move assumptions out of all of the examples
add row captions to highlight exceptions/assumptions
This is an example showing the report table, trial design, and results from the a study's in vitro bacterial reverse mutation test of Study #8325064. The bacterial reverse mutation test uses four using 4 different amino acid-requiring strains of Salmonella typhimurium (S. typhimurium) and one 1 strain of Escherichia coli (E. coli) to detect point mutations, which involve substitution, addition or deletion of one or a few DNA base pairs. The principle of this bacterial reverse mutation test is that it detects chemicals that induce mutations which revert mutations present in the S typhimurium and E. coli tester strains and restore the functional capability of the bacteria to synthesize an essential amino acid. The revertant bacteria are detected by their ability to grow in the absence of the amino acid required by the parent tester strain.
Image Removed
Assumption: When the experimental unit is derived from the species and strain, such as a cell line, then TESTSYS should be supplied.
In this example, the Trial Summary dataset, ts.xpt, includes many informational fields that may provide context at the study level, for Study 8325064. Also, TSGRPID has been used to link records (name, location, country) related to the test facility (TSGRPID = 1) and records related to the Test Site (TSGRPID = 2). The Study Director is associated with the Test Facility and the Principal Investigator is associated with the Test Site. Finally, the Primary Treatment CAS Registry Number is not known and this is recorded as an empty TSVAL and UNKNOWN in the corresponding TSVALNF.
.
| Expand |
|---|
| title | Report Table for Example Study 8325064 |
|---|
|
This table shows the assay results for study 8325064, test article TA1, and 3 strains of salmonella (TA98, TA100, and TA1535) at varying concentrations. For brevity, the remaining tables (e.g., additional strains, samples prepared without metabolic activation) are not included. For ease of reference in the table below, each row has been labeled in the right-hand margin with the applicant-defined trial set label (e.g., SetA). For brevity, only the four bolded sets are represented in the following example datasets.
 Image Added
 Image Added
|
This example Trial Summary (TS) dataset, shows many informational fields that provide context at the study level.
| Dataset wrap |
|---|
| Rowcaps |
|---|
| Rows 1-2: | Show 2 records for TSPARMCD = "GLPTYP", using TSSEQ to indicate multiple records, since both GLP types apply for this study. | | Row 3: | Shows that this study was conducted as a GLP study. | | Rows 4-5: | Show the study start date and study title. | | Rows 6-7: | Show the version of SEND Implementation Guide and version of Controlled Terminology used in this study. | | Row 8: | Shows the applicant's organization. | | Row 9: | Shows that the applicant's study reference ID is not applicable. | | Rows 10-13 |
|
|
| Dataset wrap |
|---|
| Rowcaps |
|---|
| Rows 1-2: | Show two records for TSPARMCD = "GLPTYP", using TSSEQ to indicate multiple records, since both GLP Types apply for this example study. | | Rows 9-12: | Show that TSGRPID has been used to link records (name, location, country) related to the test facility (TSGRPID=1). The Study Director study director is associated with the Test Facilitytest facility. | | Rows 1814-2416: | this example study includes two different species of bacteria and a total of five strains. TSGRPID (TSGRPID=4) has been used to link the information on the testing guideline followed on this study (TSTGDNAM, TSTGDORG, TSTGDVER). | | Shows the study type for this study. | | Shows that this study includes a Bacterial Reverse Mutation Assay. | | Rows 19-27Rows 18-22: | Show that TSGRPID (TSGRPID = 2) has been used to link the information for one 1 species (Salmonellasalmonella) with four the 4 different strains and cell lines that are tested in this example this study. | | Rows 2328-2430: | Show that TSGRPID (TSGRPID = 3) has been used to link the information for E. coli) with the strain and cell line that is tested in this |
|
| Dataset2 |
|---|
| ASSAYID | DOMAIN | TSSEQ | TSGRPID | TSPARMCD | TSPARM | TSVAL | TSVALNF |
|---|
| 1 | 8325064 |
Ames | TS | 1 |
| GLPTYP | Good Laboratory Practice Type | FDA |
| | 2 | 8325064 |
Ames | TS | 2 |
