This is an example showing the report table, trial design, and results from the a study's in vitro bacterial reverse mutation test of an example study, Study #8325064. This 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. jira
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| showSummary | false |
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| server | Issue Tracker (JIRA) |
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| serverId | 85506ce4-3cb3-3d91-85ee-f633aaaf4a45 |
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| key | TOBA-129 |
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| title | Report Table for Example Study 8325064 |
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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.
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This example Trial Summary (TS) dataset, shows many informational fields that provide context at the study level.
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| 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 |
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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.
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| title | Report Table for Example Study 8325064 |
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This table shows the assay results for Study 8325064, Test Article TA1, and three strains of Salmonella (TA98, TA100, and TA1535) at varying concentrations. For ease of reference, each row has been labeled in the right hand margin with the sponsor defined trial set label (e.g., SetA). For brevity, the remaining tables (e.g., additional strains, samples prepared without metabolic activation, etc.) are not included. Image Removed Image Removed |
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| Rows 1-2: | Show two records for TSPARMCD = "GLPTYP", using TSSEQ to indicate multiple records, since both GLP Types apply for this example study. | | Row 8: | Shows that the sponsor's study reference ID is not applicable. | | Rows 910-1213: | 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 |
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| GNTXAID | DOMAIN | TSSEQ | TSGRPID | TSPARMCD | TSPARM | TSVAL | TSVALNF |
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| 1 | 8325064 |
Ames | | TS | 1 |
| GLPTYP | Good Laboratory Practice Type | FDA |
| | 2 | 8325064 |
Ames | | TS | 2 |
| GLPTYP | Good Laboratory Practice Type | OECD |
| | 3 | 8325064 |
| TS | 1 |
| GLPFL | GLP Flag | N |
| | 4 | 8325064 |
Ames | 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 |
10AmesTS | | 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 |
13AmesGLPFL | GLP Flag | N | 14 | 8325064 | Ames | TS | 1 | | 4 | TSTGDNAM | Testing Guideline Name |
OECD TEST Ames | | TS | 1 | 4 | TSTGDORG | Testing Guideline Organization |
Organisation for Economic Co-operation and DevelopmentAmes | | TS | 1 | 4 | TSTGDVER | Testing Guideline Version | 2020-06-29 |
| | 17 | 8325064 |
Ames | | TS | 1 |
| SSTYP | Study Type | GENOTOXICITY IN VITRO |
| | 18 | 8325064 |
Ames | SSSTYP | Study Sub Type | BACTERIAL REVERSE MUTATION TEST
| | Genetic Toxicology Assay Identifier | |
| | 19 | 8325064 |
Ames | jira20 | 8325064 | Ames | TS | | showSummary | false |
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| server | Issue Tracker (JIRA) |
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| serverId | 85506ce4-3cb3-3d91-85ee-f633aaaf4a45 |
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| key | TOBA-123 |
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| | 1 | 2 | STRAIN | Strain/Substrain | TA98 |
| | 21 | 8325064 |
Ames | 1| 2 | 2 | STRAIN | Strain/Substrain | TA100 |
| | 22 | 8325064 |
Ames | 1| 3 | 2 | STRAIN | Strain/Substrain | TA1535 |
| | 23 | 8325064 |
Ames1| 4 | 2 | STRAIN | Strain/Substrain | TA1537 |
| | 24 | 8325064 |
Ames | 3SPECIESSpecies | Escherichia coli| Cell Line | TA 98 hisD3052; rfa-; uvrB- |
| | 25 | 8325064 |
Ames | 13STRAIN | Strain/Substrain | WP2 uvrA pKM101 | |
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This example trial set dataset, tx.xpt, 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.
| 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 |
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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.
