PHA4GE-Wastewater specification package 4.4.4

Contents:

Field and Term Reference Guides 4.4.4
Curation Standard Operating Procedure (SOP) 4.4
DataHarmonizer Template Standard Operating Procedure (SOP) 4.4
New Term Request Standard Operating Procedure (SOP) 1.2

Updates:

New exports have been added to the DH implementation of the specification. In addition the following fields have undergone changes.

Schema	Field	Change
All templates	diagnostic target presence 2	Empty slot_uri updated to GENEPIO:0100962.
WastewaterPathogenAgnostic	isolate id	Corrected ID from GENEPIO:0100456 to GENEPIO:0001644.
All templates	fecal coliform count unit	Picklist IDs added to existing terms; colony forming units per 100 milliliter (CFU/100 mL) [GENEPIO:0102203], colony forming units per grams total solids (CFU/gTS) [GENEPIO:0102204], most probable number per milliliter (MPN/mL) [GENEPIO:0102205], most probable number per 100 milliliter (MPN/100 mL) [GENEPIO:0102206]
All templates	sequenced by contact email	Corrected ID from GENEPIO:0100471 to GENEPIO:0100422.
All templates	diagnostic measurement unit	Picklist IDs added to existing terms; cycle threshold (Ct) [UO:0010077], colony forming units per 100 milliliter (CFU/100 mL)[GENEPIO:0102203], colony forming units per grams total solids (CFU/gTS [GENEPIO:0102204], most probable number per milliliter (MPN/mL) [GENEPIO:0102205], most probable number per 100 milliliter (MPN/100 mL) [GENEPIO:0102206]
All templates	diagnostic measurement method	Picklist IDs added to existing terms; Digital real time polymerase chain reaction (dPCR) [GENEPIO:0102209], Cell culture [OBI:0001876]
All templates	sequencing instrument	New picklist term added SOLiD 5500xl-W Genetic Analyzer [GENEPIO:0100970]; removed MGISEQ-2000RS [GENEPIO:0100971] from picklist as this is a duplicate (model rebranded to "DNBSEQ-G400")
All templates	experimental protocol url	Updated definition and guidance

Updated curation guidance for version compatibility.

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Details can be found under release notes issue #17