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title	tx.xpt (trial sets)

Assumption: The Trial Sets (TX) domain provides the list of distinct sets of subjects having different experimental factors, treatment factors, inherent characteristics, or distinct ~~sponsor~~ applicant designations as specified in the trial design.
During CT definition/reviews will decide appropriate TXPARM and TXVAL; Treatment duration may be controlled; For now, we just include good example values based on our experience
Where are the details of the smoke regime defined/submitted today? (e.g., puff profile = Bell shaped puffing volumes; Puff Block = 50%, etc.)
Smoke fraction? is this indicator of processing of material from smoke machine..we used Smoke Exposure System - ok?
Incubate cells (37 ºC ±1 ºC, 90% ±10% humidity, and 5% ±1% CO2/air) - these are ranges, do we model for ranges?
- https://ntp.niehs.nih.gov/iccvam/docs/protocols/ivcyto-nhk.pdf

Row	STUDYID	ASSAYID	DOMAIN	SETCD	SET (what sponsor calls it)	TXSEQ	TXPARMCD	TXPARM	TXVAL
1	123	NRU	TX	1-1-A (plate-col-row in the 96-well plate)	CSC-10 (through SLS-200)	1	PLATENUM. (e.g., 1 or 2)	1	1
2	123	NRU	TX	1-1-A	CSC-10	2	WELLNUM (e.g., 1-A through 10-H)	Number representing the location of the well in the 96-well plate	1-A
3	~~123~~	~~NRU~~	TX	~~1-1-A~~	~~CSC-10~~	3	~~INTRVN~~	~~name of the intervention article~~	~~Cigarette Smoke Condensate~~
4	123	NRU	TX	1-1-A	CSC-10	4	ITVTYPE (CT e.g, Product, positive control, negative control, vehicle control, solvent control)	type of intervention article	PRODUCT
5	123	NRU	TX	1-1-A	CSC-10	5	ITVCONC	intervention concentration	10
6	123	NRU	TX	1-1-A	CSC-10	6	ITVCONCU	intervention unit	ug/ml
7	123	NRU	TX	1-1-A	CSC-10	7	STRAIN	Strain/Substrain	Salmonella enterica enterica
8	123	NRU	TX	1-1-A	CSC-10	8	SPDEVID	Sponsor defined device identifier	PUFFMASTER3k
9	123	NRU	TX	1-1-A	CSC-10	9	DUREFID	Smoking Regime	Medium Intensity Regimen
10	123	NRU	TX	1-1-A	CSC-10	10	RUN	Assay run number	1
11	123	NRU	TX	1-1-A	CSC-10	11	SMPLID	Sample ID	030001
12	123	NRU	TX	1-1-A	CSC-10	12	SMKEXSYS	Smoke Exposure System	Cambridge filter pad, eluted in DMSO
13	123	NRU	TX	1-1-A	CSC-10	13	REPNUM	Replicate Number	1
14	123	NRU	TX	1-1-A	CSC-10	14	TRTDMIN	Treatment Duration Min	47.5
15	123	NRU	TX	1-1-A	CSC-10	15	TRTDTRG	Treatment Duration Target	48
16	123	NRU	TX	1-1-A	CSC-10	16	TRTDMAX	Treatment Duration Max	48.5
17	123	NRU	TX	1-1-A	CSC-10	17	TRTDU	Treatment Duration Unit	HOURS
18	123	NRU	TX	1-1-A	CSC-10	18	INCBTMP	Incubation Temperature	37
19	123	NRU	TX	1-1-A	CSC-10	19	INCBTMPU	Incubation Temperature Unit	C
20	123	NRU	TX	1-1-A	CSC-10	20	MEDIA	Composition of Media	Sartorius HEK293
21	123	NRU	TX	1-1-A	CSC-10	21	HUMID	Atmospheric Relative Humidity Percent	90
22	123	NRU	TX	1-1-A	CSC-10	22	ATMCO2	Atmospheric CO2 Percent	5
