Module: molecular

Module Contents

msi
- 1.CENTER_NO
- 2.PERSON_ID
- 3.MSI_TEST_LAB
- 4.COLLECTION_CID
- 5.TEST_TISSUE
- 6.TUMOR_NO
- 7.POLYP_NO
- 8.BLOCK_SPEC_CID
- 9.NUC_ACID_CID_TUMOR
- 10.NUC_ACID_CID_NORMAL
- 11.METASTASIS
- 12.MSI_DETECTION_METHOD
- 13.MSI_ACTC
- 14.MSI_BAT25
- 15.MSI_BAT26
- 16.MSI_BAT34C4
- 17.MSI_BAT40
- 18.MSI_D5S346
- 19.MSI_D10S197
- 20.MSI_D17S250
- 21.MSI_D18S55
- 22.MSI_D2S123
- 23.MSI_MYCL

CENTER_NO

number (2,0)

Required:true

Center identification number.

Allowable Values
11	Sinai Health Systems (formerly Cancer Care Ontario)
12	Cedars-Sinai & Cleveland Clinic (formerly USC Consortium)
13	University of Melbourne
14	University of Hawaii Cancer Center
15	Mayo Clinic
16	Fred Hutch, Seattle
17	UCSF: University of California at San Franscisco (formerly CPIC, originally Northern California (NCCC))

2	PERSON_ID	string (12)	Required:true
	Number that Uniquely Identifies an Individual.

MSI_TEST_LAB

number (1,0)

Required:true

Code for type of lab that did the MSI testing.

Allowable Values
1	CFR Lab
2	Clinical Lab

4	COLLECTION_CID	string (30)	Required:true
	Identifier used internally by centers to denote a unique surgical event.

TEST_TISSUE

number (1,0)

Required:true

Tissue on which test was performed.

Allowable Values
1	Cancer
2	Contiguous (Adjacent) adenoma
3	Colon Polyp
4	Gastric polyp
5	Sebaceous adenoma

TUMOR_NO

number (2,0)

Required:true

Numbers labeling tumors of the individual. Numbers are not necessarily sequential.

Allowable Values
1 to 99	Range
-9	NA/Out of scope: Tissue does not currently have a TUMOR_NO and is not cancer or contiguous adenoma
-15	Information Unknown

POLYP_NO

number (2,0)

Required:true

Sequential number over range of 1 to 99 to distinguish a polyp removed on a particular date. The tuple PERSON_ID, DATE_COLLECTED, and POLYP_NO uniquely identify a physical polyp globally within the CFR database.

Allowable Values
1 to 99 or -9, -1	Range
-9	NA/Out of scope. Tissue is not a polyp.
-1	Polyp has IHC/MSI result but center is currently unable to locate polyp pathology information. Center review to obtain this information is currently underway.

8	BLOCK_SPEC_CID	string (40)	Required:true
	Unique local identifier used at a center to uniquely identify a block tissue specimen.

9	NUC_ACID_CID_TUMOR	string (40)	Required:true
	Center’s unique identifier for the tumor DNA used in this MSI test. Each DNA extraction has a unique identifier.

10	NUC_ACID_CID_NORMAL	string (40)	Required:true
	Center’s unique identifier for the normal DNA used in this MSI test. Each DNA extraction has a unique identifier.

METASTASIS

number (1,0)

Required:true

Primary or metastatic tumor.

Allowable Values
1	Primary
2	Metastatasis
-9	Test is not performed on cancerous tissue

MSI_DETECTION_METHOD

number (2,0)

Required:true

MSI Testing method.

Allowable Values
1	PCR non-radiolabeled
2	PCR radiolabeled
3	Fluorescent PCR capillary electrophoresis
4	Fluorescent PCR slab gel electrophoresis
5	Silver-stained gel electrophoresis
-13	Not tested: Quantity of DNA or tissue not sufficient
-15	Method not specified

MSI_ACTC

number (2,0)

Required:true

MSI test result at ACTC locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_BAT25

number (2,0)

Required:true

MSI test result at BAT25 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_BAT26

number (2,0)

Required:true

MSI test result at BAT26 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_BAT34C4

number (2,0)

Required:true

MSI test result at BATC34C4 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_BAT40

number (2,0)

Required:true

MSI test result at BAT40 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_D5S346

number (2,0)

Required:true

MSI test result at D5S346 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_D10S197

number (2,0)

Required:true

MSI test result at D10S197 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_D17S250

number (2,0)

Required:true

MSI test result at D17S250 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_D18S55

number (2,0)

Required:true

MSI test result at D18S55 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_D2S123

number (2,0)

Required:true

MSI test result at D2S123 locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested

MSI_MYCL

number (2,0)

Required:true

MSI test result at MyCL locus

Allowable Values
1	Stable
2	Unstable
6	Equivocal (Inconclusive)
7	Stable – Normal DNA not used in test
8	Unstable – Normal DNA not used in test
9	Equivocal (Inconclusive) – Normal DNA not used in test
-11	No Amplification
-12	Not tested, reason not specified
-13	Quantity of DNA or tissue not sufficient
-14	Tested, outcome not specified
-15	Unknown if tested