Table 1. Data sources used to compile UPR gene sets.
Gene set | Sub-classification | Number of
genes |
Total number of
unique genes |
||
---|---|---|---|---|---|
UPR-KEGG-GO | Pathway | 265 | |||
KEGG:04141: Protein processing in ER | 165 | ||||
REACTOME: Unfolded protein response | 79 | ||||
Gene ontology | |||||
GO:003043: ER-associated ubiquitin-dependent protein catabolic process | 38 | ||||
GO:0030968: endoplasmic reticulum unfolded protein response | 89 | ||||
GO:0034976: response to endoplasmic reticulum stress | 142 | ||||
UPR-Interactions | Interactions | 281 | |||
ATF4 | 92 | ||||
ATF6 | 34 | ||||
DDIT3 | 73 | ||||
EIF2AK3 | 13 | ||||
ERN1 | 37 | ||||
XBP1 | 111 | ||||
UPR-Literature | Publications (High through-put experiments) | 1675 | 2048 | ||
Study | Species | Method | |||
Labunskyy VM et al. 31 | Yeast | Ribosome profiling coupled with NGS | 189 | ||
Travers KJ et al. 32 | Yeast | DNA microarray | 745 | ||
Jonikas MC et al. 33 | Yeast | Synthetic genetic array methodology &
High-throughput flow cytometry |
1262 | ||
Christianson JC et al. 34 | Human | Affinity purification, LC-MS/MS,
High-throughput Y2H |
75 | ||
GeneCards | |||||
GeneCards: ER-Stress | 275 | ||||
GeneCards: Unfolded Protein Response | 325 |