人类肠道菌群参考序列数据库

目录

• 人类微生物组计划HMP
• 国家基因库MDB
• culturable genome reference (CGR)
• GMrepo
• Custom database

人类微生物组计划HMP

https://commonfund.nih.gov/hmp

国家基因库MDB

https://db.cngb.org/microbiome/

• Human Gut (9.9M)
  https://db.cngb.org/microbiome/genecatalog/genecatalog_human/
  reference： Li, J. et al. An integrated catalog of reference genes in the human gut microbiome. Nat. Biotechnol. (2014)
  又见：IGC

• Human Gut (11M)
  https://db.cngb.org/microbiome/genecatalog/genecatalog/?gene_name=Human%20Gut%20(11M)
  欧洲人250例双胞胎，包含了以上9.9M。
  reference： Xie, H. et al. Shotgun Metagenomics of 250 Adult Twins Reveals Genetic and Environmental Impacts on the Gut Microbiome. Cell Syst. 0, 32–46 (2016).

culturable genome reference (CGR)

reference：https://www.nature.com/articles/s41587-018-0008-8
https://db.cngb.org/microbiome/project/CNP0000126/

GMrepo

包含了涉及92个表型的253个项目的58903个人类肠道samples/runs (包括17618个宏基因组和41285个扩增子。
https://gmrepo.humangut.info/home
reference：Wu, S. et al. GMrepo: a database of curated and consistently annotated human gut metagenomes. Nucleic Acids Res (2019)

Custom database

有个实验室定制的参考序列，比较久了。
http://raeslab.org/companion/gutsequencedb/

待说明