| GLPTYP | Good Laboratory Practice Type | OECD |
| | 3 | 8325064 |
Ames| TS | 1 |
| GLPFL | GLP Flag | N |
| | 4 | 8325064 | TS | 1 |
| STSTDTC | Study Start Date | 2015-07-29 |
4Ames | TS | 1 |
| STITLE | Study Title | The Bacterial Reverse Mutation Test, Study 8325064-1 |
5Ames | | TS | 1 |
| SNDIGVER | SEND Implementation Guide Version | TOBACCO IMPLEMENTATION GUIDE VERSION 1.0 |
6Ames | TS | 1 |
| SNDCTVER | SEND Controlled Terminology Version | SEND Terminology 2021-09-30 |
7Ames | SSPONSORSponsor Organization Sponsor 8Ames | SPREFIDSponsor| Applicant's Study Reference ID |
| NOT APPLICABLE |
9Ames | TS | 1 | 1 | TSTFNAM | Test Facility Name | Example Tox Lab Name |
10Ames | | TS | 1 | 1 | TSTFLOC | Test Facility Location | 10 Somewhere Street, Montgomery, AL 10000 |
11Ames | | TS | 1 | 1 | TFCNTRY | Test Facility Country | USA |
12Ames | TS | 1 | 1 | STDIR | Study Director | Dr. R. Smith |
13Ames | GLPFL | GLP Flag | N | | 4 | TSTGDNAM | Testing Guideline Name | Test NO. 471 |
| | 15 |
14Ames | ASTD | Assay Standard| 4 | TSTGDORG | Testing Guideline Organization | OECD |
Test No. 47115AmesASTDV | | 4 | TSTGDVER | Testing Guideline |
Assay Standard 16Ames | | TS | 1 |
| SSTYP | Study Type | GENOTOXICITY IN VITRO |
17AmesSSSTYP | Study Sub Type | Bacterial Reverse Mutation Test |
| | Genetic Toxicology Assay Identifier | |
| | 19 | 8325064 |
18 | 8325064 | AmesSalmonella19Ames | | TS | 1 | 2 | STRAIN | Strain/Substrain | TA98 |
20Ames | 1| 2 | 2 | STRAIN | Strain/Substrain | TA100 |
21Ames | 1| 3 | 2 | STRAIN | Strain/Substrain | TA1535 |
22Ames1| 4 | 2 | STRAIN | Strain/Substrain | TA1537 |
23Ames3SPECIESSpecies | Escherichia coli | 24 | 8325064 | Ames | TS | 1 | 3 | STRAIN | Strain | WP2 uvrA pKM101 | |
|
| Expand |
|---|
| title | Raw Data Table for Study 8325064 |
|---|
|
Image Removed Image Removed |
This example trial set dataset shows information about the test conditions for SetA and SetR in this example study. For brevity, this does not show information for SetF, SetG, or any other sets. A fully formed tx.xpt for this example study would include information about the test conditions for all sets.
| Cell Line | TA 98 hisD3052; rfa-; uvrB- |
| | 25 | 8325064 | TS | 2 | 2 | CELLLN | Cell Line | TA 100 hisG46; rfa-; uvrB- |
| | 26 | 8325064 | TS | 3 | 2 | CELLLN | Cell Line | TA 1535 hisG46; rfa-; uvrB- |
| | 27 | 8325064 | TS | 4 | 2 | CELLLN | Cell Line | TA 1537 hisC3076; rfa-; uvrB- |
| | 28 | 8325064 | TS | 2 | 3 | SPECIES | Species | |
| | 29 | 8325064 | TS | 5 | 3 | STRAIN | Strain/Substrain | WP2 uvrA pKM101 |
| | 30 | 8325064 | TS | 5 | 3 | CELLLN | Cell Line | trpE uvrA |
|
|
|
This example Trial Set (TX) dataset shows information about the test conditions for SetA and SetR in this study. For brevity, the dataset does not show information for SetF, SetG, or any other sets. A fully formed TX dataset for this example study would include information about the test conditions for all sets.
Note that there are three trial set parameters that link to other important datasets: SPTOBID, APDEVID, and SMKRGM.
- SPTOBID (Applicant-Defined Tobacco Product ID) is used to uniquely identify the tobacco product. The value of SPTOBID (e.g., CIG01a) matches the value for SPTOBID in all the TOPARMCD-TOVAL pairs in the Tobacco Product Identifiers and Descriptors (TO) dataset example in Section 3.1.2, Product Design Parameters and Conformance Testing, Example 1. The TOPARMCD-TOVAL pairs identify this unique product, CIG01a. The TO domain is described in Section 2.8.8.1, Tobacco Product Identifiers and Descriptors (TO).
- The value of APDEVID (e.g., PUFFMASTER3K) matches the value of SPDEVID in all the DIPARMCD-DIVAL pairs that identify this unique device in the DI dataset. SPDEVID is the applicant-defined device identifier that is used to uniquely identify the device in the Unique Device Identification (DI) dataset (see also Section 2.8.9.7, SEND Device Identifiers (DI)). This is shown in the DI dataset in Section 3.1.3.2, HPHCs, Other Constituents, and Smoking/Vaping Regimens, Example 1.
- SMKRGM serves as a link to the Device-In Use Properties (DU) domain (see also Section 2.8.9.8, SEND Device-In-Use (DU)), where a matching value of SMKRGM indicates parameters of the smoking regimen performed by the smoking machine, as in the DU dataset in Section 3.1.3.2, HPHCs, Other Constituents, and Smoking/Vaping Regimens, Example 2.