23	123	NRU	TX	1-1-A	CSC-10	23	SPTOBID	Sponsor defined tobacco identifier	CIG01a
1	123	NRU	TX	1-1-B	CSC-10	1	PLATENUM. (e.g., 1 or 2)	1	1
2	123	NRU	TX	1-1-B	CSC-10	2	WELLNUM (e.g., 1-A through 10-H)	Number representing the location of the well in the 96-well plate	1-A
3	123	NRU	TX	1-1-B	CSC-10	3	INTRVN	name of the intervention article	Cigarette Smoke Condensate
4	123	NRU	TX	1-1-B	CSC-10	4	ITVTYPE (CT e.g, Product, positive control, negative control)	type of intervention article	PRODUCT
5	123	NRU	TX	1-1-B	CSC-10	5	ITVCONC	intervention concentration	10
6	123	NRU	TX	1-1-B	CSC-10	6	ITVCONCU	intervention unit	ug/ml
7	123	NRU	TX	1-1-B	CSC-10	7	STRAIN	Strain/Substrain	Salmonella enterica enterica
8	123	NRU	TX	1-1-B	CSC-10	8	SPDEVID	Sponsor defined device identifier	PUFFMASTER3k
9	123	NRU	TX	1-1-B	CSC-10	9	DUREFID	Smoking Regime	Medium Intensity Regimen
10	123	NRU	TX	1-1-B	CSC-10	10	RUN	Assay run number	1
11	123	NRU	TX	1-1-B	CSC-10	11	SMPLID	Sample ID	030001
12	123	NRU	TX	1-1-B	CSC-10	12	SMKEXSYS	Smoke Exposure System	Cambridge filter pad, eluted in DMSO
13	123	NRU	TX	1-1-B	CSC-10	13	REPNUM	Replicate Number	1
14	123	NRU	TX	1-1-B	CSC-10	14	TRTDMIN	Treatment Duration Min	47.5
15	123	NRU	TX	1-1-B	CSC-10	15	TRTDTRG	Treatment Duration Target	48
16	123	NRU	TX	1-1-B	CSC-10	16	TRTDMAX	Treatment Duration Max	48.5
17	123	NRU	TX	1-1-B	CSC-10	17	TRTDU	Treatment Duration Unit	HOURS
18	123	NRU	TX	1-1-B	CSC-10	18	INCBTMP	Incubation Temperature	37
19	123	NRU	TX	1-1-B	CSC-10	19	INCBTMPU	Incubation Temperature Unit	C
20	123	NRU	TX	1-1-B	CSC-10	20	MEDIA	Composition of Media	Sartorius HEK293
21	123	NRU	TX	1-1-B	CSC-10	21	HUMID	Atmospheric Relative Humidity Percent	90
22	123	NRU	TX	1-1-B	CSC-10	22	ATMCO2	Atmospheric CO2 Percent	5
23	123	NRU	TX	1-1-B	CSC-10	23	SPTOBID	Sponsor defined tobacco identifier	CIG01a
...				...
	123	NRU	TX	1-10-H	SLS-10		PLATENUM	Plate number	1
	123	NRU	TX	1-10-H	SLS-10		WELLNUM	Number representing the location of the well in the 96-well plate	10-H
	123	NRU	TX	1-10-H	SLS-10		INTRVN	name of the intervention article	sodium laurel sulfate
	123	NRU	TX	1-10-H	SLS-10		ITVTYPE	type of intervention article	POSITIVE CONTROL
	123	NRU	TX	1-10-H	SLS-10		ITVCONC	intervention concentration	200
	123	NRU	TX	1-10-H	SLS-10		ITVCONCU	intervention unit	ug/ml
...				...
	123	NRU	TX	2-10-H	SLS-10		PLATENUM	Plate number	2
	123	NRU	TX	2-10-H	SLS-10		WELLNUM	Number representing the location of the well in the 96-well plate	10-H
	123	NRU	TX	2-10-H	SLS-10		INTRVN	name of the intervention article	sodium laurel sulfate
	123	NRU	TX	2-10-H	SLS-10		ITVTYPE	type of intervention article	POSITIVE CONTROL
	123	NRU	TX	2-10-H	SLS-10		ITVCONC	intervention concentration	200
	123	NRU	TX	2-10-H	SLS-10		ITVCONCU	intervention unit	ug/ml
...				...

