Import Mouse Genome Informatics (MGI) metadata
Examples
object <- Mgi()
#> → Importing MGI metadata.
#> → Importing /Users/mike/.cache/R/AcidGenomes/BiocFileCache/89e5792d8a1f_MGI_Gene_Model_Coord.rpt using base::`readLines()`.
#> → Importing text connection with base::`read.table()`.
print(object)
#> Mgi with 71671 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
#> ... ... ... ...
#> 7536869 NA NA NA
#> 7536870 NA NA NA
#> 7536871 NA NA NA
#> 7536872 NA NA NA
#> 7536873 NA NA NA
#> 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..
#> ... ... ... ... ...
#> 7536869 NA NA GRCm39 regulatory region 37..
#> 7536870 NA NA GRCm39 regulatory region 37..
#> 7536871 NA NA GRCm39 regulatory region 37..
#> 7536872 NA NA GRCm39 regulatory region 37..
#> 7536873 NA NA GRCm39 regulatory region 37..
#> markerSymbol markerType mgiAccessionId ncbiGeneChromosome
#> <Rle> <Rle> <Rle> <Rle>
#> 87853 a Gene 87853 2
#> 87854 Pzp Gene 87854 6
#> 87859 Abl1 Gene 87859 2
#> 87860 Abl2 Gene 87860 1
#> 87862 Scgb1b27 Gene 87862 7
#> ... ... ... ... ...
#> 7536869 Rr370596 Other Genome Feature 7536869 17
#> 7536870 Rr370597 Other Genome Feature 7536870 17
#> 7536871 Rr370598 Other Genome Feature 7536871 17
#> 7536872 Rr370599 Other Genome Feature 7536872 19
#> 7536873 Rr370600 Other Genome Feature 7536873 19
#> ncbiGeneEnd ncbiGeneId ncbiGeneStart ncbiGeneStrand
#> <Rle> <Rle> <Rle> <Rle>
#> 87853 154892932 50518 154792519 +
#> 87854 128503683 11287 128460530 -
#> 87859 31697105 11350 31578256 +
#> 87860 156477189 11352 156386160 +
#> 87862 33722306 11354 33720906 +
#> ... ... ... ... ...
#> 7536869 28437775 128981870 28437273 +
#> 7536870 52589678 128981871 52589140 +
#> 7536871 73361083 128981872 73360596 +
#> 7536872 41027986 128981873 41027479 +
#> 7536873 44236857 128981874 44236371 +