跳转到内容

模式生物数据库

编辑链接
维基百科，自由的百科全书

模式生物数据库（英語：Model organism database，缩写MOD）是一类基于模式生物的生物学数据库（英语：Biological database）。常见的有：

数据库列表

[编辑]
模式生物 学名 数据库 外部链接
釀酒酵母 Saccharomyces cerevisiae 酵母基因组数据库（英语：Saccharomyces Genome Database） SGD[1]
粟酒裂殖酵母 Schizosaccharomyces pombe PomBase PomBase[2][3][4]
非洲爪蟾 Xenopus laevis Xenbase Xenbase[5][6]
Sea urchins, starfish, etc. Echinodermata Echinobase Echinobase[7]
黑腹果蝇 Drosophila melanogaster FlyBase FlyBase[8]
Bees, wasps, ants Hymenoptera Hymenoptera Genome Database HGD[9]
实验小鼠 Mus musculus 小鼠基因组信息学 MGI[10]
秀麗隱桿線蟲 Caenorhabditis elegans WormBase WormBase[11]
实验大鼠 Rattus norvegicus 大鼠基因组数据库（英语：Rat Genome Database） RGD[12]
盘基网柄菌 Dictyostelium discoideum DictyBase dictyBase[13]
嗜热四膜虫 Tetrahymena thermophila Tetrahymena Genome Database TGD
拟南芥 Arabidopsis thaliana 拟南芥信息资源（英语：The Arabidopsis Information Resource） TAIR[14]
玉米 Zea mays ssp. mays MaizeGDB MaizeGDB[15][16]
野大豆 Glycine soja SoyBase SoyBase[17]
斑马鱼 Danio rerio 斑马鱼信息网（英语：Zebrafish Information Network） ZFIN[18]
白色念珠菌 Candida albicans - CGD[19]
大腸桿菌 Escherichia coli EcoCyc EcoCyc[20]
枯草桿菌 Bacillus subtilis - SubtiWiki[21]