| Dataset wrap |
|---|
|
| Rowcaps |
|---|
| Rows 1-22: | Show trial set parameters and trial set values that are the test conditions specific to set SetA which is the vehicle control (i.e., Strain of TA98, vehicle control with concentration value of 0). SetA is associated with the first row, labeled "SetA", in the report table for example study 8325064. | | Rows 23-44: | Show trial set parameters and trial set values that comprise the test conditions for the set SetF which is the strain of TA98 with a concentration value of 500 µg/plate. SetF is associated with the sixth row, labeled "SetF", in the report table for example study 8325064. | | Rows 45-66: | Show trial set parameters and trial set values that comprise the test conditions for the set SetG which is the strain of TA98 with a concentration value of 1600 µg/plate. SetG is associated with the seventh row, labeled "SetG", in the report table for example study 8325064. | | Rows 67-88: | Show trial set parameters and trial set values that comprise the test conditions for the set SetR which is the strain of TA100, positive control with a concentration value of 2 µg/plate. SetR is associated with the eighteenth row, labeled "SetR", in the report table for example study 8325064. |
|
|
| Dataset wrap |
|---|
|
| Rowcaps |
|---|
| Rows 1-22: | Show trial set parameters and trial set values that comprise the test conditions for the set SetA. SetA is the data for the vehicle control (i.e., Strain of TA98, vehicle control with concentration value of 0). SetA is associated with the first row, labeled "SetA", in the table Raw Data for Study 8325064. | | Rows 23-44: | Show trial set parameters and trial set values that comprise the test conditions for the set SetR. SetR is the data for the vehicle control (i.e., Strain of TA100, positive control with a concentration value of 2). SetR is associated with the eighteenth row, labeled "SetR", in the table Raw Data for Study 8325064. | | Dataset2 |
|---|
| | Row | STUDYID | ASSAYID | DOMAIN | SETCD | SET | TXSEQ | TXPARMCD | TXPARM | TXVAL |
|---|
| 1 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 1 | SPECIES | Species | Salmonella typhimurium | | 2 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 2 | STRAIN | Strain/Substrain | TA98 | 3 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 3 | METACT | Metabolic Activation | | 4 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 4 | METACTFL | Y/N presence of metabolic activation | N | | 5 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 5 | TRTDMIN | Treatment Duration Minimum | 71.5 | | 6 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 6 | TRTDTRG | Treatment Duration Target | 72 | | 7 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 7 | TRTDMAX | Treatment Duration Maximum | 72.5 | | 8 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 8 | TRTDU | Treatment Duration Unit | HOURS | | 9 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 9 | INCBTMP | Incubation Temperature | 37 | | 10 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 10 | INCBTMPU | Incubation Temperature Unit | C | | 11 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 11 | HUMID | Atmospheric Relative Humidity Percent | 50 | | 12 | 8325064 | Ames | TX | SetA | A-TA98-C0 | 12 | ATMCO2 | Atmospheric CO2 Percent | 5 | 13 | 8325064 | Ames | | Row | STUDYID | DOMAIN | SETCD | SET | TXSEQ | TXPARMCD | TXPARM | TXVAL |
|---|
| 1 | 8325064 |
13SPTOBID | Sponsor defined tobacco identifier | CIG01a | | SPECIES | Species | SALMONELLA TYPHIMURIUM | | 2 |
14Ames | 14EXPTYP | Exposure Type (See TIG NC workstream minutes 30-Jan here: Nonclinical) | Submerged | | IVTDMIN | In vitro Treatment Duration Minimum | 71.5 | | 3 | 8325064 |
15 | 8325064 | Ames15SAMTYP | Sample Type | Total Particulate Matter in PBS | | IVTDTRG | In vitro Treatment Duration Target | 72 | | 4 |
16Ames | 16INTRVN | name of the intervention article | TA1 | | IVTDMAX | In vitro Treatment Duration Maximum | 72.5 | | 5 |
17Ames | 17ITVTYPE | type of intervention article | Vehicle Control | 18 | 8325064 | | IVTDU | In vitro Treatment Duration Unit | HOURS | | 6 | 8325064 |
Ames18ITVCONC | Concentration of intervention article | 0 | | INCBTMP | Incubation Temperature | 37 | | 7 |
