Mycobacterium leprae TN genome seq, which ACNUC database ?
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7.2 years ago
gofre • 0

Which bank should I connect to, to get Mycobacterium leprae TN, NC_002677 ?

question from https://a-little-book-of-r-for-bioinformatics.readthedocs.io/en/latest/src/chapter1.html

Q2. What is the length in nucleotides of the genome sequence for the bacterium Mycobacterium leprae strain TN (accession NC_002677)?

the ncbi page is https://www.ncbi.nlm.nih.gov/nuccore/15826865/

but using seqinr query, i could not find the correct database to connect to, to download the sequence in R.

> leprosyQuery <- query('leprosy', 'AC=NC_002677')
Error in query("leprosy", "AC=NC_002677") : 
  invalid request:"unknown accession number at (^): \"AC

Tried the banks in

> choosebank()
 [1] "genbank"         "embl"            "emblwgs"         "swissprot"       "ensembl"         "hogenom"         "hogenomdna"      "hovergendna"    
 [9] "hovergen"        "hogenom5"        "hogenom5dna"     "hogenom4"        "hogenom4dna"     "homolens"        "homolensdna"     "hobacnucl"      
[17] "hobacprot"       "phever2"         "phever2dna"      "refseq"          "greviews"        "bacterial"       "archaeal"        "protozoan"      
[25] "ensprotists"     "ensfungi"        "ensmetazoa"      "ensplants"       "ensemblbacteria" "mito"            "polymorphix"     "emglib"         
[33] "refseqViruses"   "ribodb"          "taxodb"
genome • 1.2k views
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