`ID
`
`Cohort
`
`Tumor Type
`
`MSI Status
`
`Germline mutations in MMR
`genes
`
`Documented Lynch
`Syndrome
`
`IHC
`
`WHO/RECIST
`Response Rate
`
`Radiographic Response
`(% change from baseline SLD)
`
`Biochemical Response
`(% tumor marker change)
`
`1
`3
`4
`6
`7
`8
`9
`
`A
`B
`C
`C
`B
`A
`A
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Small Bowel
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`MSI
`MSS
`MSI
`MSI
`MSS
`MSI
`MSI
`
`MSH-2 (splice)
`None
`MSH-2 (stop)
`MSH-2 (stop)
`None
`None
`None
`
`Yes
`
`No
`
`Yes
`
`Yes
`
`No
`
`No
`
`Yes
`
`No
`
`Unknown
`
`Unknown
`
`MSH-2, MSH-6
`
`MSH-2, MSH-6
`
`Unknown
`
`hMLH-1
`
`Unknown
`
`None
`
`SD
`
`PD
`
`PD
`
`PD
`
`PD
`
`PR
`
`SD
`
`SD
`
`-4
`
`55
`
`56
`
`38
`
`35
`
`-50
`
`2
`
`6
`
`-79
`
`586
`
`336
`
`No Marker
`
`55
`
`-99
`
`-17
`
`74
`
`10
`
`B
`
`MSS
`
`None
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colon/Duodenal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Yes
`
`No
`
`No
`
`Yes
`
`Yes
`
`No
`
`No
`
`No
`
`Yes
`
`No
`
`Unknown
`
`Unknown
`
`Unknown
`
`MSH-2, MSH-6
`
`Unknown
`
`Unknown
`None
`hMLH-1, PMS2
`
`MSH2,MSH6
`
`Unknown
`
`SD
`
`PD
`
`PD
`
`PR
`
`SD
`
`PD
`
`PD
`
`PR
`
`PR
`
`PD
`
`-7
`
`45
`
`16
`
`-35
`
`-28
`
`40
`
`5
`
`-35
`
`-73
`
`34
`
`-94
`
`1939
`
`478
`
`-97
`
`-94
`
`65
`
`-7
`
`-75
`
`-96
`
`60
`
`Colorectal
`
`Colorectal
`
`Duodenum
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Endometrium
`
`Endometrium
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`No
`
`No
`
`No
`
`No
`
`No
`
`No
`
`No
`
`No
`
`Yes
`
`No
`
`Yes
`
`Unknown
`None
`PMS2, MLH1
`
`Unknown
`
`Unknown
`None
`MHL-1, PMS 2
`
`MSH-2, MSH-6
`
`MSH-2 , MSH-6, weak MLH 1
`
`Unknown
`
`MSH-2, MSH-6
`
`SD
`
`Clinical PD
`
`PR
`
`Clinical PD
`
`Clinical PD
`
`PD
`
`CR
`
`PR
`
`PR
`
`PD
`
`PD
`
`-14
`
`2
`
`-50
`
`-11
`
`-14
`
`-61
`
`-70
`
`-51
`
`16
`
`7
`
`-12
`
`No Marker
`
`No Marker
`
`-4
`
`11
`
`-9
`
`-93
`
`-13
`
`No Marker
`
`No Marker
`
`28
`
`-93
`
`MSI
`A
`11
`MSS
`B
`13
`MSS
`B
`14
`MSI
`A
`15
`MSI
`A
`16
`MSS
`B
`17
`MSS
`B
`18
`MSI
`A
`19
`MSI
`C
`20
`MSS
`B
`21
`MSS
`B
`22
`MSS
`B
`24
`MSI
`C
`25
`MSS
`B
`26
`MSS
`B
`27
`MSS
`B
`28
`MSI
`C
`29
`MSI
`C
`30
`MSI
`A
`31
`MSS
`B
`32
`MSI
`A
`33
`MSI
`C
`35
`MSI
`A
`36
`MSS
`B
`37
`MSS
`B
`38
`MSS
`B
`40
`MSS
`B
`41
`MSI
`A
`42
`MSI
`C
`44
`MSS
`B
`2.001
`MSS
`B
`2.002
`MSS
`B
`2.003
`MSI
`C
`2.004
`Gastric
`1Only HLA A and B were used for neoantigen predicition