19Ames | 19ITVCONCUConcentration | Incubation Temperature Unit |
ug/plate20Ames | 20TRTV | Treatment Vehicle | DMSO | 21 | 8325064 | | ATMRHP | Atmospheric Relative Humidity Percent | 50 | | 9 | 8325064 |
Ames21SPDEVID | Sponsor defined device identifier | PUFFMASTER3K | | ATMCO2P | Atmospheric CO2 Percent | 5 | | 10 | 8325064 |
22 | 8325064 | Ames22DUREFID | Smoke Regimen | Medium Intensity Regimen | | SPTOBID | Applicant-defined tobacco identifier | CIG01a | | 11 | 8325064 |
23 | 8325064 | AmesSetRRTA100C21SPECIESSpeciesSalmonella typhimurium24Ames | SetRRTA100C22STRAIN | Strain/Substrain | TA100 | | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 13 |
25Ames | SetRRTA100C23 | METACT | Metabolic Activation | 26 | 8325064 | | APDEVID | Applicant-defined device identifier | PUFFMASTER3K | | 14 | 8325064 |
AmesSetRRTA100C24METACTFL | Y/N presence of metabolic activation | N | | SMKRGM | Smoking Regimen | NON-INTENSE REGIMEN | | 15 |
27Ames | SetRRTA100C25TRTDMIN | Treatment Duration Minimum | 71.5 | | STRAIN | Strain/Substrain | TA98 | | 16 |
28Ames | SetRRTA100C26TRTDTRG | Treatment Duration Target | 72 | | MTACTIND | Metabolic Activating Agent Name | NOT APPLICABLE | | 17 |
29Ames | SetRRTA100C27TRTDMAX | Treatment Duration Maximum | 72.5 | | METACTFL | Presence of Metabolic Activation Flag | N | | 18 | 8325064 |
30 | 8325064 | AmesSetRRTA100C28TRTDU | Treatment Duration Unit | HOURS | | ITVNAM | Intervention Article Name | DMSO | | 19 | 8325064 |
31 | 8325064 | AmesSetRRTA100C29INCBTMP | Incubation Temperature | 37 | | ITVTYPE | Intervention Article Type | VEHICLE | | 20 |
32Ames | SetRRTA100C210INCBTMPU | Incubation Temperature Unit | C | 33 | 8325064 | | ITVCONC | Intervention Article Concentration | 100 | | 21 | 8325064 |
AmesSetRRTA100C211HUMID | Atmospheric Relative Humidity Percent | 50 | | ITVCONCU | Intervention Article Concentration Unit | % | | 22 | 8325064 |
34 | 8325064 | AmesSetRRTA100C212ATMCO2 | Atmospheric CO2 Percent | 5 | | 35 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 13 | SPTOBID | Sponsor defined tobacco identifier | CIG01a | | 36 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 14 | EXPTYP | Exposure Type (See TIG NC workstream minutes 30-Jan here: Nonclinical) | Submerged | | 37 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 15 | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 38 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 16 | INTRVN | name of the intervention article | TA1 | | 39 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 17 | ITVTYPE | type of intervention article | Positive Control | | 40 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 18 | ITVCONC | Concentration of intervention article | 2 | | 41 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 19 | ITVCONCU | Concentration Unit | ug/plate | | 42 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 20 | TRTV | Treatment Vehicle | DMSO | | 43 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 21 | SPDEVID | Sponsor defined device identifier | PUFFMASTER3K | | 44 | 8325064 | Ames | TX | SetR | R-TA100-C2 | 22 | DUREFID | Smoke Regimen | Medium Intensity Regimen | |
|
Observational Unit Identifiers (OBUIDs) are defined by the sponsor to uniquely identify the observational unit within an experimental unit. In this example the sponsor chose to define the EUIDs based on trial sets (e.g., F) and OBUIDs based on the position of the tube in one of multiple exposure/incubation plates (e.g, 6_1 for plate 6, position 1).
...
| Name | ou.xpt Observational and Experimentat Unit Identifiers |
|---|
...
