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Idea: use ontology for easier selection process? #6

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Brilator opened this issue Aug 29, 2022 · 2 comments
Open

Idea: use ontology for easier selection process? #6

Brilator opened this issue Aug 29, 2022 · 2 comments

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@Brilator
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The selection options for

Where will you submit your data as endpoints?
2. What kind of data will you handle:
4. Are there any standards that are relevant for you?

are currently (a) somewhat arbitrary and (b) inconsistently leveled.
E.g. RNAseq, other NGS (genomics), metabolomics, proteomics, targeted assays, (phenotypic, genetics) are ~ assay types, whereas models, code, excel, cloned DNA (?), image are rather data / file type.

I think for most data types these topics actually go well together.
So, I would suggest an iterative selection process starting from user perspective, e.g.

Assay type
└ Data type
  ├ (suggested) repository
  └ relevant metadata standard 
Assay type Data type  (suggested) repository relevant metadata standard(s)
mRNA-Seq (sequences stored as) .fastq GEO MIAME, MINSEQE
Phenotyping (weight, height stored as) .txt, .csv PGP  MIAPPE
...
@Brilator
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Next step could then be to actually offer actions based on those decisions:

@xiaoranzhou
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This could a long term plan for sure.

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