`2 5% or greater indicates significant PD-L1 expression on tumor cells
`
`Bile duct
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`MSH-2 (FS)
`None
`None
`None
`MLH-1 (FS)
`None
`None
`None
`MSH2
`None
`None
`None
`None
`None
`None
`None
`None
`None
`MLH-1
`None
`MSH-2
`None
`MLH-1
`None
`None
`None
`None
`Pending
`Pending
`None
`None
`None
`Pending
`
`No
`
`Yes
`
`No
`
`No
`
`No
`
`No
`
`Yes
`
`Yes
`
`No
`
`No
`
`No
`
`Unknown
`
`MLH1;PMS2
`
`MLH1
`
`Unknown
`
`Unknown
`
`Unknown
`
`Unknown
`
`Unknown
`
`MSH-6
`None
`None
`None
`MLH1, PMS2
`
`PR
`
`SD
`
`PD
`
`Clinical PD
`
`Not evaluable
`
`Clinical PD
`
`Not evaluable
`
`Not evaluable
`
`PD
`
`Not evaluable
`
`Not evaluable
`
`Not evaluable
`
`-41
`
`3
`
`26
`
`2
`
`-4
`
`-64
`
`-20
`
`17
`
`-37
`
`No Marker
`
`-95
`
`No Marker
`
`306
`
`209
`
`46
`
`No Marker
`
`
`
`Subject
`ID
`
`1
`3
`4
`6
`7
`8
`9
`
`10
`
`Cohort
`
`Tumor Type
`
`Patient HLA Haplotypes
`
`HLA Haplotypes
`analyzed by for
`neoantigen prediction1
`
`Total
`Somatic
`mutations
`
`Mutations Resulting
`in an Amino Acid
`Change
`
`Total Neoantigens
`
`Total
`neoantigens per
`allele
`
`A*29:02, A*74:01, B*18:01, B*50:01, C*06:02, C*07:04
`A*33:01, B*07:05, B*15:03, C*02:10, C*07:02
`A*02:01, A*26:01, B*35:01, B*38:01, C*04:01, C*12:03
`A*02:01, B*07:02, B*15:01, C*03:04, C*07:02
`A*11:01, A*24:02, B*07:02, C*07:02
`A*11:01, A*33:01, B*14:02, C*08:02
`A*02:01, A*31:01, B*07:02, B*51:01, C*07:02, C*15:02
`
`A*23:01,A*26:01,B*38:01,B*44:03,C*04:01,C*12:03
`
`A
`B
`C
`C
`B
`A
`A
`
`B
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Small Bowel
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colon/Duodenal
`
`Colorectal
`
`2 out of 4
`
`4 out of 4
`3 out of 3
`3 out of 3
`3 out of 3
`4 out of 4
`
`4 out of 4
`
`4 out of 4
`4 out of 4
`
`4 out of 4
`4 out of 4
`3 out of 4
`
`1291
`Failed
`771
`2138
`67
`1681
`1814
`
`118
`
`777
`-
`505
`1575
`59
`1016
`1222
`
`105
`
`349
`-
`571
`2494
`52
`1200
`2326
`
`68
`
`175
`
`143
`831
`17
`400
`582
`
`17
`
`133
`3
`
`877
`982
`23
`
`Mutation-
`associated
`Neoantigens
`(MANAs)
`120
`-
`233
`791
`17
`322
`626
`
`22
`
`MANA per
`allele
`
`Membranous PD-L1
`Expression on tumor cells
`(%)2
`
`0
`0
`5
`0
`Failed
`0
`0
`
`0
`
`60
`
`58
`264
`6
`107
`157
`
`6
`
`54
`1
`
`257
`305
`7
`
`A
`11
`B
`13
`B
`14
`A
`15
`A
`16
`B
`17
`B
`18
`A
`19
`C
`20
`B
`21
`B
`22
`B
`24
`C
`25
`B
`26
`B
`27
`B
`28
`C
`29
`C
`30
`A
`31
`B
`32
`A
`33
`C
`35
`A
`36