| TRTV | Treatment Vehicle | DMSO | | 23 | 8325064 | TX | SetF | F-TA98-C500 | 23 | SPECIES | Species | SALMONELLA TYPHIMURIUM | | 24 | 8325064 | TX | SetF | F-TA98-C500 | 24 | IVTDMIN | In vitro Treatment Duration Minimum | 71.5 | | 25 | 8325064 | TX | SetF | F-TA98-C500 | 25 | IVTDTRG | In vitro Treatment Duration Target | 72 | | 26 | 8325064 | TX | SetF | F-TA98-C500 | 26 | IVTDMAX | In vitro Treatment Duration Maximum | 72.5 | | 27 | 8325064 | TX | SetF | F-TA98-C500 | 27 | IVTDU | In vitro Treatment Duration Unit | HOURS | | 28 | 8325064 | TX | SetF | F-TA98-C500 | 28 | INCBTMP | Incubation Temperature | 37 | | 29 | 8325064 | TX | SetF | F-TA98-C500 | 29 | INCBTMPU | Incubation Temperature Unit | C | | 30 | 8325064 | TX | SetF | F-TA98-C500 | 30 | ATMRHP | Atmospheric Relative Humidity Percent | 50 | | 31 | 8325064 | TX | SetF | F-TA98-C500 | 31 | ATMCO2P | Atmospheric CO2 Percent | 5 | | 32 | 8325064 | TX | SetF | F-TA98-C500 | 32 | SPTOBID | Applicant-defined tobacco identifier | CIG01a | | 33 | 8325064 | TX | SetF | F-TA98-C500 | 33 | EXPTYP | | Submerged | | 34 | 8325064 | TX | SetF | F-TA98-C500 | 34 | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 35 | 8325064 | TX | SetF | F-TA98-C500 | 35 | APDEVID | Applicant-defined device identifier | PUFFMASTER3K | | 36 | 8325064 | TX | SetF | F-TA98-C500 | 36 | SMKRGM | Smoking Regimen | NON-INTENSE REGIMEN | | 37 | 8325064 | TX | SetF | F-TA98-C500 | 37 | STRAIN | Strain/Substrain | TA98 | | 38 | 8325064 | TX | SetF | F-TA98-C500 | 38 | MTACTIND | Metabolic Activating Agent Name | NOT APPLICABLE | | 39 | 8325064 | TX | SetF | F-TA98-C500 | 39 | METACTFL | Presence of Metabolic Activation Flag | N | | 40 | 8325064 | TX | SetF | F-TA98-C500 | 40 | ITVNAM | Intervention Article Name | TA1 | | 41 | 8325064 | TX | SetF | F-TA98-C500 | 41 | ITVTYPE | Intervention Article Type | PRODUCT | | 42 | 8325064 | TX | SetF | F-TA98-C500 | 42 | ITVCONC | Intervention Article Concentration | 500 | | 43 | 8325064 | TX | SetF | F-TA98-C500 | 43 | ITVCONCU | Intervention Article Concentration Unit | ug/plate | | 44 | 8325064 | TX | SetF | F-TA98-C500 | 44 | TRTV | Treatment Vehicle | DMSO | | 45 | 8325064 | TX | SetG | G-TA98-C1600 | 45 | SPECIES | Species | SALMONELLA TYPHIMURIUM | | 46 | 8325064 | TX | SetG | G-TA98-C1600 | 46 | IVTDMIN | In vitro Treatment Duration Minimum | 71.5 | | 47 | 8325064 | TX | SetG | G-TA98-C1600 | 47 | IVTDTRG | In vitro Treatment Duration Target | 72 | | 48 | 8325064 | TX | SetG | G-TA98-C1600 | 48 | IVTDMAX | In vitro Treatment Duration Maximum | 72.5 | | 49 | 8325064 | TX | SetG | G-TA98-C1600 | 49 | IVTDU | In vitro Treatment Duration Unit | HOURS | | 50 | 8325064 | TX | SetG | G-TA98-C1600 | 50 | INCBTMP | Incubation Temperature | 37 | | 51 | 8325064 | TX | SetG | G-TA98-C1600 | 51 | INCBTMPU | Incubation Temperature Unit | C | | 52 | 8325064 | TX | SetG | G-TA98-C1600 | 52 | ATMRHP | Atmospheric Relative Humidity Percent | 50 | | 53 | 8325064 | TX | SetG | G-TA98-C1600 | 53 | ATMCO2P | Atmospheric CO2 Percent | 5 | | 54 | 8325064 | TX | SetG | G-TA98-C1600 | 54 | SPTOBID | Applicant-defined tobacco identifier | CIG01a | | 55 | 8325064 | TX | SetG | G-TA98-C1600 | 55 | EXPTYP | | Submerged | | 56 | 8325064 | TX | SetG | G-TA98-C1600 | 56 | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 57 | 8325064 | TX | SetG | G-TA98-C1600 | 57 | APDEVID | Applicant-defined device identifier | PUFFMASTER3K | | 58 | 8325064 | TX | SetG | G-TA98-C1600 | 58 | SMKRGM | Smoking Regimen | NON-INTENSE REGIMEN | | 59 | 8325064 | TX | SetG | G-TA98-C1600 | 59 | STRAIN | Strain/Substrain | TA98 | | 60 | 8325064 | TX | SetG | G-TA98-C1600 | 60 | MTACTIND | Metabolic Activating Agent Name | NOT APPLICABLE | | 61 | 8325064 | TX | SetG | G-TA98-C1600 | 61 | METACTFL | Presence of Metabolic Activation Flag | N | | 62 | 8325064 | TX | SetG | G-TA98-C1600 | 62 | ITVNAM | Intervention Article Name | TA1 | | 63 | 8325064 | TX | SetG | G-TA98-C1600 | 63 | ITVTYPE | Intervention Article Type | Product | | 64 | 8325064 | TX | SetG | G-TA98-C1600 | 64 | ITVCONC | Intervention Article Concentration | 1600 | | 65 | 8325064 | TX | SetG | G-TA98-C1600 | 65 | ITVCONCU | Intervention Article Concentration Unit | ug/plate | | 66 | 8325064 | TX | SetG | G-TA98-C1600 | 66 | TRTV | Treatment Vehicle | DMSO | | 67 | 8325064 | TX | SetR | R-TA100-C2 | 67 | SPECIES | Species | SALMONELLA TYPHIMURIUM | | 68 | 8325064 | TX | SetR | R-TA100-C2 | 68 | IVTDMIN | In vitro Treatment Duration Minimum | 71.5 | | 69 | 8325064 | TX | SetR | R-TA100-C2 | 69 | IVTDTRG | In vitro Treatment Duration Target | 72 | | 70 | 8325064 | TX | SetR | R-TA100-C2 | 70 | IVTDMAX | In vitro Treatment Duration Maximum | 72.5 | | 71 | 8325064 | TX | SetR | R-TA100-C2 | 71 | IVTDU | In vitro Treatment Duration Unit | HOURS | | 72 | 8325064 | TX | SetR | R-TA100-C2 | 72 | INCBTMP | Incubation Temperature | 37 | | 73 | 8325064 | TX | SetR | R-TA100-C2 | 73 | INCBTMPU | Incubation Temperature Unit | C | | 74 | 8325064 | TX | SetR | R-TA100-C2 | 74 | ATMRHP | Atmospheric Relative Humidity Percent | 50 | | 75 | 8325064 | TX | SetR | R-TA100-C2 | 75 | ATMCO2P | Atmospheric CO2 Percent | 5 | | 76 | 8325064 | TX | SetR | R-TA100-C2 | 76 | SPTOBID | Applicant-defined tobacco identifier | CIG01a | | 77 | 8325064 | TX | SetR | R-TA100-C2 | 77 | EXPTYP | | Submerged | | 78 | 8325064 | TX | SetR | R-TA100-C2 | 78 | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 79 | 8325064 | TX | SetR | R-TA100-C2 | 79 | APDEVID | Applicant-defined device identifier | PUFFMASTER3K | | 80 | 8325064 | TX | SetR | R-TA100-C2 | 80 | SMKRGM | Smoking Regimen | NON-INTENSE REGIMEN | | 81 | 8325064 | TX | SetR | R-TA100-C2 | 81 | STRAIN | Strain/Substrain | TA100 | | 82 | 8325064 | TX | SetR | R-TA100-C2 | 82 | MTACTIND | Metabolic Activating Agent Name | NOT APPLICABLE | | 83 | 8325064 | TX | SetR | R-TA100-C2 | 83 | METACTFL | Presence of Metabolic Activation Flag | N | | 84 | 8325064 | TX | SetR | R-TA100-C2 | 84 | ITVNAM | Intervention Article Name | NaN3 | | 85 | 8325064 | TX | SetR | R-TA100-C2 | 85 | ITVTYPE | Intervention Article Type | Positive Control | | 86 | 8325064 | TX | SetR | R-TA100-C2 | 86 | ITVCONC | Intervention Article Concentration | 2 | | 87 | 8325064 | TX | SetR | R-TA100-C2 | 87 | ITVCONCU | Intervention Article Concentration Unit | ug/plate | | 88 | 8325064 | TX | SetR | R-TA100-C2 | 88 | TRTV | Treatment Vehicle | DMSO |
|
|
REFID values are defined by the applicant to uniquely identify the observational unit within an experimental unit. In the simplified diagram of an assay procedure (below), the test tube that contains the possible mutagen is an example of an entity that would have a REFID indicating information at the level of trial set. The petri plate created from that test tube and used to count revertant numbers is an example of an entity that would be at an observational level.
This picture does not depict the more complicated procedures, trial sets, or observational units for the example study. For study 8325064, the applicant chose to define the REFIDs at the trial set level with a single character (e.g., A, F, G, R) and chose to define REFIDs at the observational level based on the location of each tube in 1 of multiple exposure/incubation plates (e.g, 6_1 for plate 6, position 1).
Image Added
| Dataset wrap |
|---|
|
| Rowcaps |
|---|
| Row 1: | Shows the value of REFID=A. This REFID refers to the trial set with a SETCD of "SetA", as defined in the TX dataset. LEVEL=1 and LVLDESC="EXPERIMENTAL UNIT/TRIAL SET". TRIAL SET indicates this identifier relates to the entire trial set. EXPERIMENTAL UNIT indicates this identifier received the intervention article, DMSO. | | Rows 2-6: | Show the values of 5 observational units (1_1 through 1_5) that are within the parent experimental unit, REFID=A. | | Row 7: | Shows the value of REFID=F. This REFID refers to the trial set with a SETCD of "SetF", as defined in the TX dataset. LEVEL=1 and LVLDESC="EXPERIMENTAL UNIT/TRIAL SET". TRIAL SET indicates this identifier relates to the entire trial set. EXPERIMENTAL UNIT indicates this identifier received the intervention article, TA1. | | Rows 8-10: | Show the values of 3 observational units (6_1 through 6_3) that are within the parent experimental unit, REFID=F. | | Row 11: | Shows the value of REFID=G. This REFID refers to the trial set with a SETCD of "SetG", as defined in the TX dataset. LEVEL=1 and LVLDESC="EXPERIMENTAL UNIT/TRIAL SET". TRIAL SET indicates this identifier relates to the entire trial set. EXPERIMENTAL UNIT indicates this identifier received the intervention article, TA1. | | Rows 12-14: | Show the values of 3 observational units (7_1 through 7_3) that are within the parent experimental unit, REFID=G. | | Row 15: | Shows the value of REFID=R. This REFID refers to the trial set with a SETCD of "SetG", as defined in the TX dataset. LEVEL=1 and LVLDESC="EXPERIMENTAL UNIT/TRIAL SET". TRIAL SET indicates this identifier relates to the entire trial set. EXPERIMENTAL UNIT indicates this identifier received the intervention article, NaN3. | | Rows 16-18: | Show the values of 3 observational units (18_1 through 18_3) that are within the parent experimental unit, REFID=R. |
