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IHEC / epiATLAS-metadata-harmonization

IHEC metadata merging and cleanup
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Markers column: realocation of markers's information to other columns #4

Closed GFrosi closed 2 years ago

GFrosi commented 3 years ago

The “marker” content for IHECRE00001436, IHECRE00001469 and IHECRE00000253 should probably be erased but the information perhaps relocated in a different column (“MLL-AF9 positive 62% blasts high BRE” and “MLL-AF9 positive 96% blasts normal BRE”, “early T cell precursor (ETP) phenotype”)

daniel-rico commented 3 years ago

IHECRE00001436.1 IHECRE00001469.1 Radboudumc, Nijmegen, Netherlands <- We actually don't know what markers they used. MLL-AF9: aberrant fusion of MLL and AF9 genes. This actually a marker, so we would keep it there, but we would also add this to the phenotype. 62% blasts... this is probably the same thing than "gate" in the Italian samples. Probably part of phenotype too? Stephan will write to Joost Martens.

IHECRE00000253.2 Necker's hospital <- See previous issue, Daniel will contact Salvatore Spicuglia to ask what markers were actually used.

SchulzLab commented 2 years ago

@daniel-rico any update on the issue mentioned above?

mlist commented 2 years ago

We decided to leave this as they are. AML samples have all additional information on the % of blasts.