Assays

What is an Assay?

9 Assays visible to you, out of a total of 9

Proteomics rawdata

SysMetEx

Raw proteomics data derived from planktonic cells in chalcopyrite leaching experiments

Submitter: Malte Herold

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Planktonic cells

Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)

SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., In solution digestion part, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code

Data files: AAS_P Proteomics, ASS_P Proteomics, ASX_LSX_P Proteomics, LXX_P Proteomics, SAL_P Proteomics, SAX_P Proteomics, SXX_P Proteomics

Snapshots: No snapshots

Created: 6th May 2019 at 15:14, Last updated: 12th Feb 2020 at 12:49

Proteomics rawdata

SysMetEx

No description specified

Submitter: Malte Herold

Assay type: Proteomics

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Biofilms on chalcopyrite grains

SOPs: DNA, RNA, Protein extraction from mineral samples, In solution digestion part, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code

Data files: LXX_M Proteomics, SAL_M Proteomics, SLX_M Proteomics

Snapshots: No snapshots

Created: 6th May 2019 at 15:05, Last updated: 12th Feb 2020 at 12:47

Proteomics rawdata

SysMetEx

Proteomics data for samples derived from continuous cultures

Submitter: Malte Herold

Assay type: Proteomics

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Continuous cultures

Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type)

SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., In solution digestion part, SOP - RNA/Protein sampling for continuous culture, Sample Identification Code

Data files: AXX_Cn Proteomics

Snapshots: No snapshots

Created: 6th May 2019 at 15:24, Last updated: 12th Feb 2020 at 12:47

Microscopy imaging

SysMetEx

No description specified

Submitter: Malte Herold

Assay type: Experimental Assay Type

Technology type: Microscopy

Investigation: SysMetEx - Dataset collection

Study: Biofilms on chalcopyrite grains

SOPs: SOP_Bioleaching_in_flasks_UDE

Data files: Biofilm Imaging

Snapshots: No snapshots

Created: 6th May 2019 at 15:01, Last updated: 12th Feb 2020 at 12:42

RNAseq rawdata

SysMetEx

RNAseq raw data derived from continuous culture samples

Submitter: Malte Herold

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Continuous cultures

SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., SOP - RNA/Protein sampling for continuous culture, Sample Identification Code

Data files: Rawdata RNAseq

Snapshots: No snapshots

Created: 6th May 2019 at 15:26, Last updated: 23rd Jan 2020 at 12:14

Supplemental Files

SysMetEx

Supplemental files for the publication

Submitter: Malte Herold

Biological problem addressed: Model Analysis Type

Investigation: SysMetEx - Dataset collection

Study: Supplemental Files

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Supplemental File 1 - maxquant parameters, Supplemental File 2 - qc raw reads, Supplemental File 4 - mapping statistics, Supplemental Table 1 - omics samples, Supplemental file 3 - qc processed reads

Snapshots: No snapshots

Created: 23rd Jan 2020 at 11:03, Last updated: 23rd Jan 2020 at 12:14

Links to code repositories

SysMetEx

Links to additional gitlab repositories

Submitter: Malte Herold

Biological problem addressed: Model Analysis Type

Investigation: SysMetEx - Dataset collection

Study: Supplemental Files

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Repository for data analysis, Repository for reference genomes

Snapshots: No snapshots

Created: 23rd Jan 2020 at 11:13, Last updated: 23rd Jan 2020 at 12:14

RNAseq rawdata

SysMetEx

Rawdata for RNAseq derived from biofilms on chalcopyrite grains

Submitter: Malte Herold

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Biofilms on chalcopyrite grains

SOPs: DNA, RNA, Protein extraction from mineral samples, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code

Data files: Rawdata RNAseq

Snapshots: No snapshots

Created: 6th May 2019 at 15:10, Last updated: 23rd Jan 2020 at 12:14

RNAseq rawdata

SysMetEx

Link to RNAseq raw data

Submitter: Malte Herold

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: SysMetEx - Dataset collection

Study: Planktonic cells

SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., SOP - RNA-Prot sampling for bioleaching, Sample Identification Code

Data files: Rawdata RNAseq

Snapshots: No snapshots

Created: 6th May 2019 at 15:25, Last updated: 23rd Jan 2020 at 12:14

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