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| 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. |
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| Rows 1-14: | Show trial set, SetSTM, with trial set parameters and trial set values that comprise the test conditions for all data for the species Salmonella Typhimurium. | | Rows 15-22: | 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 report table for example study 8325064. | | Rows 23-30: | Show trial set parameters and trial set values that comprise the test conditions for the set SetF. SetF is the data for 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 31-38: | Show trial set parameters and trial set values that comprise the test conditions for the set SetG. SetG is the data for 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 39-46: | Show trial set parameters and trial set values that comprise the test conditions for the set SetR. SetR is the data for 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. | | Row 10: | Shows a value for SPTOBID=CIG01a. SPTOBID is Sponsor-Defined Tobacco Product ID that is used to uniquely identify the tobacco product. The value of SPTOBID, in this case 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 the Section 2.8.8.1 Tobacco Product Identifiers and Descriptors (TO). | | Row 13: | Show a value for SPDEVID. SPDEVID is the Sponsor defined device identifier that is used to uniquely identify the device in the Unique Device Identification (DI) dataset. The value of SPDEVID, in this case PUFFMASTER3K, matches the value of SPDEVID in all the DIPARMCD-DIVAL pairs that identify this unique device in the DI dataset. This is shown in the di.xpt in SDTM Example.Product HPHC ENDS Testing. The DI domain is described in the Section 2.8.9.7 Device Identifiers (DI). | | Rows 14: | Show a value for DUREFID. DUREFID serves as a link to the Device-In Use Properties (DU) domain, where a matching value of DUREFID indicates parameters of the smoking regimen performed by the smoking machine, as in the du.xpt in SDTM Example.Product HPHC ENDS Testing. The DU domain is described in the Section 2.8.9.8 Device-In-Use (DU). | | Dataset2 |
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| Row | STUDYID | GNTXAID | | DOMAIN | SETCD | SET | TXSEQ | TXPARMCD | TXPARM | TXVAL |
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| 1 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUM | 1 | SPECIES | Species | SALMONELLA TYPHIMURIUM | | 2 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUMTRTDMIN| IVTDMIN | In vitro Treatment Duration Minimum | 71.5 | | 3 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUMTRTDTRG| IVTDTRG | In vitro Treatment Duration Target | 72 | | 4 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUMTRTDMAX| IVTDMAX | In vitro Treatment Duration Maximum | 72.5 | | 5 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUMTRTDU| IVTDU | In vitro Treatment Duration Unit | HOURS | | 6 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUM | 6 | INCBTMP | Incubation Temperature | 37 | | 7 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUM | 7 | INCBTMPU | Incubation Temperature Unit | C | | 8 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUMHUMID| ATMRHP | Atmospheric Relative Humidity Percent | 50 | | 9 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUMATMCO2| ATMCO2P | Atmospheric CO2 Percent | 5 | | 10 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUMSponsor Applicant-defined tobacco identifier | CIG01a | | 11 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUM | 11 | EXPTYP | | Submerged | | 12 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUM | 12 | SAMTYP | Sample Type | Total Particulate Matter in PBS | | 13 | 8325064 |
AmesSetSTM | SALMONELLA TYPHIMURIUMSPDEVIDSponsor | Applicant-defined device identifier | PUFFMASTER3K | | 14 | 8325064 |
Ames | SetSTM | SALMONELLA TYPHIMURIUMDUREFIDSmoke | Smoking Regimen | NON-INTENSE REGIMEN | | 15 | 8325064 |
Ames | | TX | SetA | A-TA98-C0 | 15 | STRAIN | Strain/Substrain | TA98 | | 16 | 8325064 |
Ames | METACT Activation| Activating Agent Name | NOT APPLICABLE | | 17 | 8325064 |
Ames | TX | SetA | A-TA98-C0 | 17 | METACTFL |
Y/N presence of metabolic activation| Presence of Metabolic Activation Flag | N | | 18 | 8325064 |
Ames | INTRVNName of the intervention article | Intervention Article Name | DMSO |
TA1Ames | TX | SetA | A-TA98-C0 | 19 | ITVTYPE | Intervention Article Type |
of intervention articleVehicle ControlAmes | TX | SetA | A-TA98-C0 | 20 | ITVCONC | Intervention Article Concentration |
of intervention article0Ames | TX | SetA | A-TA98-C0 | 21 | ITVCONCU | Intervention Article Concentration Unit |
