Data files

1126 Data files visible to you, out of a total of 1519

Master file, aggregates metabolite concentrations inside and outside the cell, protein copy number and flux estimates for metabolites in the core model. Based on all internal metabolite concentrations, external metabolite concentrations from growth curve data, flux of glucose, lactate and acetate based on growth curve data and protein copy number data for enzyme concentrations. Combines absolute and relative measurements and metabolomics measurements from different experiment to get an as complete
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Creator: Niels Zondervan

Contributor: Niels Zondervan

No description specified

Creator: Alexey Kolodkin

Contributor: Alexey Kolodkin

Protein copy number estimates, Mean and SD based on multiple proteomics experiments.
Compatible with internal and external metabolite measurements for Growth curve A.
Used as training data for the model

Creator: Niels Zondervan

Contributor: Niels Zondervan

A dummy file used to test programmatic download from SEEK.

Creator: Jon Olav Vik

Contributor: Jon Olav Vik

test file

Creators: Olga Krebs, Vânia Pobre

Contributor: Olga Krebs

test file

Creators: Olga Krebs, Vânia Pobre

Contributor: Olga Krebs

test file

Creators: Olga Krebs, Vânia Pobre

Contributor: Olga Krebs

test file

Creators: Olga Krebs, Vânia Pobre

Contributor: Olga Krebs

Lists containing sample identifiers and relationships between samples.

Also see SOP for sample identifiers: https://fairdomhub.org/sops/242

Alterations to SOP:
Block1: LNU1/LNU2 -> LNU
Block 4: Continuous cultures -> Cn, Batch cultures -> #days, replicates -> A-Z refer to CULTURE REPLICATES
Block 6: biosample + REPLICATE , B1,B2 ...
Block 7: Sample Type + Replicate , RNA: R1,R2,... DNA: D1... Protein: Pr

Header: Bold -> mandatory, other fields are either for additional information or redundant
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Creator: Malte Herold

Contributor: Malte Herold

Chalcopyrite leaching data of cultures with our combinations of the three species (A, L, S, ALS, AL, AS, LS, SA, SL, SAL)

Including development of planktonic and sessile cell population, pH, EH, [ferrous iron], [total iron], [total copper] within 21 days of incubation at 37 C° with 160 rpm shaking after inoculation with 1e7 cells/mL (per species).

Creator: Soeren Bellenberg

Contributor: Soeren Bellenberg

Combined taxonomy table of abundance of OTUs (Operational Taxonomy Units) in both freshwater and saltwater samples from 16S V3-V4 Illumina sequencing of gut microbiota. Primers used for sequencing are given in https://fairdomhub.org/sops/270
The OTUs are presented in number of counts per sample (n=349). Each row represent one sample.

Creators: Inga Leena Angell, Lars Snipen, Jon Olav Vik

Contributor: Inga Leena Angell

Excel file summarizing:
- Name of the RNAseq study
- Orion path were the .fastq files are stored
- Year the libraries were sequenced
- short description

Creators: Fabian Grammes, Simen Sandve

Contributor: Fabian Grammes

RNA levels for control amplicons and multiple clock genes in 2 WT (Col, Ws) and 5 clock mutants of Arabidopsis, in biological duplicates, from three conditions: Diurnal cycle (12L/12D), Extended night (DD), Extended light (LL), harvested every 2 hours. Numbers are in transcript copy per cell, obtained assuming 1 g FW contains 25000000 cells.
Comments:
Data from LD are concateneted with DD and LL for better visualization. Toc1-101 (col-0) gi-201 (col-0) prr7-3 prr9-1 (col-0) , lhy cca1 (ws) elf3-4
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Creator: Andrew Millar

Contributor: Andrew Millar

For Chew, Seaton et al. Figure 1

Creator: Andrew Millar

Contributor: Andrew Millar

For Chew, Seaton et al. Figure 1

Creator: Andrew Millar

Contributor: Andrew Millar

Poster GASL 2017

Creators: Erik Schröder, Madlen Matz-Soja, Rolf Gebhardt, Susanne Aleithe

Contributor: Erik Schröder

Poster

Creators: Madlen Matz-Soja, Erik Schröder, Rolf Gebhardt, Susanne Aleithe

Contributor: Madlen Matz-Soja

We cultivated HEPG2 cells with and without glutamine added. Growth and extracellular metabolite concentrations were followed over time

Creator: Jurgen Haanstra

Contributor: Jurgen Haanstra

To focus our investigation of omega-3 metabolism, we are compiling a list of relevant genes. As a start, we selected seven KEGG pathways, but eventually we’ll also include Reactome’s equivalent pathways. Unfortunately, the KEGG pathways include only enzymes, not regulators or transporters (SREBP, LXR, FABP’s etc.), so we’ll have to add the latter manually. (Reactome might have them.) The gene list below is a large, autogenerated table showing

Various identifiers for each gene.
The most similar
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Creators: Jon Olav Vik, Arne Gjuvsland, Sandve Simen

Contributor: Jon Olav Vik

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

No description specified

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

See Figure 2 caption.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

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