- Home
- SOPs Index
- Sample Identification Code
This file describes the naming system used to uniquely identify samples
Export PNG

Views: 750 Downloads: 104
Created: 18th Sep 2015 at 11:48
Last updated: 6th Feb 2020 at 17:37
Last used: 16th Apr 2021 at 17:05

None
Related items
Biomining is a biotechnological process carried out in many parts of the world that exploits acid loving microorganisms to extract metals from sulphide minerals. One industrial biomining method is called ‘heap bioleaching’ where typically copper containing minerals are piled into very large heaps, acid and microorganisms are added to the top and the soluble metal is collected at the heap base.
The role of the different types of microbes in the process is to speed up metal solubilisation by oxidising
...
Programme: ERASysAPP
Public web page: http://sysmetex.eu/index.html
The raw data generated in the scope of the SysMetEx project for RNAseq, proteomics, and imaging analysis.
The data was generated on single and mixed species cultures of A. Caldus, L.ferriphilum, and/or S.thermosulfidooxidans.
Raw RNA data is combined in an ENA umbrella study summarising all short read data generated in the project.
Raw proteomics data is provided for distinct conditions at the pride repository.
Imaging data is provided for distinct conditions at a zenodo repository.
Snapshots: Snapshot 1, Snapshot 2
Person responsible: Malte Herold
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Assays: Microscopy imaging, Proteomics rawdata, RNAseq rawdata
Person responsible: Malte Herold
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Assays: Proteomics rawdata, RNAseq rawdata
Person responsible: Malte Herold
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Assays: Proteomics rawdata, RNAseq rawdata
Raw proteomics data derived from planktonic cells in chalcopyrite leaching experiments
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
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
Submitter: Malte Herold
Assay type: Proteomics
Technology type: Technology Type
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Study: Biofilms on chalcopyrite grains
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: 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
Proteomics data for samples derived from continuous cultures
Submitter: Malte Herold
Assay type: Proteomics
Technology type: Technology Type
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Study: Continuous cultures
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type) (chemostat)
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
RNAseq raw data derived from continuous culture samples
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Study: Continuous cultures
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..., SOP - RNA/Protein sampling for continuous culture, Sample Identification Code
Data files: Rawdata RNAseq
Rawdata for RNAseq derived from biofilms on chalcopyrite grains
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
Investigation: SysMetEx - Dataset collection
Study: Biofilms on chalcopyrite grains
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: DNA, RNA, Protein extraction from mineral samples, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: Rawdata RNAseq
Link to RNAseq raw data
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
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..., SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: Rawdata RNAseq