ug/plateAmes | | TX | SetA | A-TA98-C0 | 22 | TRTV | Treatment Vehicle | DMSO | | 23 | 8325064 |
Ames | STRAINStrain/Substrain | | Species | SALMONELLA TYPHIMURIUM |
TA98Ames | METACT | Metabolic Activation | | IVTDMIN | In vitro Treatment Duration Minimum | 71.5 |
NOT APPLICABLEAmesMETACTFL | Y/N presence of metabolic activation | | IVTDTRG | In vitro Treatment Duration Target | 72 |
NAmes | INTRVN | Name of the intervention article | | IVTDMAX | In vitro Treatment Duration Maximum | 72.5 |
TA1Ames | ITVTYPE | Type of intervention article | | IVTDU | In vitro Treatment Duration Unit | HOURS |
ProductAmes | ITVCONC | Concentration of intervention article | | INCBTMP | Incubation Temperature | 37 |
500Ames | ITVCONCUConcentration | Incubation Temperature Unit |
ug/plateAmesTRTV | Treatment Vehicle | | ATMRHP | Atmospheric Relative Humidity Percent | 50 |
DMSOAmes | SetGGC1600STRAIN | Strain/Substrain | | ATMCO2P | Atmospheric CO2 Percent | 5 |
TA98Ames | SetGGC1600METACT | Metabolic Activation | | SPTOBID | Applicant-defined tobacco identifier | CIG01a |
NOT APPLICABLEAmes | SetGGC1600METACTFL | Y/N presence of metabolic activation | NAmes | SetGGC1600INTRVN | Name of the intervention article | | SAMTYP | Sample Type | Total Particulate Matter in PBS |
TA1AmesSetGGC1600ITVTYPE | Type of intervention article | | APDEVID | Applicant-defined device identifier | PUFFMASTER3K |
ProductAmes | SetGGC1600ITVCONC | Concentration of intervention article | | SMKRGM | Smoking Regimen | NON-INTENSE REGIMEN |
1600Ames | SetGGC1600ITVCONCU | Concentration Unit | | STRAIN | Strain/Substrain | TA98 |
ug/plateAmes | SetGGC1600TRTV | Treatment Vehicle | | MTACTIND | Metabolic Activating Agent Name | NOT APPLICABLE |
DMSOAmes | SetRRTA100C2STRAIN | Strain/Substrain | | METACTFL | Presence of Metabolic Activation Flag | N |
TA100AmesSetRRTA100C2METACT | Metabolic Activation | | ITVNAM | Intervention Article Name | TA1 |
NOT APPLICABLEAmesSetRRTA100C2METACTFL | Y/N presence of metabolic activation | | ITVTYPE | Intervention Article Type | PRODUCT |
NAmes | SetRRTA100C2INTRVN | name of the intervention article | | ITVCONC | Intervention Article Concentration | 500 |
NaN3Ames | SetRRTA100C2ITVTYPE | type of intervention article | | ITVCONCU | Intervention Article Concentration Unit | ug/plate |
Positive ControlAmesSetRRTA100C2ITVCONC | Concentration of intervention article | | TRTV | Treatment Vehicle | DMSO |
2AmesSetRRTA100C2ITVCONCUConcentration Unit | | Species | SALMONELLA TYPHIMURIUM |
ug/plateAmes | SetRRTA100C2TRTVTreatment Vehicle | DMSO | |
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REFID values are defined by the applicant to uniquely identify the observational unit within an experimental unit. In the simplified picture of an assay (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 our example study, 8325064. 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 one of multiple exposure/incubation plates (e.g, 6_1 for plate 6, position 1).
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| 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 |
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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).
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| Row 1: | Shows the value of REFID=STM, This REFID refers to the trial set with a SETCD of 'SetSTM', as defined in the trial set dataset, tx.xpt. LEVEL=1 and LVLDESC='TRIAL SET' indicates this identifier relates to the entire trial set. | | Row 1,2,8,12,16: | Shows that the trial set, SetSTM, is the parent of set codes SetA, SetF, SetG, and SetR. | | Row 2: | Shows the value of REFID=A . This REFID refers to the trial set with a SETCD of "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 32-76: | Show the values of five 5 observational units (1_1 through 1_5) that are within the parent experimental unit, REFID=A. | | Row 87: | Shows the value of REFID=F, . This REFID refers to the trial set with a SETCD of '"SetF'", as defined in the trial set TX dataset, tx. xpt. LEVEL=2 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 98-1110: | Show the values of three 3 observational units (6_1 through 6_3) that are within the parent experimental unit, REFID=F. | | Row 1211: | Shows the value of REFID=G, . This REFID refers to the trial set with a SETCD of '"SetG'", as defined in the trial set dataset, tx.xpt. TX dataset. LEVEL=2 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 1312-1514: | Show the values of three 3 observational units (7_1 through 7_3) that are within the parent experimental unit, REFID=G. | | Row 1615: | Shows the value of REFID=R. This REFID refers to the trial set with a SETCD of '"SetG'", as defined in the trial set TX dataset, tx. xpt. LEVEL=2 1 and LVLDESC='TRIAL SET' "EXPERIMENTAL UNIT/TRIAL SET". TRIAL SET indicates this identifier relates to the entire trial set. EXPERIMENTAL UNIT indicates this identifier relates to the entire trial setreceived the intervention article, NaN3. | | Rows 1716-1918: | three 3 observational units (18_1 through 18_3) that are within the parent experimental unit, REFID=R. |
