ACNP: SIRI & SII Analysis/Figures
Stephen Murata
7/28/2022
1 Outcome inspection
ggplot(SG_df_new_long, aes(x = Timepoint, y = log(HAMD17)))+
geom_boxplot(aes(fill=Timepoint))+
geom_jitter(width = 0.1)+
facet_wrap(~Treatment)+
theme_bw()+
theme(legend.position = "none")+
ggpubr::stat_compare_means(method="t.test", label.y=4)
2 Group comparison by tx arm
createTable(compareGroups(Arm~., data=combined_df))##
## --------Summary descriptives table by 'Arm'---------
##
## _____________________________________________________________________
## CBX_ESC HC PBO_ESC p.overall
## N=31 N=42 N=26
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
## Subject_ID 6164 (2966) 21.5 (12.3) 6795 (3022) <0.001
## Group: <0.001
## HC 0 (0.00%) 42 (100%) 0 (0.00%)
## PT 31 (100%) 0 (0.00%) 26 (100%)
## Sex: 0.739
## 1 12 (40.0%) 0 (.%) 8 (32.0%)
## 2 18 (60.0%) 0 (.%) 17 (68.0%)
## BMI 31.2 (7.13) . (.) 32.2 (5.80) 0.603
## Age 39.4 (11.4) . (.) 46.6 (12.5) 0.032
## PLT_BL 225 (48.8) 248 (56.2) 246 (75.9) 0.240
## MONO_BL 0.49 (0.16) 0.46 (0.13) 0.52 (0.23) 0.466
## NEUT_BL 3.82 (1.34) 3.54 (1.17) 4.15 (1.50) 0.253
## LYMPH_BL 2.02 (0.61) 1.96 (0.48) 1.96 (0.63) 0.890
## PLT_WK8 224 (46.3) . (.) 222 (64.5) 0.886
## MONO_WK8 0.48 (0.19) . (.) 0.52 (0.23) 0.463
## NEUT_WK8 3.84 (1.60) . (.) 4.31 (2.17) 0.379
## LYMPH_WK8 2.09 (0.81) . (.) 1.98 (0.67) 0.602
## HAMD17_BL 25.0 (6.08) . (.) 23.4 (6.24) 0.408
## HAMA_BL 21.9 (7.40) . (.) 21.9 (7.72) 0.996
## HAMD17_WK8 9.19 (6.33) . (.) 15.0 (7.41) 0.006
## HAMA_WK8 10.1 (6.78) . (.) 13.8 (8.03) 0.088
## SIRI_BL 1.04 (0.60) 0.91 (0.50) 1.18 (0.71) 0.267
## SIRI_WK8 0.90 (0.50) . (.) 1.14 (0.61) 0.138
## SII_BL 457 (222) 469 (203) 541 (257) 0.386
## SII_WK8 426 (215) . (.) 477 (230) 0.436
## Remission: 0.004
## Non-remitter 14 (51.9%) 0 (.%) 19 (95.0%)
## Remitter 13 (48.1%) 0 (.%) 1 (5.00%)
## Response: 0.040
## Non-responder 7 (25.9%) 0 (.%) 12 (60.0%)
## Responder 20 (74.1%) 0 (.%) 8 (40.0%)
## TxGroup 1.00 (0.00) . (.) 0.00 (0.00) 0.000
## TreatmentResponse 0.78 (0.42) . (.) 0.45 (0.51) 0.020
## TreatmentRemission 0.63 (0.49) . (.) 0.10 (0.31) <0.001
## BLHamD17 22.8 (5.47) . (.) 21.6 (5.79) 0.480
## Wk1HamD17 15.4 (5.51) . (.) 18.8 (5.28) 0.040
## Wk2HamD17 13.4 (6.76) . (.) 17.0 (4.35) 0.044
## Wk4HamD17 11.5 (6.62) . (.) 14.6 (3.91) 0.067
## Wk8HamD17 8.15 (5.80) . (.) 13.2 (6.14) 0.006
## HamDTxresponse 0.78 (0.42) . (.) 0.45 (0.51) 0.020
## HamABLTotal 22.1 (7.44) . (.) 21.6 (7.83) 0.829
## HamAWk1Total 16.1 (5.86) . (.) 19.5 (7.98) 0.097
## HamAWk2Total 13.6 (6.85) . (.) 17.3 (5.67) 0.055
## HamAWk4Total 12.6 (7.97) . (.) 14.2 (6.17) 0.439
## HamAWk8Total 10.1 (6.78) . (.) 13.8 (8.03) 0.088
## IL1ABL 0.07 (0.14) . (.) 0.11 (0.12) 0.423
## IL1AWk4 0.03 (0.08) . (.) 0.25 (0.42) 0.071
## IL1AWk8 0.03 (0.08) . (.) 0.04 (0.09) 0.859
## IL1BBL 0.18 (0.40) . (.) 0.26 (0.36) 0.675
## IL1BWk4 0.19 (0.42) . (.) 0.75 (0.99) 0.091
## IL1BWk8 0.28 (0.42) . (.) 0.24 (0.32) 0.822
## IL2BL 0.40 (1.45) . (.) 0.77 (2.18) 0.647
## IL2Wk4 0.87 (2.35) . (.) 0.79 (1.78) 0.947
## IL2Wk8 1.01 (2.56) . (.) 0.00 (0.00) 0.399
## IL6BL 1.67 (1.80) . (.) 2.40 (1.50) 0.347
## IL6Wk4 1.37 (1.24) . (.) 3.76 (5.50) 0.129
## IL6Wk8 1.71 (1.03) . (.) 1.52 (0.77) 0.689
## IL8BL 3.90 (5.21) . (.) 3.88 (4.38) 0.993
## IL8Wk4 4.40 (5.70) . (.) 3.72 (3.97) 0.812
## IL8Wk8 4.84 (10.4) . (.) 6.22 (8.50) 0.796
## IFNGBL 0.54 (1.16) . (.) 0.37 (0.69) 0.712
## IFNGWk4 0.15 (0.55) . (.) 4.15 (8.74) 0.089
## IFNGWk8 0.28 (0.55) . (.) 0.00 (0.00) 0.272
## TNFABL 4.02 (9.30) . (.) 5.17 (11.0) 0.800
## TNFAWk4 4.55 (7.85) . (.) 11.0 (21.4) 0.335
## TNFAWk8 2.34 (2.42) . (.) 10.7 (17.4) 0.094
## MCP1BL 102 (36.9) . (.) 113 (38.2) 0.536
## MCP1Wk4 93.3 (39.1) . (.) 106 (95.9) 0.676
## MCP1Wk8 108 (51.0) . (.) 101 (74.2) 0.835
## CRPSet1_ug_ml_BL 6.22 (5.63) . (.) 2.28 (1.30) 0.095
## CRPSet1_ug_ml_Wk4 4.24 (7.62) . (.) 1.59 (1.02) 0.513
## CRPSet1_ug_ml_Wk8 4.54 (6.20) . (.) 3.24 (4.51) 0.745
## CRPSet2_µg_ml_BL 3.67 (5.17) . (.) 3.16 (3.41) 0.771
## CRPSet2_µg_ml_Wk4 3.10 (4.22) . (.) 3.23 (2.92) 0.934
## CRPSet2_µg_ml_Wk8 2.41 (3.27) . (.) 7.67 (5.18) 0.002
## IL1ARaox_7_16_BL 0.31 (0.08) . (.) 0.37 (0.16) 0.170
## IL1ARaox_7_16_Wk4 0.28 (0.08) . (.) 0.30 (0.09) 0.627
## IL1ARaox_7_16_Wk8 0.27 (0.06) . (.) 0.29 (0.08) 0.382
## IL1BRaox_7_16_BL 1.03 (0.43) . (.) 1.18 (0.47) 0.408
## IL1BRaox_7_16_Wk4 1.27 (1.42) . (.) 1.06 (0.33) 0.657
## IL1BRaox_7_16_Wk8 0.91 (0.29) . (.) 1.20 (0.41) 0.034
## IL2-Raox_7_16_BL 2.60 (0.78) . (.) 2.38 (0.62) 0.489
## IL2-Raox_7_16_Wk4 2.42 (1.22) . (.) 2.47 (0.70) 0.918
## IL2-Raox_7_16_Wk8 2.29 (0.76) . (.) 2.45 (0.68) 0.599
## IL6Raox_7_16_BL 1.40 (1.06) . (.) 1.30 (0.69) 0.785
## IL6Raox_7_16_Wk4 1.28 (0.84) . (.) 1.33 (0.88) 0.880
## IL6Raox_7_16_Wk8 1.32 (0.74) . (.) 1.14 (0.70) 0.519
## IL8Raox_7_16_BL 9.41 (18.1) . (.) 14.2 (35.4) 0.624
## IL8Raox_7_16_Wk4 8.48 (15.0) . (.) 3.93 (2.36) 0.352
## IL8Raox_7_16_Wk8 14.9 (47.8) . (.) 5.51 (6.80) 0.566
## IFNGRaox_7_16_BL 0.42 (0.21) . (.) 0.59 (0.50) 0.216
## IFNGRaox_7_16_Wk4 0.45 (0.28) . (.) 0.47 (0.19) 0.903
## IFNGRaox_7_16_Week8 0.42 (0.26) . (.) 0.41 (0.13) 0.931
## TNFARaox_7_16_BL 27.1 (71.7) . (.) 42.5 (122) 0.663
## TNFARaox_7_16_Wk4 25.8 (71.2) . (.) 11.7 (22.0) 0.547
## TNFARaox_7_16_Wk8 31.1 (114) . (.) 