Assays
What is an Assay?Filters
Files connected to investigation: _I_01_LabTrials
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: Investigation files
Files connected to study: _S_11_may2018
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_11_may2018
Files connected to study: _S_10_apr2018
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_10_apr2018
Files connected to study: _S_09_jun2017
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_09_jun2017
Files connected to study: _S_08_jan2017
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_08_jan2017
Files connected to study: _S_07_dec2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_07_dec2016
Files connected to study: _S_06_oct2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_06_oct2016
Files connected to study: _S_05_jun2016
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_05_jun2016
Files connected to study: _S_04_Stages
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_04_Stages
Files connected to study: _S_03_dsRNAprod
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_03_dsRNAprod
Files connected to study: _S_02_dsRNAorder
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_02_dsRNAorder
Files connected to study: _S_01_TargetSelect
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
This Jupyter Notebook assists you in the design of initial rate experiments.
For help on installing the classical Jupyter Notebook, see here: https://jupyter.org/install
For documentation about Juypter Notebooks, see here: https://jupyter-notebook.readthedocs.io/en/stable/
There are multiple tutorials online that help you to learn how to use a Jupyter notebook.
The notebook is provided as an .ipynb and as a .pdf file.
The plots the script generates with the default values are also given as .png ...
Submitter: Gudrun Gygli
Biological problem addressed: Model Analysis Type
Investigation: On the reproducibility of enzyme reactions and ...
For scRNA-Seq, iSABs were dissociated using the Primary Cardiomyocyte Isolation Kit (Thermo Fisher Scientific) before library preparation was performed using the 10xGenomics system with subsequent sequencing on the HighSeq4000 (Illumina). The mouse-SAN scRNA-Seq protocol is described in Goodyer et al. Preprocessing of raw sequencing data from iSABs relied on tools of the Cell Ranger Software (v.6.1.0) as was the procedure in Goodyer et al. Downstream analyses were conducted similar for both ...
Submitter: Anne-Marie Galow
Biological problem addressed: Gene Expression
Investigation: 1 hidden item
Lipidomic analysis by UPC2-MS of tissue samples from the GSF1 feed-switch experiment. Samples were analyzed at NTNU by Zdenka Bartosova and Per Bruheim.
There are three separate data files of lipid analysis in muscle, liver and gut tissue samples. Excel sheets contains both raw and normalised data of compounds abundance. Normalization to all compounds was used as a normalization method.
Columns: Compound 0.93_858.7669n Anova (p) 0,044998264 q Value 0,009417222 Max Fold Change 1,644961431 Maximum ...
Submitter: Zdenka Bartosova
Assay type: Experimental Assay Type
Technology type: Supercritical fluid chromatography - Mass spectrometry
Investigation: Omega-3 metabolism of salmon in relation to die...
NB! The files here are the old version for the files in Lipidomics (Experimental Assay)
Lipidomic analysis by LC-MS of tissue samples from the GSF1 feed-switch experiment. Samples were analyzed at NTNU by Zdenka Bartosova and Per Bruheim.
There are two separate data files of lipid analysis in muscle and liver samples. Excel sheets contains both raw and normalised data of compounds abundance. Normalization to all compounds was used as a normalization method.
We have also performed a "normalization ...
Submitter: Jon Olav Vik
Assay type: Experimental Assay Type
Technology type: Liquid Chromatography Mass Spectrometry
Investigation: Omega-3 metabolism of salmon in relation to die...
An overview of RNA sequencing data generated in GenoSysFat (and a couple of others).
Source: Email from Simen Rød Sandve to Jon Olav Vik and Fabian Grammes 2017-02-10, titled "RNAseq generert i GSF".
This should be turned into separate RNAseq Assays when we can allocate people for it. Currently the following have records already:
Tissue panel for gene expression in ZF, Med, RT https://fairdomhub.org/assays/324
Tissue panel for gene expression in ZF,Med,RT- RNA sequencing https://fairdomhub.org/assays/395 ...
Submitter: Jon Olav Vik
Assay type: Experimental Assay Type
Technology type: Rna-seq
Investigation: Omega-3 metabolism of salmon in relation to die...
