. 2016 Nov 9;2016:4910603. doi: 10.1155/2016/4910603

Table 2.

The system of ordinary differential equations for the biochemical kinetics of the apoptosis signaling pathways. Blocks A, B, and C list the equations involved in extrinsic, intrinsic, and perforin pathways, respectively, and block D contains the equations used in all three pathways.

A	d[FasL^∗]/dt = k ₁₁[Secretome][FasL] − k ₁₂ ⁺[FasL^∗][Casp8] + k ₁₂ ⁻[FasL^∗.Casp8]
	d[Casp8]/dt = −k ₁₂ ⁺[FasL^∗][Casp8] + k ₁₂ ⁻[FasL^∗.Casp8]
	d[FasL^∗.Casp8]/dt = k ₁₂ ⁺[FasL^∗][Casp8] − k ₁₂ ⁻[FasL^∗.Casp8] − k ₁₃[FasL^∗.Casp8]
	d[Casp8^∗]/dt = k ₁₃[FasL^∗.Casp8] − k ₁₄ ⁺[Casp8^∗][Casp3] + k ₁₄ ⁻[Casp8^∗.Casp3] + k ₁₅[Casp8^∗.Casp3] − k ₁₆[Casp8^∗][Casp3^∗]
	−k ₅₁ ⁺[Casp8^∗][Bid] + k ₅₁ ⁻[Casp8^∗.Bid]
	d[Casp8^∗.Bid]/dt = k ₅₁ ⁺[Casp8^∗][Bid] − k ₅₁ ⁻[Casp8^∗.Bid] − k ₅₂[Casp8^∗.Bid]
	d[Casp8^∗.Casp3]/dt = k ₁₄ ⁺[Casp8^∗][Casp3] − k ₁₄ ⁻[Casp8^∗.Casp3] − k ₁₅[Casp8^∗.Casp3]

B	d[DNAdamage]/dt = k ₂₁[Secretome][DNA] − k ₂₂[DNAdamage][ATR]
	d[ATR^∗]/dt = k ₂₂[DNAdamage][ATR] − k ₂₃ ⁺[ATR^∗][p53] + k ₂₃ ⁻[ATR^∗.p53]
	d[p53]/dt = −k ₂₃ ⁺[ATR^∗][p53] + k ₂₃ ⁻[ATR^∗.p53]
	d[ATR^∗.p53]/dt = k ₂₃ ⁺[ATR^∗][p53] − k ₂₃ ⁻[ATR^∗.p53] − k ₂₄[ATR^∗.p53]
	d[p53^∗]/dt = k ₂₄[ATR^∗.p53] − k ₂₅ ⁺[p53^∗][Bax] + k ₂₅ ⁻[p53^∗.Bax] + k ₂₇ ⁻[p53^∗.BCl2] − k ₂₇ ⁺[BCl2][p53^∗]
	d[Bax]/dt = −k ₂₅ ⁺[p53^∗][Bax] + k ₂₅ ⁻[p53^∗.Bax] − k ₂₈ ⁺[BCl2][Bax] + k ₂₈ ⁻[BCl2.Bax]
	−k ₅₅ ⁺[tBid][Bax] + k ₅₅ ⁻[tBid.Bax]
	d[p53^∗.Bax]/dt = k ₂₅ ⁺[p53^∗][Bax] − k ₂₅ ⁻[p53^∗.Bax] − k ₂₆[p53^∗.Bax]
	d[Bax.Bak]/dt = k ₂₆[p53^∗.Bax] + k ₅₆[tBid.Bax]
	d[tBid.Bax]/dt = k ₅₅ ⁺[tBid][Bax] − k ₅₅ ⁻[tBid.Bax] − k ₅₆[tBid.Bax]
	d[BCl2]/dt = −k ₂₇ ⁺[BCl2][p53^∗] + k ₂₇ ⁻[p53^∗.BCl2] − k ₂₈ ⁺[BCl2][Bax] + k ₂₈ ⁻[BCl2.Bax]
	d[p53^∗.BCl2]/dt = k ₂₇ ⁺[BCl2][p53^∗] − k ₂₇ ⁻[p53^∗.BCl2]
	d[BCl2.Bax]/dt = k ₂₈ ⁺[BCl2][Bax] − k ₂₈ ⁻[BCl2.Bax]
	d[Cytc_mit]/dt = −k ₂₉[Bax.Bak][Cytc_mit]
	d[Cytc]/dt = k ₂₉[Bax.Bak][Cytc_mit] − k ₃₀ ⁺[Cytc][Casp9] + k ₃₀ ⁻[Cytc.Casp9]
	d[Casp9]/dt = −k ₃₀ ⁺[Cytc][Casp9] + k ₃₀ ⁻[Cytc.Casp9]
	d[Cytc.Casp9]/dt = k ₃₀ ⁺[Cytc][Casp9] − k ₃₀ ⁻[Cytc.Casp9] − k ₃₁[Cytc.Casp9]
	d[Casp9^∗]/dt = k ₃₁[Cytc.Casp9] − k ₃₂ ⁺[Casp9^∗][Casp3] + k ₃₂ ⁻[Casp9^∗.Casp3] + k ₃₃[Casp9^∗.Casp3] − k ₃₄[Casp9^∗][Casp3^∗]
	d[Casp9^∗.Casp3]/dt = k ₃₂ ⁺[Casp9^∗][Casp3] − k ₃₂ ⁻[Casp9^∗.Casp3] − k ₃₃[Casp9^∗.Casp3]