25.6 (55.3) 0.891
## MCP1Raox_7_16_BL 95.9 (40.8) . (.) 92.4 (36.4) 0.818
## MCP1Raox_7_16_Wk4 88.9 (42.1) . (.) 114 (66.5) 0.205
## MCP1Raox_7_16_Wk8 147 (264) . (.) 94.5 (49.8) 0.564
## IL4BL 1.30 (0.80) . (.) 1.24 (1.24) 0.882
## IL4Wk4 0.59 (0.71) . (.) 1.14 (0.74) 0.153
## IL4Wk8 0.73 (0.71) . (.) 0.90 (0.85) 0.665
## IL10BL 0.40 (0.53) . (.) 0.72 (0.62) 0.229
## IL10Wk4 0.65 (0.83) . (.) 3.44 (6.73) 0.127
## IL10Wk8 0.80 (0.77) . (.) 0.26 (0.57) 0.172
## IL4Raox_7_16_BL 2.73 (0.62) . (.) 2.55 (0.47) 0.409
## IL4Raox_7_16_Wk4 2.54 (0.74) . (.) 2.73 (0.62) 0.488
## IL4Raox_7_16_Wk8 2.58 (0.71) . (.) 2.68 (0.59) 0.693
## IL10Raox_7_16_BL 0.96 (0.35) . (.) 1.31 (1.72) 0.375
## IL10Raox_7_16_Wk4 1.09 (0.82) . (.) 1.33 (1.56) 0.587
## IL10Raox_7_16_Wk8 0.88 (0.26) . (.) 0.94 (0.27) 0.593
## FGFBL 1.74 (2.03) . (.) 1.89 (1.36) 0.872
## FGFWk4 2.59 (2.07) . (.) 3.86 (.) 0.606
## FGFWk8 2.29 (3.52) . (.) 0.00 (0.00) 0.409
## VEGF-ElisaBL 41.0 (19.7) . (.) 31.4 (12.1) 0.166
## VEGF-ElisaWk4 45.9 (32.7) . (.) 35.4 (14.1) 0.341
## VEGF-ElisaWk8 42.0 (22.7) . (.) 41.0 (23.2) 0.909
## VEGFRaoxoldBL 25.7 (8.73) . (.) 32.6 (22.8) 0.335
## VEGFRaoxoldWk4 24.7 (12.9) . (.) 34.7 (24.0) 0.251
## VEGFRaoxoldWk8 24.8 (12.3) . (.) 29.3 (18.7) 0.560
## VEGFRaoxnewBL 15.6 (8.44) . (.) 15.3 (10.2) 0.928
## VEGFRaoxnewWk4 18.3 (14.0) . (.) 13.0 (3.87) 0.252
## VEGFRaoxnewWk8 14.4 (8.47) . (.) 15.0 (11.0) 0.871
## EGFBL 1.72 (1.85) . (.) 2.06 (1.53) 0.662
## EGFWk4 3.93 (5.78) . (.) 1.92 (0.54) 0.457
## EGFWk8 2.49 (2.41) . (.) 2.44 (1.55) 0.967
## EGFRaox_7_16_BL 3.61 (1.81) . (.) 4.76 (3.01) 0.201
## EGFRaox_7_16_Wk4 4.26 (2.68) . (.) 4.27 (3.27) 0.993
## EGFRaox_7_16_Wk8 3.37 (2.22) . (.) 3.66 (1.76) 0.736
## KynurenineAABL 2.99 (1.43) . (.) 4.18 (2.92) 0.083
## KynurenineAAWk4 3.24 (3.06) . (.) 3.23 (2.47) 0.996
## KynurenineAAWk8 3.95 (5.03) . (.) 4.76 (4.38) 0.598
## KynurenineKynABL 8.27 (3.88) . (.) 7.65 (2.40) 0.551
## KynurenineKynAWk4 7.93 (3.40) . (.) 7.34 (3.01) 0.571
## KynurenineKynAWk8 8.10 (3.92) . (.) 6.62 (2.37) 0.181
## KynurenineTrpBL 16610 (3834) . (.) 14974 (2869) 0.134
## KynurenineTrpWk4 16603 (3365) . (.) 14687 (3093) 0.074
## KynurenineTrpWk8 15744 (3701) . (.) 14617 (2799) 0.304
## KynurenineKynBL 332 (122) . (.) 358 (125) 0.489
## KynurenineKynWk4 320 (133) . (.) 343 (135) 0.595
## KynurenineKynWk8 318 (139) . (.) 332 (83.4) 0.723
## KynurenineXanBL 3.34 (2.44) . (.) 2.84 (1.30) 0.436
## KynurenineXanWk4 3.35 (1.70) . (.) 2.84 (0.98) 0.343
## KynurenineXanWk8 3.84 (2.37) . (.) 2.31 (1.11) 0.026
## KynureninePicBL 22.0 (11.5) . (.) 22.1 (14.8) 0.990
## KynureninePicWk4 22.2 (12.1) . (.) 21.0 (12.2) 0.747
## KynureninePicWk8 23.5 (14.3) . (.) 23.2 (17.7) 0.958
## KynurenineQuinBL 56.4 (23.7) . (.) 72.8 (51.8) 0.169
## KynurenineQuinWk4 55.1 (19.3) . (.) 66.8 (48.6) 0.286
## KynurenineQuinWk8 55.7 (24.5) . (.) 63.6 (44.0) 0.460
## KynurenineQuinaldABL 2.05 (1.09) . (.) 1.83 (1.98) 0.651
## KynurenineQuinaldAWk4 2.06 (1.27) . (.) 2.09 (1.83) 0.945
## KynurenineQuinaldAWk8 2.08 (1.01) . (.) 1.59 (1.00) 0.135
## Kynurenine3HKBL 17.9 (12.7) . (.) 19.0 (11.8) 0.764
## Kynurenine3HKWk4 16.1 (10.5) . (.) 18.0 (11.1) 0.588
## Kynurenine3HKWk8 16.0 (9.70) . (.) 16.9 (10.3) 0.790
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯3 Group comparison by tx remission
createTable(compareGroups(Remission~., data=combined_df))##
## --------Summary descriptives table by 'Remission'---------
##
## _________________________________________________________
## Non-remitter Remitter p.overall
## N=33 N=14
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
## Subject_ID 6178 (3286) 6689 (2330) 0.550
## Group: PT 33 (100%) 14 (100%) .
## Arm: 0.004
## CBX_ESC 14 (42.4%) 13 (92.9%)
## PBO_ESC 19 (57.6%) 1 (7.14%)
## Sex: 0.451
## 1 15 (45.5%) 4 (28.6%)
## 2 18 (54.5%) 10 (71.4%)
## BMI 32.5 (5.97) 30.3 (8.37) 0.370
## Age 42.9 (12.8) 41.0 (11.4) 0.623
## PLT_BL 228 (61.1) 235 (49.3) 0.688
## MONO_BL 0.51 (0.19) 0.50 (0.19) 0.881
## NEUT_BL 3.93 (1.23) 3.97 (1.71) 0.950
## LYMPH_BL 1.99 (0.65) 1.96 (0.60) 0.868
## PLT_WK8 217 (60.4) 230 (48.1) 0.430
## MONO_WK8 0.53 (0.22) 0.45 (0.18) 0.194
## NEUT_WK8 4.35 (2.05) 3.56 (1.07) 0.102
## LYMPH_WK8 2.10 (0.79) 1.83 (0.64) 0.228
## HAMD17_BL 25.3 (6.49) 22.1 (4.62) 0.064
## HAMA_BL 23.0 (7.77) 19.2 (6.40) 0.089
## HAMD17_WK8 14.8 (6.35) 4.21 (2.46) <0.001
## HAMA_WK8 14.1 (7.06) 5.89 (4.99) <0.001
## SIRI_BL 1.08 (0.60) 1.17 (0.80) 0.728
## SIRI_WK8 1.05 (0.56) 0.99 (0.62) 0.779
## SII_BL 470 (214) 518 (277) 0.596
## SII_WK8 433 (209) 506 (279) 0.422
## Response: 0.001
## Non-responder 19 (57.6%) 0 (0.00%)
## Responder 14 (42.4%) 14 (100%)
## TxGroup 0.42 (0.50) 0.93 (0.27) <0.001
## TreatmentResponse 0.48 (0.51) 1.00 (0.00) <0.001
## TreatmentRemission 0.15 (0.36) 1.00 (0.00) <0.001
## BLHamD17 22.9 (5.89) 20.7 (4.58) 0.173
## Wk1HamD17 19.0 (4.76) 11.6 (3.88) <0.001
## Wk2HamD17 17.4 (4.96) 9.21 (4.42) <0.001
## Wk4HamD17 15.0 (4.90) 7.57 (4.18) <0.001
## Wk8HamD17 13.0 (5.67) 4.07 (2.53) <0.001
## HamDTxresponse 0.48 (0.51) 1.00 (0.00) <0.001
## HamABLTotal 23.0 (7.77) 19.2 (6.40) 0.089
## HamAWk1Total 19.4 (6.84) 13.1 (5.23) 0.002
## HamAWk2Total 17.6 (5.39) 9.46 (5.64) <0.001
## HamAWk4Total 15.6 (6.75) 7.89 (5.34) <0.001
## HamAWk8Total 14.1 (7.06) 