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title	ei.xpt Entity Identifiers (dm-like)

Entity IDs are unique within the assay (and a study can have many assays)
Replicates vs. Run
- need planned (ei.xpt) separate from the actual (gt.xpt)
- If tests run at the same time, they are replicates and are assigned the same RUNID
- If tests are run at separate times, they are runs and the RUNIDs are distinct
Different runs would be expected to have different ENID and GTDTC values. In ei.xpt, these are distinguished by different RUNID values.
Entities that are replicates of each other would be expected to
- have different ENID values
- be in the same trial set (SETCD values)
- have the same RUNID values

Row

STUDYID

ASSAYID

DOMAIN

ENID (Entity ID)

SETCD (from TX)

RUNID

REPLCTID

(Replicate Number)

PLATEID (Plate ID)

COLID

(Column number)

ROWID (Row number)

123

NRU

EI

1-2-B

1

1-8-3 (plate - col- row)

123

NRU

EI

1-3-B

1

Expand

title	gt.xpt (similar to LB)

ADD ei.xpt

*** Lou Ann:

new pictures with blank media on perimeter. Column 1 and Col 12, Row A and H

gt 2B through 11G will be labeled in the picture

Data values in gt.xpt will be from 2b (1a), 2c (2b), 10g (not 10H) on both plates

Row	STUDYID	ASSAYID	DOMAIN	ENID	GTSEQ	GTTESTCD	GTTEST	GTORRES	GTORRESU	GTSTRESC	GTSTRESN	GTSTRESU
1	123	NRU	GT	1-1-A	1	RELABS	Relative Absorbance Reading	100	ug/ml	100	100	ug/ml
2	123	NRU	GT	1-1-B	1	RELABS	Relative Absorbance Reading	107	ug/ml	100	100	ug/ml
3	123	NRU	GT	1-1-C	1	RELABS	Relative Absorbance Reading	98.6	ug/ml	100	100	ug/ml
4	123	NRU	GT	1-1-D	1	RELABS	Relative Absorbance Reading	94.9	ug/ml	100	100	ug/ml
5	123	NRU	GT	1-1-E	1	RELABS	Relative Absorbance Reading	111	ug/ml	111	111	ug/ml
	123	NRU	GT	1-1-F	1	RELABS	Relative Absorbance Reading	96.9	ug/ml	96.9	96.9	ug/ml
	123	NRU	GT	1-1-G	1	RELABS	Relative Absorbance Reading	105	ug/ml	105	105	ug/ml
	123	NRU	GT	1-1-H	1	RELABS	Relative Absorbance Reading	95.2	ug/ml	95.2	95.2	ug/ml
10	123	NRU	GT	1-2-A	1	RELABS	Relative Absorbance Reading	83.0	ug/ml	83.0	83.0	ug/ml
11	123	NRU	GT	1-2-B	1	RELABS	Relative Absorbance Reading	77.7	ug/ml	77.7	77.7	ug/ml
...				...
80	123	NRU	GT	1-10-H	1	RELABS	Relative Absorbance Reading	0.791	ug/ml	0.791	0.791	ug/ml
...				...
160	123	NRU	GT	2-10-H	1	RELABS	Relative Absorbance Reading	0.780	ug/ml	0.780	0.780	ug/ml

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Versions Compared

Old Version 33

New Version 34

Key

SET (what sponsor calls it)

(plate-col-row in the 96-well plate)

(through SLS-200)

PLATENUM. (e.g., 1 or 2)

WELLNUM (e.g., 1-A through 10-H)

(CT e.g, Product, positive control, negative control, vehicle control, solvent control)

PLATENUM. (e.g., 1 or 2)

WELLNUM (e.g., 1-A through 10-H)

(CT e.g, Product, positive control, negative control)