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| Dataset2 |
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| Row | STUDYID |
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GNTXAID | SETCD | REFID | PARENT | LEVEL | LVLDESC |
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1 | 8325064 |
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AmesSetA | SetSTMA | STM |
| 1 | EXPERIMENTAL UNIT/TRIAL SET | 2 | 8325064 |
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Ames | 3 | 8325064 | Ames | SetA | SetA | A | STM | 2 | TRIAL SET | 1_1 | A | 32 | OBSERVATIONAL UNIT | 43 | 8325064 |
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Ames | SetA | 1_2 | A | 32 | OBSERVATIONAL UNIT | 54 | 8325064 |
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Ames | SetA | 1_3 | A | 32 | OBSERVATIONAL UNIT | 65 | 8325064 |
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Ames | SetA | 1_4 | A | 32 | OBSERVATIONAL UNIT | 76 | 8325064 |
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Ames | SetA | 1_5 | A | 32 | OBSERVATIONAL UNIT | 87 | 8325064 |
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Ames | SetF | F | STM | 2 |
| 1 | EXPERIMENTAL UNIT/TRIAL SET | 98 | 8325064 |
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Ames | | SetF | 6_1 | F | 32 | OBSERVATIONAL UNIT | 109 | 8325064 |
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Ames | | SetF | 6_2 | F | 32 | OBSERVATIONAL UNIT | 1110 | 8325064 |
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Ames | SetF | 6_3 | F | 32 | OBSERVATIONAL UNIT | 11 | 8325064 | SetG | G |
| 1 | EXPERIMENTAL UNIT/TRIAL SET |
|---|
12 | 8325064 |
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Ames| SetG | SetG| 7_1 | G | STM | 2 | TRIAL SETOBSERVATIONAL UNIT | 13 | 8325064 |
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Ames | SetG | 7_ | 1| 2 | G | 32 | OBSERVATIONAL UNIT | | 14 | 8325064 | Ames | SetG | 7_3 | G | 2 | G | 3 | OBSERVATIONAL UNIT | | OBSERVATIONAL UNIT | | 15 | 8325064 | SetR | R |
| 1 | EXPERIMENTAL UNIT/TRIAL SET | | 16 | 15 | 8325064 | Ames7| SetR | SetG | | 18_ | 3| 1 | G| R | 32 | OBSERVATIONAL UNIT | 16| 17 | 8325064 | Ames| SetR | SetG| 18_2 | R | STM | 2 | TRIAL SETOBSERVATIONAL UNIT | 17| 18 | 8325064 | Ames | | SetR | 18_ | 1| 3 | R | 32 | OBSERVATIONAL UNIT | | 18 | 8325064 | Ames | SetR | 18_2 | R | 3 | OBSERVATIONAL UNIT | | 19 | 8325064 | Ames | SetR | 18_3 | R | 3 | OBSERVATIONAL UNIT |
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| Dataset wrap |
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| Rowcaps |
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| 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 |
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| Dataset wrap |
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| Rowcaps |
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| Rows 1-5: | Show the number of revertant colonies per plate collected for each of five observational units GTREFID=0_1 through 0_5 (see description in the relref dataset). | | Rows 6, 7: | Show summary values collected (MEAN, STANDARD DEVIATIONmean, standard deviation, fold increase) for GTREFID=A F that apply to the entire trial set, SetASetF, as indicated by LEVEL=1 and LVLDESC=TRIAL SET for this REFID as shown in the relref RELREF dataset. | | Rows 817-1319: | Revertent colonies were counted for each of three Show 3 plates/observational units (GTREFID= where no revertant colonies were counted due to too much cytotoxicity and a postfix code of " | | Rows 14-16: | Show summary values collected (MEAN, STANDARD DEVIATION, and 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. | T". | Jira |
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| showSummary | false |
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| server | Issue Tracker (JIRA) |
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| columnIds | issuekey,summary,issuetype,created,updated,duedate,assignee,reporter,priority,status,resolution |
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| columns | key,summary,type,created,updated,due,assignee,reporter,priority,status,resolution |
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| serverId | 85506ce4-3cb3-3d91-85ee-f633aaaf4a45 |