5.89 (4.99) <0.001
## IL1ABL 0.11 (0.14) 0.03 (0.08) 0.146
## IL1AWk4 0.15 (0.29) 0.00 (0.00) 0.114
## IL1AWk8 0.02 (0.07) 0.06 (0.11) 0.383
## IL1BBL 0.17 (0.30) 0.34 (0.56) 0.523
## IL1BWk4 0.47 (0.80) 0.16 (0.29) 0.245
## IL1BWk8 0.18 (0.28) 0.35 (0.51) 0.422
## IL2BL 0.44 (1.65) 0.87 (2.14) 0.670
## IL2Wk4 1.47 (2.72) 0.00 (0.00) 0.104
## IL2Wk8 0.82 (2.60) 0.70 (1.86) 0.915
## IL6BL 2.25 (1.88) 0.98 (0.66) 0.039
## IL6Wk4 2.69 (3.81) 1.04 (0.75) 0.189
## IL6Wk8 1.68 (1.09) 1.54 (0.77) 0.760
## IL8BL 4.05 (4.43) 3.85 (6.34) 0.946
## IL8Wk4 3.07 (3.07) 5.80 (7.16) 0.338
## IL8Wk8 3.92 (6.19) 7.70 (13.9) 0.521
## IFNGBL 0.71 (1.15) 0.00 (0.00) 0.038
## IFNGWk4 2.07 (5.90) 0.00 (0.00) 0.271
## IFNGWk8 0.11 (0.34) 0.37 (0.65) 0.348
## TNFABL 5.98 (11.7) 1.46 (1.26) 0.176
## TNFAWk4 6.63 (14.3) 5.70 (10.2) 0.871
## TNFAWk8 6.13 (12.6) 3.07 (3.16) 0.477
## MCP1BL 114 (42.5) 89.2 (14.9) 0.074
## MCP1Wk4 102 (69.8) 89.4 (33.5) 0.608
## MCP1Wk8 98.1 (64.5) 116 (49.2) 0.538
## CRPSet1_ug_ml_BL 3.46 (3.32) 7.04 (7.12) 0.396
## CRPSet1_ug_ml_Wk4 3.69 (7.46) 2.82 (3.64) 0.784
## CRPSet1_ug_ml_Wk8 4.14 (5.96) 3.54 (6.26) 0.871
## CRPSet2_µg_ml_BL 4.05 (4.99) 2.29 (3.83) 0.290
## CRPSet2_µg_ml_Wk4 3.52 (3.76) 2.35 (3.95) 0.445
## CRPSet2_µg_ml_Wk8 4.49 (4.99) 2.85 (3.73) 0.323
## IL1ARaox_7_16_BL 0.33 (0.14) 0.34 (0.05) 0.750
## IL1ARaox_7_16_Wk4 0.28 (0.08) 0.31 (0.10) 0.500
## IL1ARaox_7_16_Wk8 0.27 (0.06) 0.29 (0.07) 0.518
## IL1BRaox_7_16_BL 1.06 (0.43) 1.12 (0.49) 0.731
## IL1BRaox_7_16_Wk4 1.05 (0.43) 1.51 (2.02) 0.497
## IL1BRaox_7_16_Wk8 1.01 (0.34) 0.97 (0.38) 0.789
## IL2-Raox_7_16_BL 2.32 (0.53) 2.97 (0.92) 0.094
## IL2-Raox_7_16_Wk4 2.54 (0.84) 2.24 (1.49) 0.566
## IL2-Raox_7_16_Wk8 2.27 (0.61) 2.47 (0.95) 0.556
## IL6Raox_7_16_BL 1.48 (1.07) 1.11 (0.48) 0.209
## IL6Raox_7_16_Wk4 1.37 (0.93) 1.13 (0.63) 0.405
## IL6Raox_7_16_Wk8 1.27 (0.77) 1.22 (0.62) 0.844
## IL8Raox_7_16_BL 13.1 (29.1) 6.10 (7.45) 0.314
## IL8Raox_7_16_Wk4 7.19 (14.3) 6.62 (8.22) 0.890
## IL8Raox_7_16_Wk8 14.9 (48.7) 6.55 (11.0) 0.475
## IFNGRaox_7_16_BL 0.52 (0.38) 0.39 (0.18) 0.245
## IFNGRaox_7_16_Wk4 0.52 (0.28) 0.33 (0.10) 0.013
## IFNGRaox_7_16_Week8 0.41 (0.20) 0.43 (0.28) 0.818
## TNFARaox_7_16_BL 40.1 (106) 13.8 (24.2) 0.293
## TNFARaox_7_16_Wk4 25.5 (71.5) 12.3 (20.0) 0.441
## TNFARaox_7_16_Wk8 38.6 (120) 11.3 (25.2) 0.340
## MCP1Raox_7_16_BL 94.9 (41.0) 94.2 (35.4) 0.964
## MCP1Raox_7_16_Wk4 102 (56.8) 87.9 (39.2) 0.444
## MCP1Raox_7_16_Wk8 92.1 (47.4) 209 (379) 0.357
## IL4BL 1.36 (1.07) 1.08 (0.77) 0.477
## IL4Wk4 0.99 (0.68) 0.38 (0.71) 0.078
## IL4Wk8 0.71 (0.76) 0.99 (0.69) 0.437
## IL10BL 0.49 (0.60) 0.50 (0.55) 0.978
## IL10Wk4 2.02 (4.54) 0.51 (0.56) 0.301
## IL10Wk8 0.69 (0.93) 0.69 (0.48) 0.987
## IL4Raox_7_16_BL 2.51 (0.55) 3.05 (0.45) 0.011
## IL4Raox_7_16_Wk4 2.61 (0.71) 2.59 (0.70) 0.963
## IL4Raox_7_16_Wk8 2.55 (0.64) 2.73 (0.74) 0.526
## IL10Raox_7_16_BL 1.10 (1.20) 1.03 (0.37) 0.808
## IL10Raox_7_16_Wk4 1.20 (1.25) 1.09 (0.68) 0.759
## IL10Raox_7_16_Wk8 0.88 (0.26) 0.93 (0.27) 0.692
## FGFBL 1.92 (1.91) 1.99 (1.10) 0.932
## FGFWk4 2.85 (2.15) 2.59 (.) .
## FGFWk8 2.22 (3.94) 1.36 (0.51) 0.621
## VEGF-ElisaBL 39.6 (20.4) 34.3 (11.7) 0.369
## VEGF-ElisaWk4 48.3 (32.5) 30.5 (8.14) 0.027
## VEGF-ElisaWk8 44.5 (23.4) 36.1 (20.4) 0.324
## VEGFRaoxoldBL 30.9 (18.2) 23.3 (6.57) 0.192
## VEGFRaoxoldWk4 26.1 (17.7) 29.0 (15.5) 0.713
## VEGFRaoxoldWk8 26.8 (17.1) 25.0 (10.4) 0.791
## VEGFRaoxnewBL 16.1 (10.2) 14.2 (5.00) 0.494
## VEGFRaoxnewWk4 16.5 (12.4) 16.8 (11.3) 0.959
## VEGFRaoxnewWk8 15.3 (10.7) 13.2 (4.80) 0.457
## EGFBL 1.81 (1.66) 1.58 (1.85) 0.798
## EGFWk4 2.00 (1.92) 5.33 (7.19) 0.239
## EGFWk8 1.75 (1.17) 3.16 (2.95) 0.268
## EGFRaox_7_16_BL 3.76 (2.38) 4.53 (2.10) 0.384
## EGFRaox_7_16_Wk4 4.04 (2.75) 4.74 (3.07) 0.550
## EGFRaox_7_16_Wk8 3.06 (1.46) 4.25 (2.86) 0.239
## KynurenineAABL 3.61 (2.60) 3.24 (1.20) 0.533
## KynurenineAAWk4 3.42 (3.28) 2.82 (1.38) 0.413
## KynurenineAAWk8 4.91 (5.73) 3.01 (1.06) 0.106
## KynurenineKynABL 8.08 (3.56) 7.87 (2.89) 0.839
## KynurenineKynAWk4 7.66 (3.24) 7.78 (3.32) 0.912
## KynurenineKynAWk8 7.46 (3.26) 7.65 (3.90) 0.877
## KynurenineTrpBL 15373 (2937) 17070 (4403) 0.207
## KynurenineTrpWk4 15427 (3071) 16776 (3876) 0.283
## KynurenineTrpWk8 15187 (3239) 15529 (3771) 0.775
## KynurenineKynBL 335 (119) 358 (132) 0.586
## KynurenineKynWk4 325 (110) 337 (178) 0.833
## KynurenineKynWk8 321 (98.8) 330 (156) 0.836
## KynurenineXanBL 3.21 (2.38) 2.99 (1.20) 0.696
## KynurenineXanWk4 3.04 (1.67) 3.47 (1.11) 0.371
## KynurenineXanWk8 2.90 (2.04) 3.90 (2.11) 0.184
## KynureninePicBL 22.1 (12.5) 22.0 (13.9) 0.977
## KynureninePicWk4 22.1 (12.3) 20.9 (11.8) 0.754
## KynureninePicWk8 24.1 (15.5) 22.0 (16.0) 0.681
## KynurenineQuinBL 67.1 (43.8) 55.4 (23.0) 0.256
## KynurenineQuinWk4 62.6 (38.0) 53.2 (22.1) 0.327
## KynurenineQuinWk8 63.4 (39.0) 49.9 (15.1) 0.124
## KynurenineQuinaldABL 1.94 (1.77) 1.99 (0.80) 0.917
## KynurenineQuinaldAWk4 2.02 (1.59) 2.18 (1.30) 0.748
## KynurenineQuinaldAWk8 1.74 (1.05) 2.16 (0.94) 0.205
## Kynurenine3HKBL 18.8 (12.9) 17.6 (11.0) 0.755
## Kynurenine3HKWk4 16.8 (10.5) 16.9 (11.4) 0.984
## Kynurenine3HKWk8 16.0 (9.91) 17.0 (10.0) 0.771
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯4 Group comparison by tx remission
