42(Database issue):D206-14. doi: 10.1093/nar/gkt1226. Epub 2013 Nov 29.
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ProTISA: a comprehensive resource for translation initiation site annotation in prokaryotic genomes.
Nucleic Acids Res. 2008 Jan;36(Database issue):D114-9. doi: 10.1093/nar/gkm799. Epub 2007 Oct 16.
9
IMG 4 version of the integrated microbial genomes comparative analysis system.
Nucleic Acids Res. 2014 Jan;42(Database issue):D560-7. doi: 10.1093/nar/gkt963. Epub 2013 Oct 27.
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The UCSC Archaeal Genome Browser: 2012 update.
Nucleic Acids Res. 2012 Jan;40(Database issue):D646-52. doi: 10.1093/nar/gkr990. Epub 2011 Nov 12.

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Unraveling the functional dark matter through global metagenomics.
Nature. 2023 Oct;622(7983):594-602. doi: 10.1038/s41586-023-06583-7. Epub 2023 Oct 11.
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The Y-ome Conundrum: Insights into Uncharacterized Genes and Approaches for Functional Annotation.
Mol Cell Biochem. 2024 Aug;479(8):1957-1968. doi: 10.1007/s11010-023-04827-8. Epub 2023 Aug 23.
3
Adapting Undergraduate Research to Remote Work to Increase Engagement.
Biophysicist (Rockv). 2021 Sep;2(2):28-32. doi: 10.35459/tbp.2021.000199. Epub 2021 Aug 9.
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Seminars in immunology special issue: Nutrition, microbiota and immunity The unexplored microbes in health and disease.
Semin Immunol. 2023 Mar;66:101735. doi: 10.1016/j.smim.2023.101735. Epub 2023 Feb 27.
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The y-ome defines the 35% of Escherichia coli genes that lack experimental evidence of function.
Nucleic Acids Res. 2019 Mar 18;47(5):2446-2454. doi: 10.1093/nar/gkz030.
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Functional Annotation of a Presumed Nitronate Monoxygenase Reveals a New Class of NADH:Quinone Reductases.
J Biol Chem. 2016 Sep 30;291(40):21160-21170. doi: 10.1074/jbc.M116.739151. Epub 2016 Aug 8.
7
COMBREX-DB: an experiment centered database of protein function: knowledge, predictions and knowledge gaps.
Nucleic Acids Res. 2016 Jan 4;44(D1):D330-5. doi: 10.1093/nar/gkv1324. Epub 2015 Dec 3.
8
Synthetic Ecology of Microbes: Mathematical Models and Applications.
J Mol Biol. 2016 Feb 27;428(5 Pt B):837-61. doi: 10.1016/j.jmb.2015.10.019. Epub 2015 Nov 11.
10
Databases for Microbiologists.
J Bacteriol. 2015 Aug 1;197(15):2458-67. doi: 10.1128/JB.00330-15. Epub 2015 May 26.

本文引用的文献

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From complete genome sequence to 'complete' understanding?
Trends Biotechnol. 2010 Aug;28(8):398-406. doi: 10.1016/j.tibtech.2010.05.006.
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Annotation error in public databases: misannotation of molecular function in enzyme superfamilies.
PLoS Comput Biol. 2009 Dec;5(12):e1000605. doi: 10.1371/journal.pcbi.1000605. Epub 2009 Dec 11.
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Automatic policing of biochemical annotations using genomic correlations.
Nat Chem Biol. 2010 Jan;6(1):34-40. doi: 10.1038/nchembio.266. Epub 2009 Nov 22.
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GenBank.
Nucleic Acids Res. 2010 Jan;38(Database issue):D46-51. doi: 10.1093/nar/gkp1024. Epub 2009 Nov 12.
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Improvements to services at the European Nucleotide Archive.
Nucleic Acids Res. 2010 Jan;38(Database issue):D39-45. doi: 10.1093/nar/gkp998. Epub 2009 Nov 11.
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DDBJ launches a new archive database with analytical tools for next-generation sequence data.
Nucleic Acids Res. 2010 Jan;38(Database issue):D33-8. doi: 10.1093/nar/gkp847. Epub 2009 Oct 22.
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The Universal Protein Resource (UniProt) in 2010.
Nucleic Acids Res. 2010 Jan;38(Database issue):D142-8. doi: 10.1093/nar/gkp846. Epub 2009 Oct 20.
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The National Center for Biotechnology Information's Protein Clusters Database.
Nucleic Acids Res. 2009 Jan;37(Database issue):D216-23. doi: 10.1093/nar/gkn734. Epub 2008 Oct 21.
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NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.
Nucleic Acids Res. 2007 Jan;35(Database issue):D61-5. doi: 10.1093/nar/gkl842. Epub 2006 Nov 27.
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Genome annotation errors in pathway databases due to semantic ambiguity in partial EC numbers.
Nucleic Acids Res. 2005 Jul 20;33(13):4035-9. doi: 10.1093/nar/gki711. Print 2005.

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