Studies

We examined whether such a lockdown could be intermitted with periods with normal social contact, without endangering the success of the strategy.

Short Name: 04_stPanTr
Title: Solanum tuberosum Pan-Transcriptome
Description: Solanum tuberosum Pan-Transcriptome
Raw Data:
pISA Study creation date: 2019-10-22
pISA Study creator: Maja Zagorscak
Principal investigator: Kristina Gruden
License: CC BY 4.0
Sharing permission: Public
Upload to FAIRDOMHub: Yes

This study includes the single snRNA-seq in whole adult murine hearts from an inbred (C57BL/6NRj) and an outbred (Fzt:DU) mouse strain in comparison to publicly available scRNA-seq data of the tabula muris project.

Supplementary Information linked together

A repository of causal cellular signalling statement

A guidelines for the curation of molecular interactions causal statements.

One pot cascade - pathway analysis for the purified Caulinobacter crescentus Weimberg pathway enzymes. Effect of co-factor recycling, removal of XLA, and optimisation on Xylose to aKG is studied.

https://jjj.bio.vu.nl/models/experiments/shen2020_fig3a/simulate
https://jjj.bio.vu.nl/models/experiments/shen2020_fig3b/simulate
https://jjj.bio.vu.nl/models/experiments/shen2020_fig3c/simulate
https://jjj.bio.vu.nl/models/experiments/shen2020_fig3d/simulate

This study contains our single nuclei characterisation of whole hearts from Fzt.DU mice published in Cells.

Supplemental files for the publication of the dataset collection.

Initial rate kinetics for the purified Caulinobacter crescentus Weimberg pathway enzymes, including substrate dependence, and product inhibition.

Progress curves for the purified Caulinobacter crescentus Weimberg pathway enzymes. Each reaction is followed up to completion and then the next enzyme in the pathway is added, i.e. XDH-XLA-XAD-KDXD and finally KGSADH

Cell free extract - pathway analysis for Caulinobacter crescentus Weimberg pathway enzymes. Effect of co-factor recycling, and Mn2+ on Xylose to aKG conversion is studied.

The model is an extensio of PLM_67v3 with an additional an additional variable Temp in ODE 25. This change allows to simulated warm pulses that affect EC stability using COPASI. 

Originally submitted to PLaSMo on 2014-03-10 13:16:25

Model that eliminates several light inputs. RVE8, NOX are incorporated. Individual representation of CCA1 and LHY. Several changes in conections and light inputs. Fogelmark reports eight parameter sets. This SBML file contains the first parameter set Related PublicationsFogelmark K, Troein C (2014). Rethinking transcriptional activation in the Arabidopsis circadian clock.. PLoS Comput Biology. Retrieved from: http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003705Originally
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To map genome wide transcriptome responses in Atlantic cod PCLS treated with BaP and EE2. See Yadetie et al., 2018.

Study: _S_03_stCuSTr
Short Name: 03_stCuSTr
Title: Solanum tuberosum Cultivar-Specific Transcriptomes
Description: Solanum tuberosum Cultivar-Specific Transcriptomes
Raw Data: ../_S_01_sequences/, ../_S_02_denovo/
pISA Study creation date: 2019-10-22
pISA Study creator: Maja Zagorscak, Marko Petek, Ziva Ramsak
Principal investigator: Kristina Gruden
License: MIT
Sharing permission: Public
Upload to FAIRDOMHub: Yes

RELATED FILES:
/reports/README.MD https://fairdomhub.org/documents/346
/_STUDY_METADATA.TXT
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