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| key | TOBA-668 |
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| Rows 17-19: | Show three plates/observational units (GTREFID=5_1 through 5_3) where no revertant colonies were counted due to too much cytotoxicity and a postfix code of "T". | | Rows 20-22: | Show the number of revertant colonies per plate collected for each of three 3 observational units (GTREFID=18_1 through 18_3). | | Rows 23-25: | Show summary values collected (MEANmean, STANDARD DEVIATION, and FOLD INCREASEstandard 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 RELREF dataset. |
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| Dataset2 |
|---|
| GNTXAID | | DOMAIN | GTSEQ | GTREFID | GTTESTCD | GTTEST | GTORRES | GTORRESU | GTCOLSRT | GTSTRESC | GTSTRESN | GTSTRESU | GTSTAT | GTREASND | GTMETHOD | GTDTC |
|---|
| 1 | 8325064 |
Ames | | GT | 1 | 1_1 | RPP | Revertant Colony Numbers Per Plate | 26 |
NOT APPLICABLE | NOT APPLICABLE | |
|
| INSTRUMENT COUNTED | 2015-08-03 | | 2 | 8325064 |
Ames | GT | 2 | 1_2 | RPP | Revertant Colony Numbers Per Plate | 35 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 3 | 8325064 |
Ames | | GT | 3 | 1_3 | RPP | Revertant Colony Numbers Per Plate | 39 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 4 | 8325064 |
Ames | | GT | 4 | 1_4 | RPP | Revertant Colony Numbers Per Plate | 35 |
NOT APPLICABLENOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 5 | 8325064 |
Ames | GT | 5 | 1_5 | RPP | Revertant Colony Numbers Per Plate | 30 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 6 | 8325064 |
Ames | | GT | 6 | A | RPP | Revertant Colony Numbers Per Plate | 33.0 |
NOT APPLICABLE | NOT APPLICABLEAmes | GT | 7 | A | RPP | Revertant Colony Numbers Per Plate | 5.0 |
NOT APPLICABLENOT APPLICABLE | Ames1| 8 | 6_1 | RPP | Revertant Colony Numbers Per Plate | 8 |
NOT APPLICABLENOT APPLICABLE |
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|
| MANUALLY COUNTED | 2015-08-03 | | 9 | 8325064 |
Ames | 2| 9 | 6_1 | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
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| V |
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|
|
|
| 2015-08-03 | | 10 | 8325064 |
Ames | 3| 10 | 6_2 | RPP | Revertant Colony Numbers Per Plate | 10 |
NOT APPLICABLE | NOT APPLICABLE |
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|
| MANUALLY COUNTED | 2015-08-03 | | 11 | 8325064 |
Ames | 4| 11 | 6_2 | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
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| V |
|
|
|
|
| 2015-08-03 | | 12 | 8325064 |
Ames5| 12 | 6_3 | RPP | Revertant Colony Numbers Per Plate | 12 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| MANUALLY COUNTED | 2015-08-03 | | 13 | 8325064 |
Ames | 6| 13 | 6_3 | CYTOTOX | Cytotoxicity | Very thin background bacterial lawn |
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| V |
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|
|
|
| 2015-08-03 | | 14 | 8325064 |
Ames | 7| 14 | F | RPPMEAN | Mean Rev Colony Num Per Plate | 10.0 |
NOT APPLICABLE | NOT APPLICABLEAmes | 8| 15 | F | RPPSTDDV | Std Dev Rev Colony Num Per Plate | 2.0 |
NOT APPLICABLE | NOT APPLICABLE | Ames | 9| 16 | F | RPPFLDIC | Fold Increase Rev Colony Num Per Plate | 0. |
3NOT APPLICABLENOT APPLICABLEAmes1| 17 | 7_1 | CYTOTOX | Cytotoxicity | Toxic No Revertant Colonies |
|
| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 18 | 8325064 |
Ames2| 18 | 7_2 | CYTOTOX | Cytotoxicity | Toxic No Revertant Colonies |
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| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 19 | 8325064 |
Ames3| 19 | 7_3 | CYTOTOX | Cytotoxicity | Toxic No Revertant Colonies |
|
| T |
|
| NOT DONE | TOO MUCH CYTOTOXICITY |
| 2015-08-03 | | 20 | 8325064 |
Ames | 1| 20 | 18_1 | RPP | Revertant Colony Numbers Per Plate | 812 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 21 | 8325064 |
Ames | 2| 21 | 18_2 | RPP | Revertant Colony Numbers Per Plate | 912 |
NOT APPLICABLE | NOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 22 | 8325064 |
Ames3| 22 | 18_3 | RPP | Revertant Colony Numbers Per Plate | 839 |
NOT APPLICABLENOT APPLICABLE |
|
|
| INSTRUMENT COUNTED | 2015-08-03 | | 23 | 8325064 |
Ames | 4| 23 | R | RPPMEAN | Mean Rev Colony Num Per Plate | 854.3 |
NOT APPLICABLE | NOT APPLICABLE | Ames5| 24 | R | RPPSTDDV | Std Dev Rev Colony Num Per Plate | 51.7 |
NOT APPLICABLE |
| STANDARD DEVIATION | 51.7 | 51.7 |
NOT APPLICABLE | Ames | 6| 25 | R | RPPFLDIC | Fold Increase Rev Colony Num Per Plate | 6.4 |
NOT APPLICABLE | NOT APPLICABLE |
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