Bacterial Genome Data mining & Bioinformatic Analysis
Curriculum vitae for Dr. Xiangyang Li
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微生物基细菌基因组(WGS genome)提交NCBI步骤

 

第一步: Bioproject注册所测序基因组信息获取 Locus tag (Bioproject网址:https://submit.ncbi.nlm.nih.gov/subs/bioproject/)

第二步:草图基因组提交所需文件 (序列文件和模版文件)

1,序列文件(.fsa):fasta裸序列,格式如下:可以用Excel编辑

>contig133 [organism=Sinorhizobium sp. GL2] [strain=GL2] [isolation-source=soil sample from arsenic pollution region] [country=China:HN] [collection_date=2008] [gcode=11]

TGTGAGTGCCCTTCTGGTGTTCATGCTGGATTGGTGTTGCCTGACCGCGCATCACCGGAC

>contig141 [organism=Sinorhizobium sp. GL2] [strain=GL2] [isolation-source=soil sample from arsenic pollution region] [country=China:HN] [collection_date=2008] [gcode=11]

CCTTCCGCGATCGCGAGCTGCCCGACTATAGCGGTTACTTCCCGACCGTTGCTGACGATA

2,模版文件(. template) :记录序列提交相关信息,如作者,提交单位等等。用sequin生成

第三步:生成提交文件sqn文件 (NCBI提交平台:https://submit.ncbi.nlm.nih.gov/subs/wgs/)

利用NCBI提供的tbl2asn脚本,将上述的.fsa和. Template合并成sqn文件

 

收录细菌基因组的sci杂志:(2013最新sci期刊影响因子详见http://www.microbialgenomic.com/2013_SCI_impactor_factor.html

专业生物信息学杂志:

Bioinformatic, Briefings in bioinformatics, plos computational biology, BMC bioinformatic, Nucleic Acids Research (倾向于专业的算法设计,实用的编程软件为主);

非专业生物信息学杂志:

Genome biology, genome research, Plos genetic, Plos one, JB, AEM, AMB, BMC genomics, BMC mcirobial, BMC evolutionary biology, Standards in Genomic Sciences.

 

 
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