`B
`37
`B
`38
`B
`40
`B
`41
`A
`42
`C
`44
`B
`2.001
`B
`2.002
`B
`2.003
`C
`2.004
`Gastric
`1Only HLA A and B were used for neoantigen predicition
`2 5% or greater indicates significant PD-L1 expression on tumor cells
`
`A*02:01,A*03:01,B*15:01,B*44:02,C*03:04,C*04:01
`A*02:01, A*24:02, B*27:02, B*51:01, C*02:02
`A*01:01, A*68:02, B*14:02, B*37:01, C*07:01, C*08:02
`A*02:03, A*11:01, B*15:01, B*18:01, C*04:01, C*07:04
`A*03:01, A*11:01, B*15:18, B*35:01, C*04:01, C*07:04
`A*01:01, A*30:01, B*08:01, B*13:02, C*06:02, C*07:01
`A*02:01, A*68:01, B*44:02, , C*05:01
`A*01:01, A*31:01, B*08:01, B*35:01, C*04:01, C*07:01
`Not Done
`A*01:01, A*02:01, B*51:01, B*55:01, C*03:03, C*14:02
`A*23:01, A*68:01, B*35:01, B*40:01, C*03:04, C*04:01
`Not Done
`A*03:01, A*25:01, B*07:02, B*18:01, C*07:02, C*12:03
`A*11:01, A*24:02, B*18:01, B*57:01, C*06:02, C*07:02
`A*01:02, A*24:02, B*07:02, B*58:02, C*06:02, C*07:02
`A*03:01, B*07:02, B*14:02, C*07:02, C*08:02
`A*01:01, A*03:01, B*07:02, B*37:01, C*06:02, C*07:02
`A*24:02, A*26:01, B*35:02, C*04:01
`A*11:01, A*24:02, B*35:02, B*52:01, C*04:01, C*12:02
`A*01:01, A*02:01, B*44:02, B*57:01, C*05:01, C*06:02
`A*02:01, A*26:01, B*13:02, B*27:05, C*02:02, C*06:02
`Not Done
`A*02:01, A*29:02, B*44:02, B*44:03, C*02:02, C*16:01
`Not Done
`A*01:01, A*02:01, B*08:01, B*44:02, C*05:01, C*07:01
`A*01:01, A*26:01, B*07:02, B*44:02, C*05:01, C*07:02
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`
`533
`10
`-
`3506
`3928
`69
`-
`1011
`
`59
`160
`
`-
`-
`-
`-
`-
`-
`-
`-
`-
`
`-
`
`-
`-
`
`253
`
`20
`40
`
`164
`
`7
`11
`
`214
`2
`-
`1029
`1221
`22
`-
`654
`
`20
`45
`
`-
`-
`-
`-
`-
`-
`-
`-
`-
`
`-
`
`-
`-
`
`0
`Failed
`Failed
`10
`10
`0
`0
`10
`
`0
`Failed
`
`0
`0
`1
`0
`1
`0
`0
`0
`0
`
`0
`
`0
`0
`
`4 out of 4
`
`3 out of 4
`3 out of 4
`
`
`
`328
`5
`-
`1476
`2287
`65
`-
`770
`
`72
`96
`
`-
`-
`-
`-
`-
`-
`-
`-
`-
`
`-
`
`-
`-
`
`492
`5
`Failed
`2345
`4025
`70
`Failed
`1477
`Not Done
`77
`102
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`Not Done
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Duodenum
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Endometrium
`
`Endometrium
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Bile duct
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`
`
`Subject
`ID
`
`Cohort
`
`Tumor Type
`
`PD-L1 Expression on TILs and
`Macrophages invasive front
`(%)
`
`PD-L1
`Expression
`on TILS (%)
`
`CD8 density
`in tumor
`(mm2)
`
