TABLE II.

Modifications to account for source nodes that express a cellular context.

Model name	PMID	Modification
Bortezomib Responses in U266 Human Myeloma Cells	26163548	Constant source nodes: SHP1 = 0 and TNFA = TNFAR = X = 1.
CD4 T cell signaling	25538703	Constant source node: CAV1_ACTIVATOR = 0.
EGFR & ErbB Signaling	19662154	Constant source nodes: mkp = pp2a = pp2b = 0 and erbb1 = erbb2 = erbb3 = erbb4 = pten = ship2 = csrc = pdk1 = esp8r = mtorr = pi3kr = sos1r = 1.
Glucose Repression Signaling 2009	19144179	Constant source nodes: GAL11 = GAL2 = GAL80 = GLC7 = GRR1 = MALT = MIG1 = REG1 = RGT1 = RGT2 = SNF1 = SNF3 = SNF4 = STD1 = YCK1_2 = 1.
Guard Cell Abscisic Acid Signaling	16968132	Constant source nodes: ABH1 = ERA1 = GCR1 = 1.
HGF Signaling in Keratinocytes	22962472	Constant source nodes: AKAP12 = PTEN = DUSP1 = 0 and PAI-1 = 1.
HIV-1 interactions with T Cell Signalling Pathway	25431332	Constant source nodes: RASA = 0 and antigen = BCAR1 = CD45 = Chemokine = CRKL = DLGH1 = GADD45 = GRKL = ICOS = IKBNFKB = PDCD1_PD1 = 1.
IL-1 Signaling	21968890	Constant source nodes: irakm = pten = sil1r12 = smyd88 = socs1 = socs3 = 0 and abin2 = ck2 = ikka = ikkb = mtorc2 = pdk1 = 1.
IL-6 Signalling	21968890	Constant source nodes: cyt_ptpe = gp130m = nfkb = phlpp = pias1 = pias3 = pten = ros = ship = sirp1a = slim = 0 and gab1_kin = mtor = pdk1 = 1.
T Cell Receptor Signaling	17722974	Constant source node: lckr_input=1.
T-LGL Survival Network 2008	18852469	Constant source nodes: TAX = CD45 = 0 Misspelling fixed: IFN should be IFNG in CREB rule.
T-LGL Survival Network 2011	22102804	Constant nodes: TAX = CD45 = 0.
BT474 Breast Cell Line Long-term ErbB Network	24970389	The isolated source node BAX is removed.
HCC1954 Breast Cell Line Long-term ErbB Network	24970389	The isolated source nodes BAX, Nfkb are removed.
Septation Initiation Network	26244885	Constant source nodes: ppc89 = 1 and CK1 = etd1 = ras1 = 0.