Table 1 Consensus clusters and influential attributes identified for the LUMINAL collection. "Genes" specifies the number of genes in a consensus cluster. "Attributes" lists influential attributes, defined as attributes that occur with a frequency ≥ 0.5 in a consensus cluster with two or more genes, and 1.0 otherwise; †signifies an attribute with frequency 1.0 (consensus cluster 1 lacks influential attributes because no attribute satisfies the frequency criterion, i.e., assignment to 10 or more of the 20 genes). The abbreviations are as follows: CC, GO Cellular Component term; MF, GO Molecular Function term; and BP, GO Biological Process term. Complete information on the genes in the consensus clusters and full lists of attributes can be found in Additional Files 1 and 2.
Cluster no. | Consensus cluster | Gene symbol (LocusID) and attributes |
|---|---|---|
0 | 24 Genes | ANXA11 (311); ATP1B1 (481); BACE2 (25825); CD151 (977); CD24 (934); CLDN4 (1364); CX3CL1 (6376); ERBB3 (2065); GADD45B (4616); KLK6 (5653); LCN2 (3934); LGALS3 (3958); MFI2 (4241); MUC1 (4582); NKTR (4820); PLXNB2 (23654); PPAP2C (8612); PRSS8 (5652); PSME1 (5720); RARRES1 (5918); SEMA3B (7869); SEMA6C (10500); SH3BP5 (9467); SLC9A3R1 (9368) |
|  | Attributes | CC: cell†; membrane; integral to membrane |
1 | 20 Genes | CST6 (1474); CTL2 (57153); CUGBP2 (10659); FSTL3 (10272); GLRX (2745); HRASLS3 (11145); JWA (10550); KIAA0220 (283846); KIAA1641 (57730); LGALS9 (3965); MATN4 (8785); MGC11242 (79170); MGLL (11343); NK4 (9235); PCBD (5092); QSCN6 (5768); RARRES3 (5920); SCAP2 (8935); TNFAIP2 (7127); WFDC2 (10406) |
| Â | Attributes | Â |
2 | 4 Genes | BCL11A (53335); GTF3A (2971); UBN1 (29855); ZFP36L1 (677) |
|  | Attributes | CC: nucleus†; intracellular†cell†|
|  |  | MF: nucleic acid binding†; binding†; transcription regulator activity; DNA binding; transition metal ion binding |
| Â | Â | BP: regulation of transcription, DNA-dependent ; metabolism |
3 | 4 Genes | DHCR24 (1718); MTATP6 (4508); MTCO2 (4513); MTND4 (4538) |
|  | Attributes | CC: membrane†; intracellular†; cytoplasm†; cell†; mitochondrion; integral to membrane |
|  |  | MF: catalytic activity†; transporter activity; oxidoreductase activity; hydrogen ion transporter activity |
|  |  | BP: metabolism†; electron transport |