Import Mouse Genome Informatics (MGI) metadata
Examples
object <- Mgi()
#> → Importing MGI metadata.
#> → Importing /Users/mike/.cache/R/AcidGenomes/BiocFileCache/f2c14429b6cb_MGI_Gene_Model_Coord.rpt using base::`readLines()`.
#> → Importing text connection with base::`read.table()`.
print(object)
#> Mgi with 124711 rows and 15 columns
#> ensemblGeneChromosome ensemblGeneEnd ensemblGeneId
#> <Rle> <Rle> <Rle>
#> 87853 2 154892932 ENSMUSG00000027596
#> 87854 6 128503683 ENSMUSG00000030359
#> 87859 2 31694239 ENSMUSG00000026842
#> 87860 1 156477138 ENSMUSG00000026596
#> 87862 7 33722306 ENSMUSG00000066583
#> ... ... ... ...
#> 7834354 2 156498403 ENSMUSG00000126434
#> 7834356 2 136077082 ENSMUSG00000127027
#> 7834358 2 164345988 ENSMUSG00000137503
#> 7834360 2 109963249 ENSMUSG00000138928
#> 7834362 2 52837904 ENSMUSG00000140534
#> ensemblGeneStart ensemblGeneStrand genomeBuild markerName
#> <Rle> <Rle> <Rle> <Rle>
#> 87853 154633322 + GRCm39 nonagouti
#> 87854 128460530 - GRCm39 PZP, alpha-2-macrogl..
#> 87859 31578388 + GRCm39 c-abl oncogene 1, no..
#> 87860 156386356 + GRCm39 ABL proto-oncogene 2..
#> 87862 33720908 + GRCm39 secretoglobin, famil..
#> ... ... ... ... ...
#> 7834354 156493359 + GRCm39 predicted gene, 75818
#> 7834356 136076008 - GRCm39 predicted gene, 75819
#> 7834358 164339005 - GRCm39 predicted gene, 75820
#> 7834360 109876392 + GRCm39 predicted gene, 75821
#> 7834362 52821585 + GRCm39 predicted gene, 75822
#> markerSymbol markerType mgiAccessionId ncbiGeneChromosome ncbiGeneEnd
#> <Rle> <Rle> <Rle> <Rle> <Rle>
#> 87853 a Gene 87853 2 154892932
#> 87854 Pzp Gene 87854 6 128503683
#> 87859 Abl1 Gene 87859 2 31697105
#> 87860 Abl2 Gene 87860 1 156477189
#> 87862 Scgb1b27 Gene 87862 7 33722306
#> ... ... ... ... ... ...
#> 7834354 Gm75818 Gene 7834354 NA NA
#> 7834356 Gm75819 Gene 7834356 NA NA
#> 7834358 Gm75820 Gene 7834358 NA NA
#> 7834360 Gm75821 Gene 7834360 NA NA
#> 7834362 Gm75822 Gene 7834362 NA NA
#> ncbiGeneId ncbiGeneStart ncbiGeneStrand
#> <Rle> <Rle> <Rle>
#> 87853 50518 154792519 +
#> 87854 11287 128460530 -
#> 87859 11350 31578256 +
#> 87860 11352 156386160 +
#> 87862 11354 33720906 +
#> ... ... ... ...
#> 7834354 NA NA NA
#> 7834356 NA NA NA
#> 7834358 NA NA NA
#> 7834360 NA NA NA
#> 7834362 NA NA NA