msigdb_qc_ensembl_list {scCustomize} | R Documentation |
QC Gene Lists
Description
Ensembl IDs for qc percentages from MSigDB database. The gene sets are from 3 MSigDB lists: "HALLMARK_OXIDATIVE_PHOSPHORYLATION", "HALLMARK_APOPTOSIS", and "HALLMARK_DNA_REPAIR". (Ensembl version 112; 4/29/2024)
Usage
msigdb_qc_ensembl_list
Format
A list of 21 vectors
- Homo_sapiens_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for human
- Homo_sapiens_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for human
- Homo_sapiens_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for human
- Mus_musculus_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for mouse
- Mus_musculus_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for mouse
- Mus_musculus_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for mouse
- Rattus_norvegicus_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for rat
- Rattus_norvegicus_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for rat
- Rattus_norvegicus_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for rat
- Drosophila_melanogaster_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for fly
- Drosophila_melanogaster_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for fly
- Drosophila_melanogaster_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for fly
- Dario_rerio_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for zebrafish
- Dario_rerio_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for zebrafish
- Dario_rerio_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for zebrafish
- Macaca_mulatta_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for macaque
- Macaca_mulatta_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for macaque
- Macaca_mulatta_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for macaque
- Gallus_gallus_msigdb_oxphos
Genes in msigdb "HALLMARK_OXIDATIVE_PHOSPHORYLATION" list for chicken
- Gallus_gallus_msigdb_apop
Genes in msigdb "HALLMARK_APOPTOSIS" list for chicken
- Gallus_gallus_msigdb_dna_repair
Genes in msigdb "HALLMARK_DNA_REPAIR" list for chicken
Source
MSigDB gene sets (ensembl IDs) via msigdbr package https://cran.r-project.org/package=msigdbr. See data-raw directory for scripts used to create gene list.