createTable(compareGroups(Remission~., data=combined_df))##
## --------Summary descriptives table by 'Remission'---------
##
## _________________________________________________________
## Non-remitter Remitter p.overall
## N=33 N=14
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
## Subject_ID 6178 (3286) 6689 (2330) 0.550
## Group: PT 33 (100%) 14 (100%) .
## Arm: 0.004
## CBX_ESC 14 (42.4%) 13 (92.9%)
## PBO_ESC 19 (57.6%) 1 (7.14%)
## Sex: 0.451
## 1 15 (45.5%) 4 (28.6%)
## 2 18 (54.5%) 10 (71.4%)
## BMI 32.5 (5.97) 30.3 (8.37) 0.370
## Age 42.9 (12.8) 41.0 (11.4) 0.623
## PLT_BL 228 (61.1) 235 (49.3) 0.688
## MONO_BL 0.51 (0.19) 0.50 (0.19) 0.881
## NEUT_BL 3.93 (1.23) 3.97 (1.71) 0.950
## LYMPH_BL 1.99 (0.65) 1.96 (0.60) 0.868
## PLT_WK8 217 (60.4) 230 (48.1) 0.430
## MONO_WK8 0.53 (0.22) 0.45 (0.18) 0.194
## NEUT_WK8 4.35 (2.05) 3.56 (1.07) 0.102
## LYMPH_WK8 2.10 (0.79) 1.83 (0.64) 0.228
## HAMD17_BL 25.3 (6.49) 22.1 (4.62) 0.064
## HAMA_BL 23.0 (7.77) 19.2 (6.40) 0.089
## HAMD17_WK8 14.8 (6.35) 4.21 (2.46) <0.001
## HAMA_WK8 14.1 (7.06) 5.89 (4.99) <0.001
## SIRI_BL 1.08 (0.60) 1.17 (0.80) 0.728
## SIRI_WK8 1.05 (0.56) 0.99 (0.62) 0.779
## SII_BL 470 (214) 518 (277) 0.596
## SII_WK8 433 (209) 506 (279) 0.422
## Response: 0.001
## Non-responder 19 (57.6%) 0 (0.00%)
## Responder 14 (42.4%) 14 (100%)
## TxGroup 0.42 (0.50) 0.93 (0.27) <0.001
## TreatmentResponse 0.48 (0.51) 1.00 (0.00) <0.001
## TreatmentRemission 0.15 (0.36) 1.00 (0.00) <0.001
## BLHamD17 22.9 (5.89) 20.7 (4.58) 0.173
## Wk1HamD17 19.0 (4.76) 11.6 (3.88) <0.001
## Wk2HamD17 17.4 (4.96) 9.21 (4.42) <0.001
## Wk4HamD17 15.0 (4.90) 7.57 (4.18) <0.001
## Wk8HamD17 13.0 (5.67) 4.07 (2.53) <0.001
## HamDTxresponse 0.48 (0.51) 1.00 (0.00) <0.001
## HamABLTotal 23.0 (7.77) 19.2 (6.40) 0.089
## HamAWk1Total 19.4 (6.84) 13.1 (5.23) 0.002
## HamAWk2Total 17.6 (5.39) 9.46 (5.64) <0.001
## HamAWk4Total 15.6 (6.75) 7.89 (5.34) <0.001
## HamAWk8Total 14.1 (7.06) 5.89 (4.99) <0.001
## IL1ABL 0.11 (0.14) 0.03 (0.08) 0.146
## IL1AWk4 0.15 (0.29) 0.00 (0.00) 0.114
## IL1AWk8 0.02 (0.07) 0.06 (0.11) 0.383
## IL1BBL 0.17 (0.30) 0.34 (0.56) 0.523
## IL1BWk4 0.47 (0.80) 0.16 (0.29) 0.245
## IL1BWk8 0.18 (0.28) 0.35 (0.51) 0.422
## IL2BL 0.44 (1.65) 0.87 (2.14) 0.670
## IL2Wk4 1.47 (2.72) 0.00 (0.00) 0.104
## IL2Wk8 0.82 (2.60) 0.70 (1.86) 0.915
## IL6BL 2.25 (1.88) 0.98 (0.66) 0.039
## IL6Wk4 2.69 (3.81) 1.04 (0.75) 0.189
## IL6Wk8 1.68 (1.09) 1.54 (0.77) 0.760
## IL8BL 4.05 (4.43) 3.85 (6.34) 0.946
## IL8Wk4 3.07 (3.07) 5.80 (7.16) 0.338
## IL8Wk8 3.92 (6.19) 7.70 (13.9) 0.521
## IFNGBL 0.71 (1.15) 0.00 (0.00) 0.038
## IFNGWk4 2.07 (5.90) 0.00 (0.00) 0.271
## IFNGWk8 0.11 (0.34) 0.37 (0.65) 0.348
## TNFABL 5.98 (11.7) 1.46 (1.26) 0.176
## TNFAWk4 6.63 (14.3) 5.70 (10.2) 0.871
## TNFAWk8 6.13 (12.6) 3.07 (3.16) 0.477
## MCP1BL 114 (42.5) 89.2 (14.9) 0.074
## MCP1Wk4 102 (69.8) 89.4 (33.5) 0.608
## MCP1Wk8 98.1 (64.5) 116 (49.2) 0.538
## CRPSet1_ug_ml_BL 3.46 (3.32) 7.04 (7.12) 0.396
## CRPSet1_ug_ml_Wk4 3.69 (7.46) 2.82 (3.64) 0.784
## CRPSet1_ug_ml_Wk8 4.14 (5.96) 3.54 (6.26) 0.871
## CRPSet2_µg_ml_BL 4.05 (4.99) 2.29 (3.83) 0.290
## CRPSet2_µg_ml_Wk4 3.52 (3.76) 2.35 (3.95) 0.445
## CRPSet2_µg_ml_Wk8 4.49 (4.99) 2.85 (3.73) 0.323
## IL1ARaox_7_16_BL 0.33 (0.14) 0.34 (0.05) 0.750
## IL1ARaox_7_16_Wk4 0.28 (0.08) 0.31 (0.10) 0.500
## IL1ARaox_7_16_Wk8 0.27 (0.06) 0.29 (0.07) 0.518
## IL1BRaox_7_16_BL 1.06 (0.43) 1.12 (0.49) 0.731
## IL1BRaox_7_16_Wk4 1.05 (0.43) 1.51 (2.02) 0.497
## IL1BRaox_7_16_Wk8 1.01 (0.34) 0.97 (0.38) 0.789
## IL2-Raox_7_16_BL 2.32 (0.53) 2.97 (0.92) 0.094
## IL2-Raox_7_16_Wk4 2.54 (0.84) 2.24 (1.49) 0.566
## IL2-Raox_7_16_Wk8 2.27 (0.61) 2.47 (0.95) 0.556
## IL6Raox_7_16_BL 1.48 (1.07) 1.11 (0.48) 0.209
## IL6Raox_7_16_Wk4 1.37 (0.93) 1.13 (0.63) 0.405
## IL6Raox_7_16_Wk8 1.27 (0.77) 1.22 (0.62) 0.844
## IL8Raox_7_16_BL 13.1 (29.1) 6.10 (7.45) 0.314
## IL8Raox_7_16_Wk4 7.19 (14.3) 6.62 (8.22) 0.890
## IL8Raox_7_16_Wk8 14.9 (48.7) 6.55 (11.0) 0.475
## IFNGRaox_7_16_BL 0.52 (0.38) 0.39 (0.18) 0.245
## IFNGRaox_7_16_Wk4 0.52 (0.28) 0.33 (0.10) 0.013
## IFNGRaox_7_16_Week8 0.41 (0.20) 0.43 (0.28) 0.818
## TNFARaox_7_16_BL 40.1 (106) 13.8 (24.2) 0.293
## TNFARaox_7_16_Wk4 25.5 (71.5) 12.3 (20.0) 0.441
## TNFARaox_7_16_Wk8 38.6 (120) 11.3 (25.2) 0.340
## MCP1Raox_7_16_BL 94.9 (41.0) 94.2 (35.4) 0.964
## MCP1Raox_7_16_Wk4 102 (56.8) 87.9 (39.2) 0.444
## MCP1Raox_7_16_Wk8 92.1 (47.4) 209 (379) 0.357
## IL4BL 1.36 (1.07) 1.08 (0.77) 0.477
## IL4Wk4 0.99 (0.68) 0.38 (0.71) 0.078
## IL4Wk8 0.71 (0.76) 0.99 (0.69) 0.437
## IL10BL 0.49 (0.60) 0.50 (0.55) 0.978
## IL10Wk4 2.02 (4.54) 0.51 (0.56) 0.301
## IL10Wk8 0.69 (0.93) 0.69 (0.48) 0.987
## IL4Raox_7_16_BL 2.51 (0.55) 3.05 (0.45) 0.011
## IL4Raox_7_16_Wk4 2.61 (0.71) 2.59 (0.70) 0.963
## IL4Raox_7_16_Wk8 2.55 (0.64) 2.73 (0.74) 0.526
## IL10Raox_7_16_BL 1.10 (1.20) 1.03 (0.37) 0.808
## IL10Raox_7_16_Wk4 1.20 (1.25) 1.09 (0.68) 0.759
## IL10Raox_7_16_Wk8 0.88 (0.26) 0.93 (0.27) 0.692
## FGFBL 1.92 (1.91) 1.99 (1.10) 0.932
## FGFWk4 2.85 (2.15) 2.59 (.) .