|
| Dataset2 |
|---|
| Row | STUDYID | SETCD | REFID | PARENT | LEVEL | LVLDESC |
|---|
1 | 8325064 | SetA | A |
| 1 | EXPERIMENTAL UNIT/TRIAL SET |
|---|
2 | 8325064 | SetA | 1_1 | A | 2 | OBSERVATIONAL UNIT |
|---|
3 | 8325064 | SetA | 1_2 | A | 2 | OBSERVATIONAL UNIT |
|---|
4 | 8325064 | SetA | 1_3 | A | 2 | OBSERVATIONAL UNIT |
|---|
5 | 8325064 | SetA | 1_4 | A | 2 | OBSERVATIONAL UNIT |
|---|
6 | 8325064 | SetA | 1_5 | A | 2 | OBSERVATIONAL UNIT |
|---|
7 | 8325064 | SetF | F |
| 1 | EXPERIMENTAL UNIT/TRIAL SET |
|---|
8 | 8325064 | SetF | 6_1 | F | 2 | OBSERVATIONAL UNIT |
|---|
9 | 8325064 | SetF | 6_2 | F | 2 | OBSERVATIONAL UNIT |
|---|
10 | 8325064 | SetF | 6_3 | F | 2 | OBSERVATIONAL UNIT |
|---|
11 | 8325064 | SetG | G |
| 1 | EXPERIMENTAL UNIT/TRIAL SET |
|---|
12 | 8325064 | SetG | 7_1 | G | 2 | OBSERVATIONAL UNIT |
|---|
13 | 8325064 | SetG | 7_2 | G | 2 | OBSERVATIONAL UNIT |
|---|
| 14 | 8325064 | SetG | 7_3 | G | 2 | OBSERVATIONAL UNIT | | 15 | 8325064 | SetR | R |
| 1 | EXPERIMENTAL UNIT/TRIAL SET | | 16 | 8325064 | SetR | 18_1 | R | 2 | OBSERVATIONAL UNIT | | 17 | 8325064 | SetR | 18_2 | R | 2 | OBSERVATIONAL UNIT | | 18 | 8325064 | SetR | 18_3 | R | 2 | OBSERVATIONAL UNIT |
|
|
| Dataset wrap |
|---|
|
| Rowcaps |
|---|
| Rows 1-5: | Show the number of revertant colonies per plate collected for each of 5 observational units, GTREFID=1_1 through 1_5 (see description in the RELREF dataset). | | Rows 6, 7: | Show summary values collected (mean, standard deviation) for GTREFID=A that apply to the entire trial set, SetA, as indicated by LEVEL=1 and LVLDESC=TRIAL SET for this REFID as shown in the RELREF dataset. | | Rows 8-13: | Revertent colonies were counted for each of 3 plates/observational units (GTREFID=6_1 through 6_3) and each value is associated with a record to show a postfix code of "V" (Very thin background bacterial lawn). | | Rows 14-16: | Show summary values collected (mean, standard deviation, fold increase) for GTREFID=F that apply to the entire trial set, SetF, as indicated by LEVEL=1 and LVLDESC=TRIAL SET for this REFID in the RELREF dataset. | | Rows 17-19: | Show 3 plates/observational units (GTREFID=7_1 through 7_3) where no revertant colonies were counted due to too much cytotoxicity and a postfix code of "T". | Jira |
|---|
| showSummary | false |
|---|
| server | Issue Tracker (JIRA) |
|---|
| columnIds | issuekey,summary,issuetype,created,updated,duedate,assignee,reporter,priority,status,resolution |
|---|
| columns | key,summary,type,created,updated,due,assignee,reporter,priority,status,resolution |
|---|
| serverId | 85506ce4-3cb3-3d91-85ee-f633aaaf4a45 |
|---|
| key | TOBA-668 |
|---|
|
| | Rows 20-22: | Show the number of revertant colonies per plate collected for each of 3 observational units (GTREFID=18_1 through 18_3). | | Rows 23-25: | Show summary values collected (mean, standard deviation, fold increase) for GTREFID=R that apply to the entire trial set, SetR, as indicated by LEVEL=1 and LVLDESC=TRIAL SET for this REFID in the RELREF dataset. |
|
| Dataset2 |
|---|
| Row | STUDYID | DOMAIN | GTSEQ | GTREFID | GTTESTCD | GTTEST | GTORRES | GTORRESU | GTCOLSRT |
|---|
|
|
| Dataset2 |
|---|
|
| Row | STUDYID | ASSAYID | DOMAIN | SETCD | EUID | OBUID |
|---|
| 1 | 8325064 | Ames | OU | SetA | A | 0_1 | | 2 | 8325064 | Ames | OU | SetA | A | 0_2 | | 3 | 8325064 | Ames | OU | SetA | A | 0_3 | | 4 | 8325064 | Ames | OU | SetA | A | 0_4 | | 5 | 8325064 | Ames | OU | SetA | A | 0_5 | 6 | 8325064 | Ames | OU | SetF | F | 6_1 | | 7 | 8325064 | Ames | OU | SetF | F | 6_2 | | 8 | 8325064 | Ames | OU | SetF | F | 6_3 | | 9 | 8325064 | Ames | OU | SetG | G | 7_1 | | 10 | 8325064 | Ames | OU | SetG | G | 7_2 | | 11 | 8325064 | Ames | OU | SetG | G | 7_3 | | 12 | 8325064 | Ames | OU | SetR | R | 18_1 | | 13 | 8325064 | Ames | OU | SetR | R | 18_2 | | 14 | 8325064 | Ames | OU | SetR | R | 18_3 |
|
| Expand |
|---|
| title | Raw Data Table for Study 8325064 |
|---|
|
Image Removed  Image Removed
|
| Dataset wrap |
|---|
|
| Rowcaps |
|---|