C	d[granB^∗]/dt = k ₄₁[Secretome][granB] − k ₄₂ ⁺[granB^∗][Casp10] + k ₄₂ ⁻[granB^∗.Casp10] − k ₅₃ ⁺[granB^∗][Bid] + k ₅₃ ⁻[granB^∗.Bid]
	d[granB^∗.Bid]/dt = k ₅₃ ⁺[granB^∗][Bid] − k ₅₃ ⁻[granB^∗.Bid] − k ₅₄[granB^∗.Bid]
	d[Casp10]/dt = −k ₄₂ ⁺[granB^∗][Casp10] + k ₄₂ ⁻[granB^∗.Casp10]
	d[granB^∗.Casp10]/dt = k ₄₂ ⁺[granB^∗][Casp10] − k ₄₂ ⁻[granB^∗.Casp10] − k ₄₃[granB^∗.Casp10]
	d[Casp10^∗]/dt = k ₄₃[granB^∗.Casp10] − k ₄₄ ⁺[Casp10^∗][Casp3] + k ₄₄ ⁻[Casp10^∗.Casp3] + k ₄₅[Casp10^∗.Casp3] − k ₄₆[Casp10^∗][Casp3^∗]
	d[Casp10^∗.Casp3]/dt = k ₄₄ ⁺[Casp10^∗][Casp3] − k ₄₄ ⁻[Casp10^∗.Casp3] − k ₄₅[Casp10^∗.Casp3]

D	d[Bid]/dt = −k ₅₁ ⁺[Casp8^∗][Bid] + k ₅₁ ⁻[Casp8^∗.Bid] − k ₅₃ ⁺[granB^∗][Bid] + k ₅₃ ⁻[granB^∗.Bid]
	d[tBid]/dt = k ₅₂[Casp8^∗.Bid] + k ₅₄[granB^∗.Bid] − k ₅₅ ⁺[tBid][Bax] + k ₅₅ ⁻[tBid.Bax]
	d[Casp3]/dt = −k ₁₄ ⁺[Casp8^∗][Casp3] + k ₁₄ ⁻[Casp8^∗.Casp3] − k ₃₂ ⁺[Casp9^∗][Casp3] + k ₃₂ ⁻[Casp9^∗.Casp3]
	−k ₄₄ ⁺[Casp10^∗][Casp3] + k ₄₄ ⁻[Casp10^∗.Casp3]
	d[Casp3^∗]/dt = k ₁₅[Casp8^∗.Casp3] − k ₁₆[Casp8^∗][Casp3^∗] + k ₃₃[Casp9^∗.Casp3] − k ₃₄[Casp9^∗][Casp3^∗]
	+k ₄₅[Casp10^∗.Casp3] − k ₄₆[Casp10^∗][Casp3^∗]
	d[Apop]/dt = k ₁₆[Casp8^∗][Casp3^∗] + k ₃₄[Casp9^∗][Casp3^∗] + k ₄₆[Casp10^∗][Casp3^∗]