Entering edit mode
I'm trying to find out Cytogenetic band for mouse gene by using attributes=c("band"), but the outcome is so weird that all "band" column show "q". \ How can I fix this?\ When I search on NCBI, they give some positions such as "qE13".\ How can I actually obtain this band position information using Biomart?
## read file
M_Pan <- read_excel("Murine.xlsx")
## Get mart
M_mart <- useMart(biomart = "ensembl", dataset = "mmusculus_gene_ensembl",host = "www.ensembl.org")
## annotation
Mattributes <- getBM(attributes = c("mgi_symbol","ensembl_gene_id","entrezgene_id", 'chromosome_name', 'band'),
filters = "mgi_symbol", values = unique(M_Pan$Genename),
mart = M_mart)
head(M_attributes,3)
## The result is below, how can I fix the "band" column?
# mgi_symbol ensembl_gene_id. entrezgene_id chromosome_name band start_position end_position
#1 Scmh1 ENSMUSG00000000085 29871 4 q 120262478 120387383
#2 Ccnd2 ENSMUSG00000000184 12444 6 q 127102125 127129156
#3 Btbd17 ENSMUSG00000000202 72014 11 q 114682043 114686771