| Rows 1-7: | Show values collected for the set, SetA. | | Rows 8-16: | Shows values collected for the set, SetF. Revertent colonies were counted and each value is associated with a record to show a postfix of code of "V". | | Rows 17-19: | Shows values collected for the set, SetG. Each record for this EUID shows the postfix code of "T". No revertent colonies were counted and there are no summary values collected. | | Rows 20-25: | Shows values collected for the set, SetR. | | Rows 6,7,14,15,16, 23,24,25: | Show summary values collected (e.g., MEAN, STANDARD DEVIATION, and/or FOLD INCREASE) that apply to all of the observational units within the experimental unit, as shown by OBUID = "ALL". | | Dataset2 |
|---|
| Row | STUDYID | ASSAYID | DOMAIN | TXSETCD | EUID | OUID | GTSEQ | GTTESTCD | GTTEST | GTORRES | GTORRESU | GTCOLSRT (coll. summ. result type) | GTSTRESC | GTSTRESN | GTSTRESU | GTSTAT | GTREASND | GTMETHOD | GTDTC |
|---|
| 1 | 8325064 |
AmesSETA 0A | 1 | | RPP | Revertant Colony Numbers Per Plate | 26 |
COLONIES | COLONIES | |
|
| INSTRUMENT COUNTED | 2015-08-03 | | 2 | 8325064 |
Ames | SETA 0A | 2| 2 | RPP | Revertant Colony Numbers Per Plate | 35 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 3 | 8325064 |
Ames | SETA 0A | 3 | | RPP | Revertant Colony Numbers Per Plate | 39 |
COLONIESCOLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 4 | 8325064 |
Ames | SETA 0A | 4 | | RPP | Revertant Colony Numbers Per Plate | 35 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 5 | 8325064 |
AmesSETA 0A | 5| 5 | RPP | Revertant Colony Numbers Per Plate | 30 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 6 | 8325064 |
AmesSETA ALL | 6 | | RPP | Revertant Colony Numbers Per Plate | 33.0 |
COLONIES | COLONIESAmes | SETA ALL | 7 | | RPP | Revertant Colony Numbers Per Plate | 5.0 |
COLONIESCOLONIES | Ames | FSETF | 1 | | RPP | Revertant Colony Numbers Per Plate | 8 |
COLONIES | COLONIES |
|
|
| MANUALLY COUNTED | 2015-08-03 | | 9 | 8325064 |
AmesSETFF | 2 | | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
|
| V |
|
|
|
|
| 2015-08-03 | | 10 | 8325064 |
AmesSETF F | 3 | | RPP | Revertant Colony Numbers Per Plate | 10 |
COLONIESCOLONIES |
|
|
| MANUALLY COUNTED | 2015-08-03 | | 11 | 8325064 |
Ames | SETFF | 2| 2 | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
|
| V |
|
|
|
|
| 2015-08-03 | | 12 | 8325064 |
AmesFSETF | 4 | | RPP | Revertant Colony Numbers Per Plate | 12 |
COLONIES | COLONIES |
|
|
| MANUALLY COUNTED | 2015-08-03 | | 13 | 8325064 |
Ames | FSETF | 2 | | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
|
| V |
|
|
|
|
| 2015-08-03 | | 14 | 8325064 |
Ames | SETFALL | 5 of Revertant Numbers | Rev Colony Num Per Plate | 10.0 |
COLONIESCOLONIES | Ames | SETF ALL | 6Standard Deviation of Revertant Numbers | Std Dev Rev Colony Num Per Plate | 2.0 |
COLONIES | COLONIES | AmesSETF ALL7 | RPPFDINC | of Revertant Numbers | Rev Colony Num Per Plate | 0.3 |
COLONIESCOLONIES | Ames | SETG5G | 1| 1 | CYTOTOX | Cytotoxicity | Toxic No |
Revertant Revertant Colonies |
|
| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 18 | 8325064 |
Ames | SETG5G | 2 | | CYTOTOX | Cytotoxicity | Toxic No |
Revertant | Revertant Colonies |
|
| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 19 | 8325064 |
AmesSETG5G | 3 | | CYTOTOX | Cytotoxicity | Toxic No |
Revertant | Revertant Colonies |
|
| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 20 | 8325064 |
Ames | SETRR | 1| 1 | RPP | Revertant Colony Numbers Per Plate | 812 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 21 | 8325064 |
Ames | RSETR | 2 | | RPP | Revertant Colony Numbers Per Plate | 912 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 22 | 8325064 |
AmesRSETR | 3 | | RPP | Revertant Colony Numbers Per Plate | 839 |
COLONIES | COLONIES |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 23 | 8325064 |
Ames | SETRALL4 | of Revertant Numbers | Rev Colony Num Per Plate | 854.3 |
COLONIESCOLONIES | Ames | SETRALL5 | Standard Deviation of Revertant Numbers | Std Dev Rev Colony Num Per Plate | 51.7 |
COLONIES |
| STANDARD DEVIATION | 51.7 | 51.7 |
COLONIES | AmesSETRALL6 | RPPFLDINC | of Revertant Numbers | Rev Colony Num Per Plate | 6.4 |
COLONIES | COLONIES |
|