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Merge pull request #34 from DenisTitovLab/fix-GAPDH-binding-and-traci…
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…ng-equations

fix GAPDH equations
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@Denis-Titov
Denis-Titov committed Apr 11, 2024
2 parents 85c3a47 + 764e60c commit 242e921
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Showing 3 changed files with 5 additions and 5 deletions.
2 changes: 1 addition & 1 deletion Project.toml
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
name = "Glycolysis"
uuid = "1acb6d80-f93a-4117-912f-ae4c0dd090a6"
authors = ["Denis-Titov <titov@berkeley.edu> and contributors"]
version = "0.7.1"
version = "0.7.2"

[deps]
LabelledArrays = "2ee39098-c373-598a-b85f-a56591580800"
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2 changes: 1 addition & 1 deletion src/13C_tracing_enzyme_rates.jl
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Original file line number Diff line number Diff line change
Expand Up @@ -233,7 +233,7 @@ function rate_isotope_tracing_GAPDH(metabs, params, isotope::Symbol)
metabs.NADH / params.GAPDH_K_i_NADH * (
1 +
GAP / params.GAPDH_K_GAP * (1 + metabs.Phosphate / params.GAPDH_K_i_Phosphate) +
BPG / (params.GAPDH_α_i_BPG * params.GAPDH_K_BPG)
BPG / (params.GAPDH_β_i_BPG * params.GAPDH_K_BPG)
)
if isotope == :C12
Rate = ((
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6 changes: 3 additions & 3 deletions src/enzyme_binding.jl
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Original file line number Diff line number Diff line change
Expand Up @@ -265,7 +265,7 @@ function binding_GAPDH(metabs, params)
metabs.NADH / params.GAPDH_K_i_NADH * (
1 +
metabs.GAP / params.GAPDH_K_GAP * (1 + metabs.Phosphate / params.GAPDH_K_i_Phosphate) +
metabs.BPG / (params.GAPDH_α_i_BPG * params.GAPDH_K_BPG)
metabs.BPG / (params.GAPDH_β_i_BPG * params.GAPDH_K_BPG)
)
Z = (Z_a^4 + params.GAPDH_L * Z_i^4)
GAP_bound =
Expand Down Expand Up @@ -326,7 +326,7 @@ function binding_GAPDH(metabs, params)
(
1 +
metabs.NAD / params.GAPDH_K_i_NAD +
metabs.NADH / (params.GAPDH_α_i_BPG * params.GAPDH_K_i_NADH)
metabs.NADH / (params.GAPDH_β_i_BPG * params.GAPDH_K_i_NADH)
) *
(1 + metabs.Phosphate / params.GAPDH_K_i_Phosphate) *
Z_i^3
Expand All @@ -347,7 +347,7 @@ function binding_GAPDH(metabs, params)
(
1 +
metabs.GAP / params.GAPDH_K_GAP * (1 + metabs.Phosphate / params.GAPDH_K_i_Phosphate) +
metabs.BPG / (params.GAPDH_α_i_BPG * params.GAPDH_K_BPG)
metabs.BPG / (params.GAPDH_β_i_BPG * params.GAPDH_K_BPG)
) *
Z_i^3
)
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Registration pull request created: JuliaRegistries/General/104734

Tip: Release Notes

Did you know you can add release notes too? Just add markdown formatted text underneath the comment after the text
"Release notes:" and it will be added to the registry PR, and if TagBot is installed it will also be added to the
release that TagBot creates. i.e.

@JuliaRegistrator register

Release notes:

## Breaking changes

- blah

To add them here just re-invoke and the PR will be updated.

Tagging

After the above pull request is merged, it is recommended that a tag is created on this repository for the registered package version.

This will be done automatically if the Julia TagBot GitHub Action is installed, or can be done manually through the github interface, or via:

git tag -a v0.7.2 -m "<description of version>" 242e921e6f0b38988e704b1b43852ae77b627c8b
git push origin v0.7.2

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