## FGFWk8 2.22 (3.94) 1.36 (0.51) 0.621
## VEGF-ElisaBL 39.6 (20.4) 34.3 (11.7) 0.369
## VEGF-ElisaWk4 48.3 (32.5) 30.5 (8.14) 0.027
## VEGF-ElisaWk8 44.5 (23.4) 36.1 (20.4) 0.324
## VEGFRaoxoldBL 30.9 (18.2) 23.3 (6.57) 0.192
## VEGFRaoxoldWk4 26.1 (17.7) 29.0 (15.5) 0.713
## VEGFRaoxoldWk8 26.8 (17.1) 25.0 (10.4) 0.791
## VEGFRaoxnewBL 16.1 (10.2) 14.2 (5.00) 0.494
## VEGFRaoxnewWk4 16.5 (12.4) 16.8 (11.3) 0.959
## VEGFRaoxnewWk8 15.3 (10.7) 13.2 (4.80) 0.457
## EGFBL 1.81 (1.66) 1.58 (1.85) 0.798
## EGFWk4 2.00 (1.92) 5.33 (7.19) 0.239
## EGFWk8 1.75 (1.17) 3.16 (2.95) 0.268
## EGFRaox_7_16_BL 3.76 (2.38) 4.53 (2.10) 0.384
## EGFRaox_7_16_Wk4 4.04 (2.75) 4.74 (3.07) 0.550
## EGFRaox_7_16_Wk8 3.06 (1.46) 4.25 (2.86) 0.239
## KynurenineAABL 3.61 (2.60) 3.24 (1.20) 0.533
## KynurenineAAWk4 3.42 (3.28) 2.82 (1.38) 0.413
## KynurenineAAWk8 4.91 (5.73) 3.01 (1.06) 0.106
## KynurenineKynABL 8.08 (3.56) 7.87 (2.89) 0.839
## KynurenineKynAWk4 7.66 (3.24) 7.78 (3.32) 0.912
## KynurenineKynAWk8 7.46 (3.26) 7.65 (3.90) 0.877
## KynurenineTrpBL 15373 (2937) 17070 (4403) 0.207
## KynurenineTrpWk4 15427 (3071) 16776 (3876) 0.283
## KynurenineTrpWk8 15187 (3239) 15529 (3771) 0.775
## KynurenineKynBL 335 (119) 358 (132) 0.586
## KynurenineKynWk4 325 (110) 337 (178) 0.833
## KynurenineKynWk8 321 (98.8) 330 (156) 0.836
## KynurenineXanBL 3.21 (2.38) 2.99 (1.20) 0.696
## KynurenineXanWk4 3.04 (1.67) 3.47 (1.11) 0.371
## KynurenineXanWk8 2.90 (2.04) 3.90 (2.11) 0.184
## KynureninePicBL 22.1 (12.5) 22.0 (13.9) 0.977
## KynureninePicWk4 22.1 (12.3) 20.9 (11.8) 0.754
## KynureninePicWk8 24.1 (15.5) 22.0 (16.0) 0.681
## KynurenineQuinBL 67.1 (43.8) 55.4 (23.0) 0.256
## KynurenineQuinWk4 62.6 (38.0) 53.2 (22.1) 0.327
## KynurenineQuinWk8 63.4 (39.0) 49.9 (15.1) 0.124
## KynurenineQuinaldABL 1.94 (1.77) 1.99 (0.80) 0.917
## KynurenineQuinaldAWk4 2.02 (1.59) 2.18 (1.30) 0.748
## KynurenineQuinaldAWk8 1.74 (1.05) 2.16 (0.94) 0.205
## Kynurenine3HKBL 18.8 (12.9) 17.6 (11.0) 0.755
## Kynurenine3HKWk4 16.8 (10.5) 16.9 (11.4) 0.984
## Kynurenine3HKWk8 16.0 (9.91) 17.0 (10.0) 0.771
## ¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯5 SIRI & SII by treatment group/time
ggplot(SG_df_new_long, aes(x = Timepoint, y = log(SIRI)))+
geom_boxplot(aes(fill=Timepoint))+
geom_jitter(width = 0.1)+
facet_wrap(~Treatment)+
theme_bw()+
theme(legend.position = "none")+
ggpubr::stat_compare_means(method="t.test", label.y=1.5)
ggplot(SG_df_new_long, aes(x = Timepoint, y = log(SII)))+
geom_boxplot(aes(fill=Timepoint))+
geom_jitter(width = 0.1)+
facet_wrap(~Treatment)+
theme_bw()+
theme(legend.position = "none")+
ggpubr::stat_compare_means(method="t.test", label.y=8)
6 Univariate correlations with SIRI_BL
list_vars<-combined_df %>% dplyr::select(-Sex, -Remission, -Response, -Subject_ID, -Group) %>% names()
heatmap_df<-combined_df %>% dplyr::select(all_of(list_vars))
heatmap_df <- heatmap_df[which(heatmap_df$Arm!=c("HC")), ] %>%
dplyr::select(-Arm)
gtsummary::tbl_uvregression(
heatmap_df,
lm,
SIRI_BL,
conf.int=TRUE
)| Characteristic | N | Beta | 95% CI1 | p-value |
|---|---|---|---|---|
| BMI | 47 | -0.02 | -0.05, 0.01 | 0.3 |
| Age | 48 | -0.01 | -0.02, 0.01 | 0.4 |
| PLT_BL | 50 | 0.00 | 0.00, 0.00 | 0.9 |
| MONO_BL | 50 | 2.2 | 1.4, 3.0 | <0.001 |
| NEUT_BL | 50 | 0.36 | 0.28, 0.44 | <0.001 |
| LYMPH_BL | 50 | -0.21 | -0.51, 0.09 | 0.2 |
| PLT_WK8 | 49 | 0.00 | 0.00, 0.00 | 0.8 |
| MONO_WK8 | 48 | 1.3 | 0.47, 2.2 | 0.003 |
| NEUT_WK8 | 48 | 0.10 | 0.00, 0.20 | 0.045 |
| LYMPH_WK8 | 48 | -0.01 | -0.27, 0.26 | >0.9 |
| HAMD17_BL | 43 | -0.04 | -0.07, -0.01 | 0.008 |
| HAMA_BL | 44 | -0.02 | -0.04, 0.01 | 0.2 |
| HAMD17_WK8 | 43 | 0.00 | -0.02, 0.03 | 0.8 |
| HAMA_WK8 | 43 | 0.01 | -0.02, 0.04 | 0.5 |
| SIRI_WK8 | 48 | 1.0 | 0.83, 1.2 | <0.001 |
| SII_BL | 50 | 0.00 | 0.00, 0.00 | <0.001 |
| SII_WK8 | 48 | 0.00 | 0.00, 0.00 | <0.001 |
| TxGroup | 44 | -0.27 | -0.66, 0.13 | 0.2 |
| TreatmentResponse | 43 | -0.09 | -0.52, 0.34 | 0.7 |
| TreatmentRemission | 43 | 0.08 | -0.34, 0.49 | 0.7 |
| BLHamD17 | 43 | -0.04 | -0.08, -0.01 | 0.014 |
| Wk1HamD17 | 43 | -0.02 | -0.06, 0.01 | 0.2 |
| Wk2HamD17 | 43 | -0.01 | -0.05, 0.02 | 0.4 |
| Wk4HamD17 | 43 | 0.00 | -0.04, 0.03 | 0.9 |
| Wk8HamD17 | 43 | 0.00 | -0.03, 0.03 | 0.9 |
| HamDTxresponse | 43 | -0.09 | -0.52, 0.34 | 0.7 |
| HamABLTotal | 43 | -0.02 | -0.04, 0.01 | 0.2 |
| HamAWk1Total | 43 | 0.00 | -0.03, 0.03 | >0.9 |
| HamAWk2Total | 43 | 0.01 | -0.02, 0.04 | 0.7 |
| HamAWk4Total | 43 | 0.00 | -0.03, 0.03 | >0.9 |
| HamAWk8Total | 43 | 0.01 | -0.02, 0.04 | 0.5 |
| IL1ABL | 21 | -1.6 | -3.7, 0.51 | 0.13 |
| IL1AWk4 | 19 | -0.29 | -1.7, 1.1 | 0.7 |
| IL1AWk8 | 18 | -0.71 | -4.8, 3.4 | 0.7 |
| IL1BBL | 22 | -0.40 | -1.1, 0.31 | 0.3 |
| IL1BWk4 | 19 | -0.23 | -0.72, 0.26 | 0.3 |
| IL1BWk8 | 18 | -0.30 | -1.2, 0.58 | 0.5 |
| IL2BL | 21 | -0.02 | -0.19, 0.15 | 0.8 |
| IL2Wk4 | 19 | -0.08 | -0.23, 0.06 | 0.2 |
| IL2Wk8 | 18 | -0.06 | -0.21, 0.09 | 0.4 |
| IL6BL | 21 | -0.09 | -0.26, 0.08 | 0.3 |
| IL6Wk4 | 19 | -0.03 | -0.14, 0.07 | 0.5 |
| IL6Wk8 | 20 | -0.16 | -0.47, 0.16 | 0.3 |
| IL8BL | 21 | -0.01 | -0.07, 0.05 | 0.8 |
| IL8Wk4 | 19 | 0.01 | -0.05, 0.07 | 0.8 |
| IL8Wk8 | 18 | 0.02 | -0.02, 0.05 | 0.4 |
| IFNGBL | 21 | -0.03 | -0.32, 0.27 | 0.8 |
| IFNGWk4 | 19 | -0.01 | -0.08, 0.06 | 0.8 |
| IFNGWk8 | 18 | -0.29 | -1.0, 0.41 | 0.4 |
| TNFABL | 21 | 0.00 | -0.03, 0.03 | 0.8 |
| TNFAWk4 | 19 | 0.01 | -0.01, 0.04 | 0.2 |
| TNFAWk8 | 18 | 0.04 | 0.01, 0.07 | 0.012 |
| MCP1BL | 21 | -0.01 | -0.02, 0.00 | 0.007 |
| MCP1Wk4 | 19 | 0.00 | -0.01, 0.00 | 0.3 |
| MCP1Wk8 | 18 | 0.00 | 0.00, 0.01 | 0.6 |
| CRPSet1_ug_ml_BL | 15 | 0.02 | -0.05, 0.10 | 0.5 |
| CRPSet1_ug_ml_Wk4 | 13 | 0.00 | -0.05, 0.05 | >0.9 |
| CRPSet1_ug_ml_Wk8 | 13 | 0.00 | -0.06, 0.05 | 0.9 |
| CRPSet2_µg_ml_BL | 32 | -0.01 | -0.06, 0.05 | 0.8 |
| CRPSet2_µg_ml_Wk4 | 31 | -0.02 | -0.09, 0.05 | 0.6 |
| CRPSet2_µg_ml_Wk8 | 31 | 0.01 | -0.05, 0.06 | 0.8 |
| IL1ARaox_7_16_BL | 30 | 0.89 | -1.4, 3.2 | 0.4 |
| IL1ARaox_7_16_Wk4 | 31 | -0.26 | -3.3, 2.8 | 0.9 |