`CD8 density at
`Invasive front
`(mm2)
`
`CD8 density in
`non-tumor tissue
`(mm2)
`
`Reason Off Study
`
`1
`3
`4
`6
`7
`8
`9
`
`10
`
`A
`B
`C
`C
`B
`A
`A
`
`B
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Small Bowel
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`40
`0
`5
`0
`Failed
`0
`75
`
`20
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colon/Duodenal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Duodenum
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Endometrium
`
`Endometrium
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Bile duct
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`Ampulla of Vater
`
`Colorectal
`
`Colorectal
`
`Colorectal
`
`0
`Failed
`Failed
`15
`75
`5
`5
`40
`
`1
`Failed
`
`Failed
`0
`0
`0
`Failed
`70
`0
`10
`0
`
`5
`
`0
`5
`
`10
`0
`5
`0
`Failed
`0
`25
`
`20
`
`0
`Failed
`Failed
`20
`5
`10
`5
`10
`
`0
`Failed
`
`10
`0
`0
`0
`5
`30
`0
`5
`5
`
`5
`
`0
`10
`
`227
`23
`16
`Failed
`Failed
`5
`91
`
`335
`
`32
`0
`Failed
`162
`298
`Failed
`144
`1009
`
`38
`Failed
`
`623
`Failed
`71
`114
`870
`347
`7
`72
`32
`
`205
`
`127
`50
`
`363
`73
`209
`Failed
`Failed
`64
`407
`
`227
`
`282
`77
`Failed
`72
`673
`Failed
`343
`582
`
`308
`Failed
`
`Failed
`Failed
`194
`259
`Failed
`1215
`13
`146
`891
`
`1192
`
`463
`27
`
`0
`0
`0
`Failed
`Failed
`0
`0
`
`0
`
`0
`0
`Failed
`0
`0
`Failed
`0
`Failed
`
`0
`Failed
`
`Failed
`Failed
`0
`0
`Failed
`0
`Failed
`0
`0
`
`0
`
`0
`0
`
`Trousseau's Syndrome (unrelated)
`Disease Progression
`Disease Progression
`Disease Progression
`Disease Progression
`N/A
`Disease Progression
`Asymptomatic grade 2 pancreatitis
`(grade 3 amylase/lipase) (related)
`N/A
`Disease Progression
`Disease Progression
`N/A
`N/A
`Disease Progression
`Disease Progression
`N/A
`N/A
`Disease Progression
`Disease Progression
`Disease Progression
`N/A
`Disease Progression
`Disease Progression
`N/A
`N/A
`N/A
`N/A
`Disease Progression
`N/A
`N/A
`N/A
`Disease Progression
`Disease Progression
`N/A
`Disease Progression
`N/A
`Disease Progression
`Disease Progression
`N/A
`N/A
`N/A
`
`A
`11
`B
`13
`B
`14
`A
`15
`A
`16
`B
`17
`B
`18
`A
`19
`C
`20
`B
`21
`B
`22
`B
`24
`C
`25
`B
`26
`B
`27
`B
`28
`C
`29
`C
`30
`A
`31
`B
`32
`A
`33
`C
`35
`A
`36
`B
`37
`B
`38
`B
`40
`B
`41
`A
`42
`C
`44
`B
`2.001
`B
`2.002
`B
`2.003
`C
`2.004
`Gastric
`1Only HLA A and B were used for neoantigen predicition
`2 5% or greater indicates significant PD-L1 expression on tumor cells
`
`