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Table 7 Significant gene sets enriched in PC3 correlating genes. Tables a, b and c are subsets of gene sets significantly (FDR q-value < 1 %) enriched in PC3 correlating genes by PC-GSEA (for full data, see Additional file 10: Table S7). (a) Table is a subset of the ten (out of 30) gene sets most significantly enriched in the positively correlating genes, which were upregulated in LKCs. (b) Table is cell cycle associated gene sets significantly enriched in the negatively correlating genes, which were upregulated in HaCaTs. (c) Table is miRNA-target gene sets significantly enriched in PC3 negatively correlating genes. SIZE is number of genes belonging the gene set. NES is normalized enrichment score

From: Gene expression analysis of skin grafts and cultured keratinocytes using synthetic RNA normalization reveals insights into differentiation and growth control

Name

SIZE

NES

FDR q-val

(a)

   

REACTOME_OLFACTORY_SIGNALING_PATHWAY

36

2.967

0

DAZARD_UV_RESPONSE_CLUSTER_G28

20

2.908

0

DAZARD_UV_RESPONSE_CLUSTER_G24

27

2.774

0

PID_CONE_PATHWAY

16

2.774

0

MAHADEVAN_RESPONSE_TO_MP470_DN

19

2.760

0

WANG_TNF_TARGETS

23

2.758

0

BURTON_ADIPOGENESIS_1

33

2.742

0

AMIT_EGF_RESPONSE_60_MCF10A

38

2.735

0

VOLTAGE_GATED_POTASSIUM_CHANNEL_COMPLEX

29

2.689

0

RORIE_TARGETS_OF_EWSR1_FLI1_FUSION_UP

30

2.663

0

(b)

   

REACTOME_G2_M_CHECKPOINTS

41

1.865

0.00029

REACTOME_MITOTIC_PROMETAPHASE

85

1.822

0.00064

REACTOME_MITOTIC_M_M_G1_PHASES

167

1.783

0.00114

REACTOME_G0_AND_EARLY_G1

23

1.732

0.00241

REACTOME_CELL_CYCLE

392

1.710

0.00314

REACTOME_CELL_CYCLE_CHECKPOINTS

111

1.690

0.00428

REACTOME_S_PHASE

106

1.660

0.00596

REACTOME_M_G1_TRANSITION

78

1.646

0.00706

REACTOME_REGULATION_OF_MITOTIC_CELL_CYCLE

77

1.621

0.00908

(c)

   

GEORGES_CELL_CYCLE_MIR192_TARGETS

62

1.726

0.00272

TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C

449

1.675

0.00501