Table 3: Molecules directly involved in endometriosis and networks in which they appear. IPA analysis indicated that several networks constituted by the predicted targets of the differentially expressed miRNAs include molecules known to be involved in endometriosis.

SymbolEntrez Gene NameNetworks

CytokinesCD40LG CD40 ligand38
CX3CL1 chemokine (C-X3-C motif) ligand 112
CXCL13 chemokine (C-X-C motif) ligand 1336
IL2 interleukin 22, 29, 37
IL4 interleukin 429, 32, 37
IL6 interleukin 6 (interferon, beta 2)29
IL8 interleukin 828, 31
IL18 interleukin 18 (interferon-gamma-inducing factor)29
SPP1 secreted phosphoprotein 123, 46
TNF tumor necrosis factor (TNF superfamily, member 2)26, 29, 30, 33, 37, 38, 40, 41, 45

EnzymesCNTN1 contactin 123
DNMT1 DNA (cytosine-5-)-methyltransferase 15, 36
DNMT3A DNA (cytosine-5-)-methyltransferase 3 alpha5
DNMT3B DNA (cytosine-5-)-methyltransferase 3 beta5
FN1 fibronectin 17, 28
GNAS GNAS complex locus41
GSTP1 glutathione S-transferase pi 149
HINT1 histidine triad nucleotide binding protein 148
KRAS v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog3
PDE4A phosphodiesterase 4A, cAMP-specific (phosphodiesterase E2 dunce homolog, Drosophila)44
PDE4D phosphodiesterase 4D, cAMP-specific (phosphodiesterase E3 dunce homolog, Drosophila)41
PTGS2 prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase)7, 28
RAC1 ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)5
RAP1B RAP1B, member of RAS oncogene family23
REV3L REV3-like, catalytic subunit of DNA polymerase zeta (yeast)39
RRM1 (includes EG:6240) ribonucleotide reductase M126
SAT1 spermidine/spermine N1-acetyltransferase 126
XRCC6 X-ray repair complementing defective repair in Chinese hamster cells 642, 48
Growth FactorsANGPT2 angiopoietin 27
CTGF connective tissue growth factor2, 36, 40
FGF2 fibroblast growth factor 2 (basic)23, 31
INHBA inhibin, beta A45
LEP leptin6
TGFB1 transforming growth factor, beta 120, 26, 33, 35, 40, 45
VEGFA vascular endothelial growth factor A29, 30

Ion ChannelsPKD1 polycystic kidney disease 1 (autosomal dominant)45
PKD2 (includes EG:5311) polycystic kidney disease 2 (autosomal dominant)45

KinasesCDC2 cell division cycle 2, G1 to S and G2 to M32, 36
CSF1R colony stimulating factor 1 receptor3, 34
EGFR epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian)28
ERBB2 v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian)27, 30, 33, 35, 38, 40, 45, 47
FLT1 fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)2
INSR insulin receptor26
JAK1 Janus kinase 1 (a protein tyrosine kinase)37
KIT v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog9
MAPK4 mitogen-activated protein kinase 417
NTRK2 neurotrophic tyrosine kinase, receptor, type 245
PCK1 phosphoenolpyruvate carboxykinase 1 (soluble)42
PDGFRA platelet-derived growth factor receptor, alpha polypeptide11
PDGFRB platelet-derived growth factor receptor, beta polypeptide11
PIK3R2 phosphoinositide-3-kinase, regulatory subunit 2 (beta)17
SGK1 serum/glucocorticoid regulated kinase 116
STC1 stanniocalcin 149
WEE1 WEE1 homolog (S. pombe)18

Ligand-Dependent Nuclear ReceptorsAHR aryl hydrocarbon receptor44
AR androgen receptor30
ESR1 estrogen receptor 15, 30, 44
ESR2 estrogen receptor 2 (ER beta)44
PPARG peroxisome proliferator-activated receptor gamma12, 29

PeptidasesHPR (includes EG:3250) haptoglobin-related protein24
MEST mesoderm specific transcript homolog (mouse)18
MMP2 matrix metallopeptidase 2 (gelatinase A, 72 kDa gelatinase, 72 kDa type IV collagenase)11

PhosphatasesDUSP1 dual specificity phosphatase 13
PPP3R1 protein phosphatase 3 (formerly 2B), regulatory subunit B, alpha isoform24
PTEN phosphatase and tensin homolog19
PTP4A1 protein tyrosine phosphatase type IVA, member 122

Transcription RegulatorsBCL6 B-cell CLL/lymphoma 616
BRCA1 breast cancer 1, early onset5, 30, 42
CITED2 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 211
CREB1 cAMP responsive element binding protein 16
EGR1 early growth response 16, 26, 35
EMX2 empty spiracles homeobox 215
FOS v-fos FBJ murine osteosarcoma viral oncogene homolog6, 35, 49
FOXO1 forkhead box O13
GATA3 GATA binding protein 32
HIF1A hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)10, 31, 44, 47
ID1 inhibitor of DNA binding 1, dominant negative helix-loop-helix protein47, 50
JUN jun oncogene49
JUNB jun B proto-oncogene11, 47
NRIP1 nuclear receptor interacting protein 136
REL v-rel reticuloendotheliosis viral oncogene homolog (avian)44
SMAD6 SMAD family member 614
SMAD7 SMAD family member 711
SP2 Sp2 transcription factor31
TP53 tumor protein p5322, 27, 32, 34, 36, 37, 40, 41, 45
WT1 Wilms tumor 17
ZFP36 zinc finger protein 36, C3H type, homolog (mouse)20

Transmembrane ReceptorsIL2RG interleukin 2 receptor, gamma (severe combined immunodeficiency)37
ITGB1 integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)11, 28, 30
ITGB3 integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)7
ITGB4 integrin, beta 430

TransportersAPOE apolipoprotein E36
ATP1B1 ATPase, Na+/K+ transporting, beta 1 polypeptide41
ATP2B2 ATPase, Ca++ transporting, plasma membrane 221
SLC6A6 solute carrier family 6 (neurotransmitter transporter, taurine), member 61

OthersACTB actin, beta9, 49
ANK3 ankyrin 3, node of Ranvier (ankyrin G)24
BCL2 B-cell CLL/lymphoma 23, 48
BIRC5 baculoviral IAP repeat-containing 536
BSG basigin (Ok blood group)41
CAV2 caveolin 25
CCNA2 cyclin A243
COL18A1 collagen, type XVIII, alpha 147
DCN decorin28
EPS15 epidermal growth factor receptor pathway substrate 1528
ERRFI1 ERBB receptor feedback inhibitor 145
EZR ezrin18
FBN1 fibrillin 136
IRS2 insulin receptor substrate 26, 37
ITGA6 integrin, alpha 630
LRP5 low density lipoprotein receptor-related protein 56
MARCKS (includes EG:4082) myristoylated alanine-rich protein kinase C substrate47
SDC2 syndecan 28
TAL1 T-cell acute lymphocytic leukemia 118
THBS2 thrombospondin 211
TIMP2 TIMP metallopeptidase inhibitor 211
TMSB10 thymosin beta 1019
TRAF2 TNF receptor-associated factor 226
VIM vimentin19, 36