| IL1ARaox_7_16_Wk8 | 30 | -1.0 | -5.2, 3.1 | 0.6 |
| IL1BRaox_7_16_BL | 30 | 0.20 | -0.40, 0.81 | 0.5 |
| IL1BRaox_7_16_Wk4 | 31 | -0.03 | -0.25, 0.19 | 0.8 |
| IL1BRaox_7_16_Wk8 | 30 | 0.51 | -0.24, 1.3 | 0.2 |
| IL2-Raox_7_16_BL | 25 | 0.39 | -0.01, 0.78 | 0.053 |
| IL2-Raox_7_16_Wk4 | 29 | -0.03 | -0.28, 0.23 | 0.8 |
| IL2-Raox_7_16_Wk8 | 30 | 0.07 | -0.30, 0.44 | 0.7 |
| IL6Raox_7_16_BL | 30 | -0.03 | -0.32, 0.25 | 0.8 |
| IL6Raox_7_16_Wk4 | 31 | -0.01 | -0.33, 0.30 | >0.9 |
| IL6Raox_7_16_Wk8 | 31 | -0.03 | -0.40, 0.33 | 0.8 |
| IL8Raox_7_16_BL | 30 | 0.00 | -0.01, 0.01 | 0.6 |
| IL8Raox_7_16_Wk4 | 31 | 0.00 | -0.02, 0.02 | 0.7 |
| IL8Raox_7_16_Wk8 | 30 | 0.00 | -0.01, 0.01 | 0.6 |
| IFNGRaox_7_16_BL | 30 | 0.00 | -0.81, 0.81 | >0.9 |
| IFNGRaox_7_16_Wk4 | 31 | 0.37 | -0.66, 1.4 | 0.5 |
| IFNGRaox_7_16_Week8 | 30 | -0.07 | -1.3, 1.1 | >0.9 |
| TNFARaox_7_16_BL | 30 | 0.00 | 0.00, 0.00 | 0.7 |
| TNFARaox_7_16_Wk4 | 31 | 0.00 | 0.00, 0.00 | 0.8 |
| TNFARaox_7_16_Wk8 | 30 | 0.00 | 0.00, 0.00 | 0.5 |
| MCP1Raox_7_16_BL | 30 | 0.00 | -0.01, 0.00 | 0.2 |
| MCP1Raox_7_16_Wk4 | 31 | 0.00 | -0.01, 0.00 | 0.7 |
| MCP1Raox_7_16_Wk8 | 30 | 0.00 | 0.00, 0.00 | 0.2 |
| IL4BL | 26 | -0.23 | -0.47, 0.01 | 0.057 |
| IL4Wk4 | 19 | -0.15 | -0.58, 0.28 | 0.5 |
| IL4Wk8 | 18 | 0.04 | -0.43, 0.52 | 0.8 |
| IL10BL | 21 | 0.11 | -0.39, 0.62 | 0.6 |
| IL10Wk4 | 19 | -0.04 | -0.13, 0.05 | 0.4 |
| IL10Wk8 | 18 | -0.28 | -0.71, 0.16 | 0.2 |
| IL4Raox_7_16_BL | 30 | -0.27 | -0.74, 0.19 | 0.2 |
| IL4Raox_7_16_Wk4 | 31 | -0.04 | -0.42, 0.33 | 0.8 |
| IL4Raox_7_16_Wk8 | 30 | -0.01 | -0.42, 0.40 | >0.9 |
| IL10Raox_7_16_BL | 30 | -0.09 | -0.36, 0.17 | 0.5 |
| IL10Raox_7_16_Wk4 | 31 | -0.10 | -0.34, 0.13 | 0.4 |
| IL10Raox_7_16_Wk8 | 30 | -0.33 | -1.4, 0.71 | 0.5 |
| FGFBL | 15 | 0.03 | -0.18, 0.23 | 0.8 |
| FGFWk4 | 6 | -0.02 | -0.23, 0.19 | 0.8 |
| FGFWk8 | 9 | -0.01 | -0.11, 0.10 | 0.9 |
| VEGF-ElisaBL | 31 | 0.00 | -0.01, 0.01 | >0.9 |
| VEGF-ElisaWk4 | 31 | -0.01 | -0.01, 0.00 | 0.2 |
| VEGF-ElisaWk8 | 30 | 0.00 | -0.01, 0.01 | >0.9 |
| VEGFRaoxoldBL | 21 | -0.01 | -0.03, 0.01 | 0.3 |
| VEGFRaoxoldWk4 | 19 | 0.00 | -0.01, 0.02 | 0.6 |
| VEGFRaoxoldWk8 | 18 | 0.00 | -0.03, 0.02 | >0.9 |
| VEGFRaoxnewBL | 30 | -0.01 | -0.04, 0.02 | 0.5 |
| VEGFRaoxnewWk4 | 31 | 0.01 | -0.02, 0.03 | 0.6 |
| VEGFRaoxnewWk8 | 30 | 0.00 | -0.03, 0.03 | 0.8 |
| EGFBL | 21 | -0.05 | -0.22, 0.12 | 0.5 |
| EGFWk4 | 19 | 0.04 | -0.03, 0.10 | 0.2 |
| EGFWk8 | 18 | -0.07 | -0.22, 0.09 | 0.4 |
| EGFRaox_7_16_BL | 30 | -0.03 | -0.15, 0.09 | 0.6 |
| EGFRaox_7_16_Wk4 | 31 | -0.01 | -0.10, 0.09 | 0.9 |
| EGFRaox_7_16_Wk8 | 30 | 0.01 | -0.12, 0.14 | 0.8 |
| KynurenineAABL | 39 | 0.09 | -0.01, 0.18 | 0.071 |
| KynurenineAAWk4 | 37 | 0.02 | -0.06, 0.09 | 0.6 |
| KynurenineAAWk8 | 37 | 0.01 | -0.04, 0.05 | 0.7 |
| KynurenineKynABL | 39 | 0.00 | -0.06, 0.07 | >0.9 |
| KynurenineKynAWk4 | 37 | -0.03 | -0.09, 0.04 | 0.4 |
| KynurenineKynAWk8 | 37 | 0.01 | -0.06, 0.07 | 0.8 |
| KynurenineTrpBL | 39 | 0.00 | 0.00, 0.00 | 0.9 |
| KynurenineTrpWk4 | 37 | 0.00 | 0.00, 0.00 | 0.14 |
| KynurenineTrpWk8 | 37 | 0.00 | 0.00, 0.00 | 0.4 |
| KynurenineKynBL | 39 | 0.00 | 0.00, 0.00 | 0.6 |
| KynurenineKynWk4 | 37 | 0.00 | 0.00, 0.00 | 0.7 |
| KynurenineKynWk8 | 37 | 0.00 | 0.00, 0.00 | 0.9 |
| KynurenineXanBL | 38 | 0.01 | -0.10, 0.12 | 0.8 |
| KynurenineXanWk4 | 33 | -0.01 | -0.15, 0.13 | >0.9 |
| KynurenineXanWk8 | 33 | -0.03 | -0.15, 0.08 | 0.6 |
| KynureninePicBL | 39 | 0.02 | 0.00, 0.03 | 0.034 |
| KynureninePicWk4 | 37 | 0.01 | 0.00, 0.03 | 0.11 |
| KynureninePicWk8 | 37 | 0.01 | 0.00, 0.03 | 0.037 |
| KynurenineQuinBL | 39 | 0.00 | 0.00, 0.01 | 0.084 |
| KynurenineQuinWk4 | 37 | 0.00 | 0.00, 0.01 | 0.3 |
| KynurenineQuinWk8 | 37 | 0.00 | 0.00, 0.01 | 0.2 |
| KynurenineQuinaldABL | 39 | 0.05 | -0.09, 0.20 | 0.5 |
| KynurenineQuinaldAWk4 | 37 | 0.05 | -0.09, 0.18 | 0.5 |
| KynurenineQuinaldAWk8 | 37 | 0.14 | -0.07, 0.35 | 0.2 |
| Kynurenine3HKBL | 39 | -0.01 | -0.03, 0.01 | 0.2 |
| Kynurenine3HKWk4 | 37 | -0.02 | -0.04, 0.00 | 0.030 |
| Kynurenine3HKWk8 | 37 | -0.01 | -0.03, 0.02 | 0.7 |
| 1 CI = Confidence Interval | ||||
SIRI_BL was significantly associated with lower HAMD17_BL (p=0.008), higher TNFA_WK8 (p=0.007), higher PIC_BL (p=0.034) and PIC_WK8 (p=0.037), trending higher IL2_BL (p=0.053), trending lower IL4_BL (0.057), trending higher AA_BL (p=0.071), and trending lower 3HK_WK4 (p=0.030)
7 Univariate correlations with SII_BL
gtsummary::tbl_uvregression(
heatmap_df,
lm,
SII_BL,
conf.int=TRUE
)| Characteristic | N | Beta | 95% CI1 | p-value |
|---|---|---|---|---|
| BMI | 47 | -2.5 | -14, 9.2 | 0.7 |
| Age | 48 | -2.3 | -7.9, 3.4 | 0.4 |
| PLT_BL | 50 | 2.0 | 1.0, 2.9 | <0.001 |
| MONO_BL | 50 | 200 | -163, 564 | 0.3 |
| NEUT_BL | 50 | 131 | 99, 162 | <0.001 |
| LYMPH_BL | 50 | -108 | -217, 0.79 | 0.052 |
| PLT_WK8 | 49 | 1.1 | -0.18, 2.3 | 0.092 |
| MONO_WK8 | 48 | 176 | -168, 520 | 0.3 |
| NEUT_WK8 | 48 | 45 | 9.8, 80 | 0.013 |
| LYMPH_WK8 | 48 | -13 | -112, 85 | 0.8 |
| HAMD17_BL | 43 | -5.5 | -17, 6.0 | 0.3 |
| HAMA_BL | 44 | -2.1 | -11, 7.3 | 0.7 |
| HAMD17_WK8 | 43 | 0.44 | -9.2, 10 | >0.9 |
| HAMA_WK8 | 43 | 0.20 | -9.3, 9.8 | >0.9 |
| SIRI_BL | 50 | 243 | 162, 324 | <0.001 |
| SIRI_WK8 | 48 | 280 | 180, 380 | <0.001 |
| SII_WK8 | 48 | 0.83 | 0.61, 1.0 | <0.001 |
| TxGroup | 44 | -100 | -242, 41 | 0.2 |
| TreatmentResponse | 43 | -36 | -187, 114 | 0.6 |
| TreatmentRemission | 43 | -15 | -162, 132 | 0.8 |
| BLHamD17 | 43 | -5.0 | -18, 7.7 | 0.4 |
| Wk1HamD17 | 43 | -2.8 | -15, 9.7 | 0.7 |