Fatty acids are extracted from samples and converted to fatty acid methyl esters (FAMEs) followed by separation by gas chromatography. This yields fatty acid profiles for each sample as percent of total FAME or milligram FAME per gram of biomass.
Source:
Hei Magny,
Takk!
Et par ting:
- vi trenger å få orden på data... Lurer derfor på om du kan du lage ett dokument som inneholder alle resultat fra GCen? Uten ...
Submitter: Graceline Tina Kirubakaran
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Omega-3 metabolism of salmon in relation to die...
Fatty acids are extracted from samples and converted to fatty acid methyl esters (FAMEs) followed by separation by gas chromatography. This yields fatty acid profiles for each sample as percent of total FAME or milligram FAME per gram of biomass.
Source:
Hei Magny,
Takk!
Et par ting:
- vi trenger å få orden på data... Lurer derfor på om du kan du lage ett dokument som inneholder alle resultat fra GCen? Uten ...
Submitter: Graceline Tina Kirubakaran
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Omega-3 metabolism of salmon in relation to die...
Record of weight, length and sex of fish sampled after feed switch between vegetable and marine oil, in September 2015 (freshwater) and January 2016 (seawater). Young fry arrived at Solbergstranda 2015-02-05 17:20.
Submitter: Thomas Harvey
Assay type: Experimental Assay Type
Technology type: Next generation sequencing
Investigation: Omega-3 metabolism of salmon in relation to die...
Targeted proteomics for peptides related to fatty acid metabolism. Aim: Check which of these proteins we are able to detect in this experiment.
Submitter: Jon Olav Vik
Assay type: Proteomics
Technology type: Technology Type
Investigation: Omega-3 metabolism of salmon in relation to die...
16S rRNA amplicon sequencing (Illumina MiSeq, V3-V4 region) to assess community structure.
Submitter: Jon Olav Vik
Assay type: Experimental Assay Type
Technology type: Next generation sequencing
Investigation: Omega-3 metabolism of salmon in relation to die...
General sandbox
Submitter: Andrej Blejec
Biological problem addressed: Model Analysis Type
Investigation: 1 hidden item
Study: FAIRDOMhub API usage in R
Submitter: Arnau Montagud
Biological problem addressed: Gene Regulatory Network
Investigation: PhysiBoSS-COVID: the Boolean modelling of COVID...
Submitter: Arnau Montagud
Biological problem addressed: Gene Regulatory Network
Investigation: PhysiBoSS-COVID: the Boolean modelling of COVID...
RNA timeseries data for Arabidopsis Col wild-type plants and clock mutants, as separate mean and SD files. The raw data is available on BioDare.ed.ac.uk, and is linked as 'Attribution' from elsewhere on FAIRDOMHub.
The starting models are included here in their original forms, the P2011 model as an SBML L3V1 model file, and the KF2014 model of Fogelmark et al. shared as SBML; both prepared by Uriel Urquiza.
Submitter: Andrew Millar
Biological problem addressed: Gene Regulatory Network
Investigation: Absolute units in Arabidopsis clock models up t...
P2011.1.2 written in Antimony and converted in SBML using python package Tellurium. Parameters values correspond to P2011.1.2
Submitter: Uriel Urquiza Garcia
Biological problem addressed: Model Analysis Type
Investigation: Absolute units in Arabidopsis clock models up t...
Collection of clock models that rescale transcript variables to account for absolute units. The relationship between models is summarised in the attached 'model evolution' document and in more detail in the linked publications (preprint version linked in the Snapshot; publication Urquiza and Millar, In Silico Plants 2021 did not have a DOI when Snapshot was created).
Each model is presented three times,
-
- without a light:dark cycle,
-
- with an ISSF (Adams et al. JBR 2012) that is set up for ...
Submitter: Uriel Urquiza Garcia
Biological problem addressed: Gene Regulatory Network
Investigation: Absolute units in Arabidopsis clock models up t...
Homogeneity of the Gre2p samples in KPi Buffer before and after different treatments, including different amounts of BSA in the buffer (7.5 µM and 75 µM).
Submitter: Felix Ott
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Workflow for characterization of enzymes under ...
Cyp1a activity (=EROD) measured in liver samples of cod exposed to chlorpyrifos-methyl
Submitter: Karina Dale
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: 1 hidden item