Validated Typhi Metadata Template - v3

	A	B	C	D	E	F	G	H	I	J	K	L	M	N	O	P	Q	R	S	T	U	V	W	X	Y	Z	AA	AB
1	Data Accession	Study Accession	Sample Accession	DisplayName	Repeat Isolate	Year	Month	Day	Age	Sex	Country	City	Latitude	Longitude	Accuracy	Travel Associated	Travel Country	Travel Note	Strain	Purpose of Sampling	Source	PMID	Isolating Lab	Lab Contact	Host Health State	Host Health State Details	Sanger Lane
2	REQUIRED (accession for data supplied to Pathogenwatch; either reads accession (ERRxxx, SRRxxx), or GenBank assembly accession for completed genomes [NOT draft genomes - reads should be supplied in this case])	REQUIRED (e.g. NCBI BioProject)	REQUIRED (e.g. NCBI BioSample)	REQUIRED	REQUIRED (leave blank for primary isolate, indicate any repeats as 'repeat')	REQUIRED	REQUIRED (Numeric, ie 1=Jan, 2=Feb, etc)	REQUIRED (Numeric day of the month)	REQUIRED (in years; unless under 1 year of age, in which case please indicate in days (1-31d) or months (1-11m))	REQUIRED	REQUIRED	OPTIONAL	OPTIONAL (Patient-level location information only - please do NOT enter city, hospital, lab location here. Decimal format.)	OPTIONAL (Patient-level location information only - please do NOT enter city, hospital, lab location here. Decimal format.)	OPTIONAL Patient-level location information is often jittered or blurred, please indicate accuracy of latitude/longitude data (see http://www.spatialepidemiology.net/user_maps/instructions/default.php#geocodingfor details)	REQUIRED	OPTIONAL	OPTIONAL	OPTIONAL (alternative strain name)	REQUIRED	REQUIRED	OPTIONAL (PubMed ID for associated publication reporting genome data, DOI is acceptable for preprints only)	OPTIONAL (Assigned lab code)	OPTIONAL (Name and email)	OPTIONAL	OPTIONAL	OPTIONAL (only if genomes were sequenced at Wellcome Sanger Institute)	DELETE THIS ROW BEFORE UPLOADING
3																Yes				Targeted [Cluster Investigation]
4																No				Targeted [AMR investigation]
5																Not Provided				Targeted [Other]
6																				Non Targeted [Reference lab]
7																				Non Targeted [Surveillance Study]
8																				Non Targeted [Routine diagnostics]
9																				Non Targeted [Other]
10																				Not Provided
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