| Wk2HamD17 | 43 | -2.8 | -14, 8.8 | 0.6 |
| Wk4HamD17 | 43 | 0.73 | -11, 13 | >0.9 |
| Wk8HamD17 | 43 | 2.1 | -8.8, 13 | 0.7 |
| HamDTxresponse | 43 | -36 | -187, 114 | 0.6 |
| HamABLTotal | 43 | -2.2 | -12, 7.3 | 0.6 |
| HamAWk1Total | 43 | 1.9 | -8.3, 12 | 0.7 |
| HamAWk2Total | 43 | -2.7 | -13, 8.0 | 0.6 |
| HamAWk4Total | 43 | -1.3 | -11, 8.4 | 0.8 |
| HamAWk8Total | 43 | 0.20 | -9.3, 9.8 | >0.9 |
| IL1ABL | 21 | -364 | -1,176, 448 | 0.4 |
| IL1AWk4 | 19 | -57 | -563, 449 | 0.8 |
| IL1AWk8 | 18 | 651 | -607, 1,908 | 0.3 |
| IL1BBL | 22 | -108 | -378, 161 | 0.4 |
| IL1BWk4 | 19 | -79 | -257, 100 | 0.4 |
| IL1BWk8 | 18 | 104 | -171, 379 | 0.4 |
| IL2BL | 21 | 4.3 | -59, 67 | 0.9 |
| IL2Wk4 | 19 | -26 | -79, 26 | 0.3 |
| IL2Wk8 | 18 | -5.5 | -55, 44 | 0.8 |
| IL6BL | 21 | -19 | -82, 44 | 0.5 |
| IL6Wk4 | 19 | -18 | -56, 19 | 0.3 |
| IL6Wk8 | 20 | -22 | -125, 81 | 0.7 |
| IL8BL | 21 | -5.5 | -28, 17 | 0.6 |
| IL8Wk4 | 19 | 6.2 | -16, 29 | 0.6 |
| IL8Wk8 | 18 | 2.0 | -9.1, 13 | 0.7 |
| IFNGBL | 21 | -85 | -187, 17 | 0.10 |
| IFNGWk4 | 19 | 2.9 | -23, 29 | 0.8 |
| IFNGWk8 | 18 | 31 | -195, 256 | 0.8 |
| TNFABL | 21 | -3.9 | -15, 7.1 | 0.5 |
| TNFAWk4 | 19 | 5.8 | -3.2, 15 | 0.2 |
| TNFAWk8 | 18 | -1.4 | -13, 10.0 | 0.8 |
| MCP1BL | 21 | -1.5 | -4.4, 1.3 | 0.3 |
| MCP1Wk4 | 19 | -1.3 | -3.2, 0.71 | 0.2 |
| MCP1Wk8 | 18 | -0.57 | -2.5, 1.3 | 0.5 |
| CRPSet1_ug_ml_BL | 15 | 9.7 | -19, 38 | 0.5 |
| CRPSet1_ug_ml_Wk4 | 13 | 3.3 | -18, 25 | 0.7 |
| CRPSet1_ug_ml_Wk8 | 13 | 5.8 | -19, 30 | 0.6 |
| CRPSet2_µg_ml_BL | 32 | 4.1 | -15, 23 | 0.7 |
| CRPSet2_µg_ml_Wk4 | 31 | 3.8 | -19, 27 | 0.7 |
| CRPSet2_µg_ml_Wk8 | 31 | 16 | -2.2, 34 | 0.082 |
| IL1ARaox_7_16_BL | 30 | 172 | -590, 934 | 0.6 |
| IL1ARaox_7_16_Wk4 | 31 | -126 | -1,159, 906 | 0.8 |
| IL1ARaox_7_16_Wk8 | 30 | -215 | -1,583, 1,153 | 0.7 |
| IL1BRaox_7_16_BL | 30 | 65 | -136, 265 | 0.5 |
| IL1BRaox_7_16_Wk4 | 31 | -17 | -91, 57 | 0.6 |
| IL1BRaox_7_16_Wk8 | 30 | 239 | -0.94, 478 | 0.051 |
| IL2-Raox_7_16_BL | 25 | 114 | -12, 240 | 0.073 |
| IL2-Raox_7_16_Wk4 | 29 | -13 | -91, 65 | 0.7 |
| IL2-Raox_7_16_Wk8 | 30 | 22 | -100, 144 | 0.7 |
| IL6Raox_7_16_BL | 30 | -27 | -122, 68 | 0.6 |
| IL6Raox_7_16_Wk4 | 31 | -3.6 | -108, 101 | >0.9 |
| IL6Raox_7_16_Wk8 | 31 | 1.1 | -122, 124 | >0.9 |
| IL8Raox_7_16_BL | 30 | -1.5 | -5.1, 2.1 | 0.4 |
| IL8Raox_7_16_Wk4 | 31 | -2.1 | -9.1, 4.8 | 0.5 |
| IL8Raox_7_16_Wk8 | 30 | -0.43 | -2.7, 1.8 | 0.7 |
| IFNGRaox_7_16_BL | 30 | 26 | -243, 295 | 0.8 |
| IFNGRaox_7_16_Wk4 | 31 | -222 | -557, 114 | 0.2 |
| IFNGRaox_7_16_Week8 | 30 | 187 | -206, 581 | 0.3 |
| TNFARaox_7_16_BL | 30 | -0.41 | -1.4, 0.58 | 0.4 |
| TNFARaox_7_16_Wk4 | 31 | -0.58 | -2.0, 0.88 | 0.4 |
| TNFARaox_7_16_Wk8 | 30 | 0.02 | -0.88, 0.93 | >0.9 |
| MCP1Raox_7_16_BL | 30 | -1.6 | -3.8, 0.68 | 0.2 |
| MCP1Raox_7_16_Wk4 | 31 | 0.39 | -1.3, 2.1 | 0.6 |
| MCP1Raox_7_16_Wk8 | 30 | -0.28 | -0.67, 0.11 | 0.2 |
| IL4BL | 26 | -87 | -188, 13 | 0.086 |
| IL4Wk4 | 19 | -36 | -193, 121 | 0.6 |
| IL4Wk8 | 18 | 16 | -133, 164 | 0.8 |
| IL10BL | 21 | 4.2 | -184, 192 | >0.9 |
| IL10Wk4 | 19 | -22 | -54, 9.6 | 0.2 |
| IL10Wk8 | 18 | -53 | -195, 89 | 0.4 |
| IL4Raox_7_16_BL | 30 | -40 | -197, 117 | 0.6 |
| IL4Raox_7_16_Wk4 | 31 | -27 | -153, 99 | 0.7 |
| IL4Raox_7_16_Wk8 | 30 | 3.1 | -131, 137 | >0.9 |
| IL10Raox_7_16_BL | 30 | -53 | -139, 33 | 0.2 |
| IL10Raox_7_16_Wk4 | 31 | -43 | -122, 36 | 0.3 |
| IL10Raox_7_16_Wk8 | 30 | -149 | -490, 192 | 0.4 |
| FGFBL | 15 | 29 | -48, 106 | 0.4 |
| FGFWk4 | 6 | 3.9 | -111, 119 | >0.9 |
| FGFWk8 | 9 | -12 | -65, 42 | 0.6 |
| VEGF-ElisaBL | 31 | -5.0 | -9.4, -0.54 | 0.029 |
| VEGF-ElisaWk4 | 31 | -2.5 | -5.4, 0.52 | 0.10 |
| VEGF-ElisaWk8 | 30 | -1.8 | -5.8, 2.1 | 0.3 |
| VEGFRaoxoldBL | 21 | -2.3 | -9.2, 4.6 | 0.5 |
| VEGFRaoxoldWk4 | 19 | 2.0 | -5.1, 9.0 | 0.6 |
| VEGFRaoxoldWk8 | 18 | -1.9 | -9.6, 5.9 | 0.6 |
| VEGFRaoxnewBL | 30 | -6.3 | -16, 3.6 | 0.2 |
| VEGFRaoxnewWk4 | 31 | -0.74 | -8.1, 6.6 | 0.8 |
| VEGFRaoxnewWk8 | 30 | 0.06 | -9.8, 9.9 | >0.9 |
| EGFBL | 21 | -18 | -81, 44 | 0.5 |
| EGFWk4 | 19 | 6.2 | -17, 29 | 0.6 |
| EGFWk8 | 18 | 4.1 | -46, 54 | 0.9 |
| EGFRaox_7_16_BL | 30 | 25 | -13, 63 | 0.2 |
| EGFRaox_7_16_Wk4 | 31 | -3.0 | -34, 28 | 0.8 |
| EGFRaox_7_16_Wk8 | 30 | 27 | -15, 69 | 0.2 |
| KynurenineAABL | 39 | 7.2 | -23, 38 | 0.6 |
| KynurenineAAWk4 | 37 | -7.8 | -34, 18 | 0.5 |
| KynurenineAAWk8 | 37 | -4.7 | -20, 11 | 0.5 |
| KynurenineKynABL | 39 | -8.0 | -28, 12 | 0.4 |
| KynurenineKynAWk4 | 37 | -12 | -35, 11 | 0.3 |
| KynurenineKynAWk8 | 37 | -10 | -31, 11 | 0.3 |
| KynurenineTrpBL | 39 | -0.01 | -0.02, 0.01 | 0.6 |
| KynurenineTrpWk4 | 37 | -0.01 | -0.04, 0.01 | 0.2 |
| KynurenineTrpWk8 | 37 | -0.02 | -0.04, 0.01 | 0.13 |
| KynurenineKynBL | 39 | 0.04 | -0.53, 0.62 | 0.9 |
| KynurenineKynWk4 | 37 | -0.19 | -0.75, 0.36 | 0.5 |
| KynurenineKynWk8 | 37 | -0.08 | -0.70, 0.53 | 0.8 |
| KynurenineXanBL | 38 | -12 | -46, 21 | 0.5 |
| KynurenineXanWk4 | 33 | -7.9 | -61, 45 | 0.8 |
| KynurenineXanWk8 | 33 | -24 | -62, 14 | 0.2 |
| KynureninePicBL | 39 | 0.50 | -5.0, 6.0 | 0.9 |
| KynureninePicWk4 | 37 | 4.0 | -2.3, 10 | 0.2 |
| KynureninePicWk8 | 37 | 1.3 | -3.5, 6.2 | 0.6 |
| KynurenineQuinBL | 39 | 0.56 | -1.2, 2.3 | 0.5 |
| KynurenineQuinWk4 | 37 | -0.35 | -2.5, 1.8 | 0.7 |
| KynurenineQuinWk8 | 37 | 0.33 | -1.9, 2.5 | 0.8 |
| KynurenineQuinaldABL | 39 | -7.7 | -53, 38 | 0.7 |
| KynurenineQuinaldAWk4 | 37 | 9.6 | -40, 59 | 0.7 |
| KynurenineQuinaldAWk8 | 37 | 24 | -46, 95 | 0.5 |
| Kynurenine3HKBL | 39 | -5.1 | -10, 0.30 | 0.064 |
| Kynurenine3HKWk4 | 37 | -6.5 | -13, 0.24 | 0.058 |
