Derived_MSI

Module: derived

Module Contents

  1. d_MSI_IHC_STATUS_TISSUE


1CENTER_NOnumber (2,0)Required:true
Center Identification Number.
Allowable Values
11Sinai Health Systems (formerly Cancer Care Ontario)
12University of Southern California Consortium (USCC)
13University of Melbourne
14University of Hawaii Cancer Center
15Mayo Clinic
16Fred Hutch, Seattle
17University of California at San Francisco (UCSF) (formerly CPIC, originally Northern California (NCCC))


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

3COLLECTION_CIDstring (40)Required:true
The label assigned by the center to all tissue associated with a single surgical event – resection or biopsy/endoscopy procedure. This data element is typically used to allow aggregation of all materials, such as blocks, from a single surgery.

4TEST_TISSUEnumber (1,0)Required:true
Type of tissue tested. Only values of 1,2,3 link to pathology information. Although values 2 and 3 may represent the same tissue type, their pathology information is stored in different database tables. Adjacent adenomas are recorded on the Colorect_Malig table and so are associated with a cancer; Colorectal polyps are recorded on the Polyps table. As a result, the pathology information for each will differ somewhat. There may be cases where TEST_TISSUE variable has value 2 but the ADJ_ADEN variable of Colorect_Malig table indicates no adjacent adenoma present. In these cases, the TEST_TISSUE value takes precedence and the adjacent adenoma is considered to have been overlooked.
Allowable Values
1Cancer
2Contiguous (Adjacent) adenoma
3Colon Polyp
4Gastric polyp
5Sebaceous adenoma


5TUMOR_NOnumber (2,0)Required:true
Numbers labeling tumors of the individual. Numbers are not necessarily sequential. No adjustment is made when a tumor is deleted from the system. Tumor numbers are never reused. PERSON_NO plus TUMOR_NO uniquely identifies each tumor in the central database. The same tumor number from different tables (including tables outside of the biospecimen module) must always refer to the same physical tumor.
Allowable Values
1 to 99 or -9, -15Range
-9NA/Out of scope: Tissue does not currently have a TUMOR_NO and is not cancer or contiguous adenoma
-15Information Unknown


6IHC_STATUS_TISSUEnumber(1,0)Required:true
IHC status of tissue from tested block. Multiple blocks from the same tumor may be tested. Expression is ABSENT if any of IHC_MLH1, IHC_MSH2, IHC_MSH6, IHC_PMS2 equal either 0 or 4. Expression is NORMAL if at least one of them equals 1 or 2 and none equal 0 or 4.
Allowable Values
-8 No data transmitted from centers
-7 NA/Out of scope – None of IHC_MLH1, IHC_MSH2, IHC_MSH6, IHC_PMS2 recorded values 0,1,2,4. Test failed or result was equivocal.
1 Normal MMR protein expression
2 Absence of MMR protein expression


7MSI_STATUS_TISSUEnumber(1,0)Required:true
MSI status of tissue from tested block. Multiple blocks from the same tumor may be tested. For each set of scores (MSI_ACTC, _BAT25, _BAT26, _BAT34C4, _BAT40, _D5S346, _D10S197, _D17S250, _D18S55, _MYCL (excluding D2S123) (with a minimum of 4 out of 10 markers that are either stable or unstable – Options 1 and 2 only), the percent unstable among stable and unstable markers is calculated and compared to cutpoints to determine if the results are stable, low or high. If only 3 markers are scored but they are all unstable then the status is scored as high.
Allowable Values
-8 No data transmitted from centers
-7 NA/Out of scope – Less than 4 marker scores stable or unstable
1 Stable – 0% unstable
2 Low – More than 0% but less than 30% unstable
3 High – At least 30% unstable


8MSIIHC_STATUS_TISSUEnumber(1,0)Required:true
MMR status considering the MSI and IHC results from the same collection block.
Allowable Values
-8 No data transmitted from centers for MSI_STATUS_TISSUE -AND- IHC_STATUS_TISSUE
-7 NA/Out of Scope – MSI_STATUS_TISSUE and IHC_STATUS_TISSUE are -7; -OR-, one of them is -7 and the other is -8.
1 Proficient MMR 1 – MSI_STATUS_TISSUE is Stable (1) or Low (2) -OR- IHC_STATUS_TISSUE is Normal (1), but not both
2 Proficient MMR 2 – MSI_STATUS_TISSUE is Stable (1) or Low (2) -AND- IHC_STATUS_TISSUE is Normal (1) (both are true)
3 Defective MMR 1 – MSI_STATUS_TISSUE is High (3) -OR- IHC_STATUS_TISSUE is Absent (2), but not both
4 Defective MMR 2 – MSI_STATUS_TISSUE is High (3) -AND- IHC_STATUS_TISSUE is Absent (2) (both are true)