文献リスト

MiGAP利用時の引用文献

Sugawara H, Ohyama A, Mori H and Kurokawa K. (2009) "Microbial Genome Annotation Pipeline (MiGAP) for diverse users" The 20th International Conference on Genome Informatics (GIW2009) Poster and Software Demonstrations (Yokohama), S001-1-2

MiGAPが使用する遺伝子予測ソフトウェア、データベース等の文献

ORF予測

Noguchi, H., Taniguchi, T. and Itoh, T., MetaGeneAnnotator: detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes, DNA Res. 15(6):387-96, 2008.

A.L. Delcher, D. Harmon, S. Kasif, O. White, and S.L. Salzberg. Improved microbial gene identification with GLIMMER, Nucleic Acids Research 27:23 (1999), 4636-4641.

RNA予測

Lagesen K, Hallin PF, Rland E, St誡feldt HH, Rognes T Ussery DW RNammer: consistent annotation of rRNA genes in genomic sequences Nucleic Acids Res. 2007 Apr 22.

Lowe, T.M. and Eddy, S.R. (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res, 25, 955-964.

相同性検索

Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410.

Tatusov RL, Koonin EV, Lipman DJ. ,Science. 1997 Oct 24;278(5338):631-7. A genomic perspective on protein families.