| Kynurenine3HKWk8 | 37 | -3.3 | -11, 4.2 | 0.4 |
| 1 CI = Confidence Interval | ||||
SII_BL was associated with lower VEGF_BL (p=0.029), and trending lower 3HK_BL (p=0.064), lower IL4_BL (p=0.086), higher IL2_BL (p=0.073), and higher IL1B (p=0.051)
8 SIRI MODEL 1: SIRI by HAMD17*Timepoint
SIRI_model_1<-lm(log(SIRI)~Age+BMI+HAMD17*Timepoint, data=SG_df_new_long)
# plot(SIRI_model_1, which=c(2,6))
sjPlot::tab_model(SIRI_model_1)| Â | log(SIRI) | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 0.94 | -0.03 – 1.91 | 0.057 |
| Age | -0.01 | -0.02 – 0.00 | 0.231 |
| BMI | -0.02 | -0.04 – 0.01 | 0.186 |
| HAMD17 | -0.01 | -0.04 – 0.02 | 0.437 |
| Timepoint [Week 8] | -0.62 | -1.41 – 0.17 | 0.124 |
|
HAMD17 * Timepoint [Week 8] |
0.05 | 0.00 – 0.09 | 0.035 |
| Observations | 86 | ||
| R2 / R2 adjusted | 0.102 / 0.046 | ||
SIRI_model_1<-lm(HAMD17~Age+BMI+SIRI*Timepoint, data=SG_df_new_long)
# plot(SIRI_model_1, which=c(2,6))
sjPlot::tab_model(SIRI_model_1)| Â | HAMD 17 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 18.98 | 10.19 – 27.77 | <0.001 |
| Age | 0.11 | 0.01 – 0.21 | 0.034 |
| BMI | 0.04 | -0.18 – 0.26 | 0.721 |
| SIRI | -2.20 | -4.93 – 0.53 | 0.113 |
| Timepoint [Week 8] | -18.38 | -23.42 – -13.34 | <0.001 |
| SIRI * Timepoint [Week 8] | 5.43 | 1.42 – 9.45 | 0.009 |
| Observations | 86 | ||
| R2 / R2 adjusted | 0.578 / 0.552 | ||
It appears SIRI may be associated with HAMD17 at the week 8 timepoint…
9 SIRI MODEL 2: Post-treatment HAMD17 by SIRI_BL
SIRI_model<-lm(HAMD17_WK8~Arm+HAMD17_BL+SIRI_BL, data=combined_df)
sjPlot::tab_model(SIRI_model)| Â | HAMD 17 WK 8 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 1.32 | -10.46 – 13.09 | 0.822 |
| Arm [PBO ESC] | 6.51 | 2.05 – 10.97 | 0.005 |
| HAMD17 BL | 0.29 | -0.08 – 0.67 | 0.123 |
| SIRI BL | 0.54 | -3.12 – 4.19 | 0.768 |
| Observations | 43 | ||
| R2 / R2 adjusted | 0.220 / 0.160 | ||
SIRI_model_interaction<-lm(HAMD17_WK8~Arm+HAMD17_BL*SIRI_BL, data=combined_df)
# plot(SIRI_model_interaction, which=c(2,6))
sjPlot::tab_model(SIRI_model_interaction)| Â | HAMD 17 WK 8 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 19.23 | 2.37 – 36.09 | 0.026 |
| Arm [PBO ESC] | 5.57 | 1.41 – 9.74 | 0.010 |
| HAMD17 BL | -0.55 | -1.24 – 0.15 | 0.122 |
| SIRI BL | -15.95 | -28.29 – -3.62 | 0.013 |
| HAMD17 BL * SIRI BL | 0.83 | 0.23 – 1.44 | 0.008 |
| Observations | 43 | ||
| R2 / R2 adjusted | 0.354 / 0.286 | ||
interactions::interact_plot(SIRI_model_interaction, pred = SIRI_BL, modx = HAMD17_BL, jitter=0.1, plot.points = TRUE, main.title = "Tx outcomes linked to baseline SIRI-to-HAMD17 interaction")
# SII MODEL 1: SII by HAMD17*Timepoint
SII_model_1<-lm(log(SII)~Age+BMI+HAMD17*Timepoint, data=SG_df_new_long)
# plot(SIRI_model_1, which=c(2,6))
sjPlot::tab_model(SII_model_1)| Â | log(SII) | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 6.26 | 5.46 – 7.06 | <0.001 |
| Age | -0.01 | -0.01 – 0.00 | 0.217 |
| BMI | -0.00 | -0.02 – 0.02 | 0.807 |
| HAMD17 | 0.00 | -0.02 – 0.03 | 0.721 |
| Timepoint [Week 8] | -0.13 | -0.79 – 0.52 | 0.685 |
|
HAMD17 * Timepoint [Week 8] |
0.02 | -0.02 – 0.05 | 0.373 |
| Observations | 86 | ||
| R2 / R2 adjusted | 0.045 / -0.015 | ||
SII_model_1<-lm(HAMD17~Age+BMI+SII*Timepoint, data=SG_df_new_long)
# plot(SIRI_model_1, which=c(2,6))
sjPlot::tab_model(SII_model_1)| Â | HAMD 17 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 16.03 | 6.97 – 25.09 | 0.001 |
| Age | 0.11 | 0.01 – 0.22 | 0.035 |
| BMI | 0.06 | -0.17 – 0.29 | 0.611 |
| SII | -0.00 | -0.01 – 0.01 | 0.954 |
| Timepoint [Week 8] | -16.53 | -22.55 – -10.51 | <0.001 |
| SII * Timepoint [Week 8] | 0.01 | -0.00 – 0.02 | 0.133 |
| Observations | 86 | ||
| R2 / R2 adjusted | 0.561 / 0.533 | ||
10 SII MODEL 1: post-treatment HAMD17 by SII_BL
SII_model<-lm(HAMD17_WK8~Arm+HAMD17_BL+SII_BL, data=combined_df)
sjPlot::tab_model(SII_model)| Â | HAMD 17 WK 8 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 3.07 | -7.63 – 13.77 | 0.565 |
| Arm [PBO ESC] | 6.71 | 2.25 – 11.18 | 0.004 |
| HAMD17 BL | 0.27 | -0.08 – 0.62 | 0.132 |
| SII BL | -0.00 | -0.01 – 0.01 | 0.807 |
| Observations | 43 | ||
| R2 / R2 adjusted | 0.219 / 0.159 | ||
SII_model_interaction<-lm(HAMD17_WK8~Arm+HAMD17_BL+SII_BL*Age, data=combined_df)
# plot(SII_model_interaction, which=c(2,6))
sjPlot::tab_model(SII_model_interaction)| Â | HAMD 17 WK 8 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 23.15 | 4.39 – 41.92 | 0.017 |
| Arm [PBO ESC] | 5.05 | 0.77 – 9.33 | 0.022 |
| HAMD17 BL | 0.06 | -0.27 – 0.40 | 0.696 |
| SII BL | -0.04 | -0.07 – -0.01 | 0.004 |
| Age | -0.35 | -0.68 – -0.02 | 0.036 |
| SII BL * Age | 0.00 | 0.00 – 0.00 | 0.002 |
| Observations | 43 | ||
| R2 / R2 adjusted | 0.415 / 0.336 | ||
interactions::interact_plot(SII_model_interaction, pred = SII_BL, modx = Age, jitter=0.1, plot.points = TRUE, main.title = "Tx outcomes linked to baseline SII-to-Age interaction")
11 Modelling HAMD17_WK8 by cell-count/age interaction
test<-lm(HAMD17_WK8~NEUT_BL*HAMD17_BL, data=combined_df)
sjPlot::tab_model(test)| Â | HAMD 17 WK 8 | ||
|---|---|---|---|
| Predictors | Estimates | CI | p |
| (Intercept) | 38.94 | 10.56 – 67.31 | 0.008 |
| NEUT BL | -7.95 | -14.31 – -1.58 | 0.016 |
| HAMD17 BL | -1.31 | -2.49 – -0.14 | 0.029 |
| NEUT BL * HAMD17 BL | 0.38 | 0.11 – 0.66 | 0.007 |
| Observations | 43 | ||
| R2 / R2 adjusted | 0.209 / 0.148 | ||
interactions::interact_plot(test, pred = NEUT_BL, modx = HAMD17_BL, jitter=0.1, plot.points = TRUE, main.title = "Tx outcomes linked to baseline NEUT-to-HAMD17 interaction")