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1 to 10 of 22 Results
FemaleInfantWBMs_day2
Jul 1, 2025 - Female infant-WBMs with microbiome
Thiele, Ines, 2025, "FemaleInfantWBMs_day2", https://doi.org/10.7910/DVN/QDFRZG, Harvard Dataverse, V1
48 Female infant-WBMs with microbiome
Replication Data for: Metabolic modelling links gut microbiota to metabolic perturbations in Parkinson's disease
May 5, 2025 - Human Metabolic Models and Reconstructions
Hensen, Tim, 2025, "Replication Data for: Metabolic modelling links gut microbiota to metabolic perturbations in Parkinson's disease", https://doi.org/10.7910/DVN/PUTXL9, Harvard Dataverse, V1, UNF:6:zIVDsrnZgfh0uxplYeyHsA== [fileUNF]
*** DESCRIPTION *** Input data for replication of paper titled: "Metabolic modelling links gut microbiota to metabolic perturbations in Parkinson's disease". *** CONTENT *** - ApolloAgora2panSpecies: Folder with AGORA2 + APOLLO pan species gut microbe reconstructions. - luo_2024_replicated_PD_mets.xlsx: List of metabolites for which a replicated as...
Female infant-WBMs
Apr 22, 2025 - Infant-WBMs (male, female, day 1 - 180)
Thiele, Ines, 2025, "Female infant-WBMs", https://doi.org/10.7910/DVN/SGQUEH, Harvard Dataverse, V1
Female infant-WBMs, day 1 - 180.
Male infant-WBMs
Apr 22, 2025 - Infant-WBMs (male, female, day 1 - 180)
Thiele, Ines, 2025, "Male infant-WBMs", https://doi.org/10.7910/DVN/ECAJUW, Harvard Dataverse, V1
Male infant-WBMs, day 1 -180
AGORA2 - collection of 1,749 pan species models (.mat)
Apr 1, 2025 - APOLLO Dataverse
Thiele, Ines, 2025, "AGORA2 - collection of 1,749 pan species models (.mat)", https://doi.org/10.7910/DVN/LAO2XM, Harvard Dataverse, V1
Collection of pan-species models from the AGORA2 resource. Individual reconstructions were downloaded on 11-Nov-2024. The taxonomic information was generated through the updateTaxonomyInfoAgora.m function in the COBRA toolbox. Pan-species were generated through the createPanSpecies.m function in the COBRA toolbox with the updated taxonomic informat...
AGORA2 and Apollo - collection of 1,922 pan-species models (.mat)
Apr 1, 2025 - APOLLO Dataverse
Thiele, Ines, 2025, "AGORA2 and Apollo - collection of 1,922 pan-species models (.mat)", https://doi.org/10.7910/DVN/JAXTWY, Harvard Dataverse, V1
Individual reconstructions for AGORA2 were downloaded on 11-Nov-2024. The taxonomic information was generated through the updateTaxonomyInfoAgora.m function in the COBRA toolbox. Individual reconstructions for APOLLO were downloaded on 22-nov-2024. The pan-species models were generated with createPanSpecies.m function in the COBRA toolbox on 25-nov...
Kraken2 database for Apollo and Agora2
Feb 14, 2025 - APOLLO Dataverse
Barton, Wiley, 2025, "Kraken2 database for Apollo and Agora2", https://doi.org/10.7910/DVN/THOTRP, Harvard Dataverse, V1
Kraken database... TBD
APOLLO - collection of 595 pan species models (.mat)
Feb 11, 2025 - APOLLO Dataverse
Thiele, Ines, 2025, "APOLLO - collection of 595 pan species models (.mat)", https://doi.org/10.7910/DVN/PIZCBI, Harvard Dataverse, V1
A collection of pan-species models generated from the APOLLO resource. Individual reconstructions were downloaded on 22-nov-2024. The pan-species models were generated with createPanSpecies.m function in the COBRA toolbox on 25-nov-2024. The taxonomic assignments used in the createPanSpecies.m function were obtained from the APOLLO supplementary ma...
MicroMap - CellDesigner xml and pdf formats
MicroMap - CellDesigner xml and pdf formats
Dec 4, 2024 - MicroMap Dataverse
Thiele, Ines, 2024, "MicroMap - CellDesigner xml and pdf formats", https://doi.org/10.7910/DVN/FZKMJ8, Harvard Dataverse, V1
The CellDesigner xml format allows for MicroMap inspection using the CellDesigner software available at https://www.celldesigner.org, as well as computational modelling and visualisation using the COBRA Toolbox https://opencobra.github.io The pdf format allows for map inspection. We suggest to download the file and 'open with' a web browser of your...
MicroMap - AGORA2 class visualisations
Dec 4, 2024 - MicroMap Dataverse
Thiele, Ines, 2024, "MicroMap - AGORA2 class visualisations", https://doi.org/10.7910/DVN/PAHQH4, Harvard Dataverse, V1
This dataset contains the visualisations for the 39 pan-class genome-scale metabolic reconstructions derived from AGORA2 on the MicroMap.
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