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Fix resources links for EGA datasets #209

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ke4 opened this issue Oct 15, 2024 · 4 comments
Open

Fix resources links for EGA datasets #209

ke4 opened this issue Oct 15, 2024 · 4 comments
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@ke4
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ke4 commented Oct 15, 2024

The link to EGA dataset resources is broken.

Steps to reproduce:

  1. Open an experiment that has a linked EGA dataset resource
  2. Go to the Supplementary Information tab
  3. Click on the EGA resource

Example dataset: https://wwwdev.ebi.ac.uk/gxa/experiments/E-CURD-146/Supplementary%20Information

Expected result:
The browser should open the EGA dataset's page.

Actual result:
Page not found

@ke4 ke4 self-assigned this Oct 15, 2024
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ke4 commented Oct 22, 2024

@ke4
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ke4 commented Oct 22, 2024

The above 2 examples point to EGA studies with EGAS... accessions and using /studies/... in the URL. So the URL looks fine to me, but we got a 404.

I asked this last 2 from my EGA contact and waiting for his answer. 🤞

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ke4 commented Oct 22, 2024

The answer was that we have to remove the / from the end of the URL and that should work. :-D

@ke4 ke4 added the bug Something isn't working label Oct 23, 2024
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ke4 commented Oct 29, 2024

Here is the resource mapping from a previous ticket (#195):
accession to resource mappings:

ArrayExpress accessions
E-MTAB<> -> ArrayExpress
E-ERAD<> -> ArrayExpress
E-GEUV<> -> ArrayExpress

Proteome Exchange accessions - can be viewed in PRIDE (and elsewhere)
PXD<> -> PRIDE

GEO accessions
GSE<> -> GEO
GDS<> -> GEO

INSDC consortium project accessions - can be viewed in ENA (and elsewhere)
ERP<> -> ENA
SRP<> -> ENA
DRP<> -> ENA

BioProject NSDC consortium accessions - can be viewed in ENA (and elsewhere)
PRJEB<> -> ENA
PRJNA<> -> ENA
PRJDB<> -> ENA

EGA accessions
EGAS<> -> EGA
EGAD<> -> EGA

Some E-HCAD experiments (so these would be in SCEA only, not bulk) may have a 'bundle ID' in the secondary accession field in idf but I am not sure if that could be used to search and point to a project in the HCA Data portal

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