参考文献

[编辑]
  1. ^ Cherry JM, Hong EL, Amundsen C, Balakrishnan R, Binkley G, Chan ET, et al. Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Research. January 2012, 40 (Database issue): D700–5. PMC 3245034 可免费查阅. PMID 22110037. doi:10.1093/nar/gkr1029. 
  2. ^ Rutherford KM, Lera-Ramírez M, Wood V. PomBase: a Global Core Biodata Resource—growth, collaboration, and sustainability. Genetics. May 2024, 227 (1). PMC 11075564 可免费查阅. PMID 38376816. doi:10.1093/genetics/iyae007. 
  3. ^ Wood V, Harris MA, McDowall MD, Rutherford K, Vaughan BW, Staines DM, et al. PomBase: a comprehensive online resource for fission yeast. Nucleic Acids Research. January 2012, 40 (Database issue): D695–9. PMC 3245111 可免费查阅. PMID 22039153. doi:10.1093/nar/gkr853. 
  4. ^ Lock A, Rutherford K, Harris MA, Wood V. PomBase: The Scientific Resource for Fission Yeast. Eukaryotic Genomic Databases. Methods in Molecular Biology 1757. 2018: 49–68. ISBN 978-1-4939-7736-9. PMC 6440643 可免费查阅. PMID 29761456. doi:10.1007/978-1-4939-7737-6_4. 
  5. ^ Karimi K, Fortriede JD, Lotay VS, Burns KA, Wang DZ, Fisher ME, et al. Xenbase: a genomic, epigenomic and transcriptomic model organism database. Nucleic Acids Research. January 2018, 46 (D1): D861–D868. PMC 5753396 可免费查阅. PMID 29059324. doi:10.1093/nar/gkx936. 
  6. ^ James-Zorn C, Ponferrada VG, Fisher ME, Burns KA, Fortriede JD, Segerdell E, Karimi K, Lotay VS, Wang DZ, Chu S, Pells TJ, Wang Y, Vize PD, Zorn AM. Navigating Xenbase: An Integrated Xenopus Genomics and Gene Expression Database. Eukaryotic Genomic Databases. Methods in Molecular Biology 1757. May 2018: 251–305. ISBN 978-1-4939-7736-9. PMC 6853059 可免费查阅. PMID 29761462. doi:10.1007/978-1-4939-7737-6_10.  |journal=被忽略 (帮助)
  7. ^ Telmer, Cheryl A.; Karimi, Kamran; Chess, Macie M.; Agalakov, Sergei; Arshinoff, Bradley I.; Lotay, Vaneet; Wang, Dong Zhuo; Chu, Stanley; Pells, Troy J.; Vize, Peter D.; Hinman, Veronica F.; Ettensohn, Charles A. Echinobase: A resource to support the echinoderm research community. Genetics. 2024, 227. PMC 11075573 可免费查阅. doi:10.1093/genetics/iyae002. 
  8. ^ Attrill H, Falls K, Goodman JL, Millburn GH, Antonazzo G, Rey AJ, Marygold SJ. FlyBase: establishing a Gene Group resource for Drosophila melanogaster. Nucleic Acids Research. January 2016, 44 (D1): D786–92. PMC 4702782 可免费查阅. PMID 26467478. doi:10.1093/nar/gkv1046. 
  9. ^ Elsik CG, Tayal A, Unni DR, Burns GW, Hagen DE. Hymenoptera Genome Database: Using HymenopteraMine to Enhance Genomic Studies of Hymenopteran Insects. Kollmar M (编). Eukaryotic Genomic Databases. Methods in Molecular Biology 1757. New York, NY: Springer New York. 2018: 513–556. ISBN 978-1-4939-7736-9. PMID 29761469. doi:10.1007/978-1-4939-7737-6_17. 
  10. ^ Eppig JT, Blake JA, Bult CJ, Kadin JA, Richardson JE. The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease. Nucleic Acids Research. January 2015, 43 (Database issue): D726–36. PMC 4384027 可免费查阅. PMID 25348401. doi:10.1093/nar/gku967. 
  11. ^ Harris TW, Baran J, Bieri T, Cabunoc A, Chan J, Chen WJ, et al. WormBase 2014: new views of curated biology. Nucleic Acids Research. January 2014, 42 (Database issue): D789–93. PMC 3965043 可免费查阅. PMID 24194605. doi:10.1093/nar/gkt1063. 
  12. ^ Shimoyama M, De Pons J, Hayman GT, Laulederkind SJ, Liu W, Nigam R, et al. The Rat Genome Database 2015: genomic, phenotypic and environmental variations and disease. Nucleic Acids Research. January 2015, 43 (Database issue): D743–50. PMC 4383884 可免费查阅. PMID 25355511. doi:10.1093/nar/gku1026. 
  13. ^ Kreppel L, Fey P, Gaudet P, Just E, Kibbe WA, Chisholm RL, Kimmel AR. dictyBase: a new Dictyostelium discoideum genome database. Nucleic Acids Research. January 2004, 32 (Database issue): D332–3. PMC 308872 可免费查阅. PMID 14681427. doi:10.1093/nar/gkh138. 
  14. ^ Lamesch P, Berardini TZ, Li D, Swarbreck D, Wilks C, Sasidharan R, et al. The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools. Nucleic Acids Research. January 2012, 40 (Database issue): D1202–10. PMC 3245047 可免费查阅. PMID 22140109. doi:10.1093/nar/gkr1090. 
  15. ^ Lawrence CJ, Dong Q, Polacco ML, Seigfried TE, Brendel V. MaizeGDB, the community database for maize genetics and genomics. Nucleic Acids Research. January 2004, 32 (Database issue): D393–7. PMC 308746 可免费查阅. PMID 14681441. doi:10.1093/nar/gkh011. 
  16. ^ Andorf CM, Cannon EK, Portwood JL, Gardiner JM, Harper LC, Schaeffer ML, et al. MaizeGDB update: new tools, data and interface for the maize model organism database. Nucleic Acids Research. January 2016, 44 (D1): D1195–201. PMC 4702771 可免费查阅. PMID 26432828. doi:10.1093/nar/gkv1007. 
  17. ^ Grant D, Nelson RT, Cannon SB, Shoemaker RC. SoyBase, the USDA-ARS soybean genetics and genomics database. Nucleic Acids Research. January 2010, 38 (Database issue): D843–6. PMC 2808871 可免费查阅. PMID 20008513. doi:10.1093/nar/gkp798. 
  18. ^ Howe DG, Bradford YM, Conlin T, Eagle AE, Fashena D, Frazer K, et al. ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics. Nucleic Acids Research. January 2013, 41 (Database issue): D854–60. PMC 3531097 可免费查阅. PMID 23074187. doi:10.1093/nar/gks938. 
  19. ^ Inglis DO, Arnaud MB, Binkley J, Shah P, Skrzypek MS, Wymore F, et al. The Candida genome database incorporates multiple Candida species: multispecies search and analysis tools with curated gene and protein information for Candida albicans and Candida glabrata. Nucleic Acids Research. January 2012, 40 (Database issue): D667–74. PMC 3245171 可免费查阅. PMID 22064862. doi:10.1093/nar/gkr945. 
  20. ^ Keseler IM, Mackie A, Peralta-Gil M, Santos-Zavaleta A, Gama-Castro S, Bonavides-Martínez C, et al. EcoCyc: fusing model organism databases with systems biology. Nucleic Acids Research. January 2013, 41 (Database issue): D605–12. PMC 3531154 可免费查阅. PMID 23143106. doi:10.1093/nar/gks1027. 
  21. ^ Zhu B, Stülke J. SubtiWiki in 2018: from genes and proteins to functional network annotation of the model organism Bacillus subtilis. Nucleic Acids Research. January 2018, 46 (D1): D743–D748. PMC 5753275 可免费查阅. PMID 29788229. doi:10.1093/nar/gkx908. 
检索自“https://zh.wikipedia.org/w/index.php?title=模式生物数据库&oldid=87482005”