QC Gene Lists

Source: R/Data.R

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)

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.