Structure · dataset · 2026
<p>Example model space.</p>
Listed in ZivaHub and Deakin Research Online and DMU Figshare — shown once because both records carry DOI 10.1371/journal.pcbi.1014774.g002
<p><b>(a)</b> The model space table encodes model subspaces as rows.
Description
Each model subspace has an ID and an associated superset PEtab problem, which includes the mathematical model. This superset problem is customized into single models according to the remaining columns, which contain semicolon-delimited lists of values that parameters (column headers) can take in the subspace.
The next subfigures represent models as graphs. Nodes (colored circles) are variables (e.g., biochemical species), and arrows are processes, e.g., conversion (• •), import (, or export () of the variables. The arrows are annotated with their associated parameters, e.g., k_4 is the rate constant associated with export of variables <i>A</i> and <i>B</i> due to an interaction between <i>A</i> and <b><i>B</i>.
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(b,c)</b> Each subspace is associated with a superset model, where all possible parameters are estimated. Based on the superset models, candidate models are encoded by turning (estimation of unknown) parameters on or off. The total number of models in this example is 16 in subspace supersetA_models, plus (c’) 8 in subspace supersetB_models.</p>
Links
Where it is published
- DOI doi.org/10.1371/journal.pcbi.1014774.g002 ↗
DOI / persistent id · from zivahub uct ac za
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from zivahub uct ac za
Topics
- From keywords
- Cancer · Cancer · Cancer · Chemistry · Chemistry · Chemistry · Computer Science & AI · Computer Science & AI · Computer Science & AI · Earth & Environmental Science · Earth & Environmental Science · Earth & Environmental Science · Evolutionary biology · Evolutionary biology · Evolutionary biology · Genetics · Genetics · Genetics · Inorganic chemistry · Inorganic chemistry · Inorganic chemistry · Life Sciences · Life Sciences · Life Sciences · Medicine & Health · Medicine & Health · Medicine & Health · Systems biology · Systems biology · Systems biology
- Inferred from text
- Tabular 65%
Provenance · 3 source records, 36 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ZivaHub | oai:figshare.com:article/34036810 | 7 d ago | JSON v1 |
| Deakin Research Online | oai:figshare.com:article/34036810 | 7 d ago | JSON v1 |
| DMU Figshare | oai:figshare.com:article/34036810 | 7 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[disease].local:disease:cancer | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[disease].local:disease:cancer | mapping · dro deakin edu au | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[disease].local:disease:cancer | mapping · figshare dmu ac uk | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[field].anzsrc:field:310114 | mapping · dro deakin edu au | vocabulary-mapper@1.0.0 | keywords['systems biology'] |
| concepts[field].anzsrc:field:310114 | mapping · figshare dmu ac uk | vocabulary-mapper@1.0.0 | keywords['systems biology'] |
| concepts[field].anzsrc:field:310114 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['systems biology'] |
| concepts[field].anzsrc:group:3104 | mapping · dro deakin edu au | vocabulary-mapper@1.0.0 | keywords['Evolutionary Biology'] |
| concepts[field].anzsrc:group:3104 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Evolutionary Biology'] |
| concepts[field].anzsrc:group:3104 | mapping · figshare dmu ac uk | vocabulary-mapper@1.0.0 | keywords['Evolutionary Biology'] |
| concepts[field].anzsrc:group:3105 | mapping · figshare dmu ac uk | vocabulary-mapper@1.0.0 | keywords['Genetics'] |
| concepts[field].anzsrc:group:3105 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Genetics'] |
| concepts[field].anzsrc:group:3105 | mapping · dro deakin edu au | vocabulary-mapper@1.0.0 | keywords['Genetics'] |
| concepts[field].anzsrc:group:3402 | mapping · figshare dmu ac uk | vocabulary-mapper@1.0.0 | keywords['Inorganic Chemistry'] |
| concepts[field].anzsrc:group:3402 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Inorganic Chemistry'] |
| concepts[field].anzsrc:group:3402 | mapping · dro deakin edu au | vocabulary-mapper@1.0.0 | keywords['Inorganic Chemistry'] |
| concepts[field].local:field:chemistry | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:chemistry | mapping · figshare dmu ac uk | connector:figshare_dmu_ac_uk@1.0.0 | |
| concepts[field].local:field:chemistry | mapping · dro deakin edu au | connector:dro_deakin_edu_au@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · dro deakin edu au | connector:dro_deakin_edu_au@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · figshare dmu ac uk | connector:figshare_dmu_ac_uk@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · figshare dmu ac uk | connector:figshare_dmu_ac_uk@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · dro deakin edu au | connector:dro_deakin_edu_au@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · figshare dmu ac uk | connector:figshare_dmu_ac_uk@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · dro deakin edu au | connector:dro_deakin_edu_au@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · dro deakin edu au | connector:dro_deakin_edu_au@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · figshare dmu ac uk | connector:figshare_dmu_ac_uk@1.0.0 | |
| concepts[modality].local:modality:tabular | enrichment · zivahub uct ac za | keyword-concept-rules@1.0.0 | title+description (65%) |
| description | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/description |
| license | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/rights |
| publication_date | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| title | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/title |