Table 3 List of abbreviated network node names for the EMT network and the ABA network
From: A framework to find the logic backbone of a biological network
Abbreviation | Full name (Gene name/ official name) |
|---|---|
EMT network: | Â |
EMT | Epithelial to Mesenchymal Transition |
TGF β | Transforming growth factor beta |
PDGF | Platelet derived growth factor |
SHH | Sonic Hedgehog |
SNAI1 | snail homolog 1 (Drosophila) |
SNAI2 | snail homolog 2 (Drosophila) |
ZEB1 | zinc finger E-box binding homeobox 1 |
ZEB2 | zinc finger E-box binding homeobox 2 |
HEY1 | hairy/enhancer-of-split related with YRPW motif 1 |
FOXC2 | forkhead box C2 (MFH-1, mesenchyme forkhead 1) |
TWIST1 | twist basic helix-loop-helix transcription factor 1 |
ERK | mitogen-activated protein kinases 1 & 3 |
RAS | v-Ha-ras Harvey rat sarcoma viral oncogene |
| Â | homolog |
miR200 | microRNA 200b |
RKIP | phosphatidylethanolamine-binding protein 4; |
| Â | RAF1 the inhibitory protein |
MEK | mitogen-activated protein kinase kinases 1 & 2 |
CHD1L | chromodomain helicase DNA binding protein 1-like |
IGF1 | Insulin-like growth factor 1 |
EGF | epidermal growth factor |
HGF | hepatocyte growth factor |
FGF | fibroblast growth factor 2 |
Wnt | wingless-type MMTV integration site family, |
| Â | member 1 |
NF κB | nuclear factor of kappa light polypeptide gene |
| Â | enhancer in B-cells 1 |
βTrCP | beta-transducin repeat containing E3 ubiquitin |
| Â | protein ligase |
H1F1 α | hypoxia inducible factor 1, alpha subunit |
| Â | (basic helix-loop-helix transcription factor) |
FGFR | fibroblast growth factor receptor 1 |
PDGFR | platelet-derived growth factor receptor, alpha |
| Â | & beta polypeptides |
SOS/GRB2 | son of sevenless homolog 1 (Drosophila) and |
| Â | growth factor receptor-bound protein 2 |
GSK3 β | glycogen synthase kinase 3 beta |
Dest_complex | Destruction complex |
β-catenin_nuc | nuclear β-catenin (cadherin-associated protein) |
β-catenin_memb | membrane-bound β-catenin |
| Â | (cadherin-associated protein) |
GLI | GLI family zinc finger 1 & 2 |
DSH | dishevelled, dsh homolog 1 |
SUFU | suppressor of fused homolog (Drosophila) |
NOTCH_ic | NOTCH (Drosophila) Homolog 1 |
E-cadherin | cadherin 1, type 1, E-cadherin |
TCF/LEF | a basic helix-loop-helix transcription factor & |
| Â | lymphoid enhancer-binding factor 1 |
RAF | v-raf-1 murine leukemia viral oncogene homolog 1 |
ILK | integrin-linked kinase |
AKT | v-akt murine thymoma viral oncogene |
EGR1 | early growth response 1 |
c-fos | FBJ murine osteosarcoma viral oncogene homolog |
CsI | recombination signal binding protein for |
| Â | immunoglobulin kappa J region |
ABA network: | Â |
ABA | Abscisic acid |
p H c | Increase of the cytosolic pH level |
AtRAC1 | small GTPase RAC1 |
ABI1 | ABA (abscisic acid)-insensitive 1 |
ABI2 | ABA (abscisic acid)-insensitive 2 |
\(Ca^{2+}_{c}\) | Cytosolic calcium |
C a 2+ ATPase | Ca2+ ATPases and Ca2+/H+ antiporters responsible |
| Â | for Ca2+ efflux from the cytosol |
PLD δ | Phospholipase D δ |
ROS | Reactive oxygen species |
RBOH | NADPH oxidases AtRBOH D and F |
PA | Phosphatidic acid |
PI3P5K | Phosphatidylinositol 3-phosphate 5-kinase |
PtdIns(3,5)P2 | Phosphatidylinositol 3,5-bisphosphate |
V-PPase | vacuolar proton pyrophosphatase |
RCARs | Regulatory Components of ABA Receptor |
OST1 | protein kinase OPEN STOMATA 1 |
CaIM | C a 2+ influx across the plasma membrane |
CIS | C a 2+ influx to the cytosol from intracellular stores |
AnionEM | Anion efflux through the plasma membrane |
K + Efflux | K + efflux through the plasma membrane |
H 2 O Efflux | water efflux through the plasma membrane |
MPK 9/12 | Mitogen-activated protein kinases 9 and 12 |
CPK 3/21 | Calcium-dependent protein kinases 3 and 21 |
SLAC1 | Slow Anion Channel- associated 1 |