Additional file 2 of Identification and validation of tissue or ctDNA PTPRD phosphatase domain deleterious mutations as prognostic and predictive biomarkers for immune checkpoint inhibitors in non-squamous NSCLC
Creators: name: Sun, Yiting
name: Duan, Jianchun
name: Fang, Wenfeng
name: Wang, Zhijie
name: Du, Xinyang
name: Wang, Xin
name: Li, Chengcheng
name: Cai, Shangli
name: Zhao, Jie
name: Li, Sini
name: Zhang, Li
name: Bai, Hua
name: Wang, Jie
Publisher: name: figshare
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Virology

description: Additional file 2: Figure S1. PTPRD mutation was not a prognostic biomarker for ICIs in squamous lung cancers. a-c PFS of PTPRD mutation/WT group squamous lung cancer in validation cohort-1 (a), validation cohort-2 (b), MSKCC-240 cohort (c). d OS of PTPRD mutation/WT group squamous lung cancer in MSKCC-350 cohort. e-g PFS of PTPRD mutation/WT group squamous lung cancer in validation cohort-3 (e), OAK (f) and POPLAR (g) cohort. h-j OS of PTPRD mutation/WT group of squamous lung cancers in validation cohort-3 (h), OAK (i) and POPLAR (j) cohort. Figure S2. Predicting PFS efficiency of PTPRD mutation in 4 tissue cohorts. a-b PFS of PTPRD mutation/WT group of NSCLC (a) or ns-NSCLC (b) in Miao &amp; N.Rizvi cohort. c-d PFS of PTPRD mutation/WT group NSCLC (c) or ns-NSCLC (d) in Hellmann cohort. e-f PFS of PTPRD mutation/WT group of NSCC (e) or ns-NSCLC (f) in MSKCC-240 cohort. Figure S3. Predicting OS efficiency of PTPRD mutation in 2 tissue cohorts. a-b Overall survivals of PTPRD mutation/WT group of NSCLC (a) or ns-NSCLC (b) in MSKCC-350. c-d Overall survivals of PTPRD mutation/WT group of NSCLC (c) or ns-NSCLC (d) in Miao cohort. Figure S4. Predicting prognosis efficiency of ctDNA PTPRD mutation in OAK/POPLAR cohort. a-b PFS of PTPRD mutation/WT group of NSCLC in OAK (a) or POPLAR (b) cohort. c-d PFS of PTPRD mutation/WT group of ns-NSCLC in OAK (c) or POPLAR (d) cohort. e-f OS of PTPRD mutation/WT group of NSCLC in OAK (e) or POPLAR (f) cohort. g-h OS of PTPRD mutation/WT group of ns-NSCLC in OAK (g) or POPLAR (h) cohort. Figure S5. Predicting prognosis efficiency of PTPRD other-mut. a-b PFS of phosphatase-mut (a) or WT (b) vs other-mut in ns-NSCLC of the discovery cohort. c-d PFS of phosphatase-mut (c) or WT (d) vs other-mut in ns-NSCLC of validation cohort-1. e-f OS of phosphatase-mut (e) or WT (f) vs other-mut in ns-NSCLC of validation cohort-2. g-h PFS of phosphatase-mut (g) or WT (h) vs other-mut in ns-NSCLC of a merged cohort of validation cohort-3. i-j OS of phosphatase-mut (i) or WT (j) vs other-mut in ns-NSCLC of validation cohort-3. Figure S6. Predicting prognosis efficiency of PTPRD different mutation types in tissue cohorts. a-c PFS of WT vs phosphatase-mut (a), other-mut vs WT (b) and phosphatase-mut vs other-mut (c) in ns-NSCLC in the MSKCC-240 cohort. d-f PFS of WT vs phosphatase-mut (d), other-mut vs WT (e) and phosphatase-mut vs other-mut (f) in ns-NSCLC in the Hellmann cohort. g-i PFS of WT vs phosphatase-mut (g), other-mut vs WT (h) and phosphatase-mut vs other-mut (i) in ns-NSCLC in the Miao &amp; N.Rizvi cohort. j-l OS of WT vs phosphatase-mut (j), other-mut vs WT (k) and phosphatase-mut vs other-mut (l) in ns-NSCLC in the MSKCC-350 cohort. m-o OS of WT vs phosphatase-mut (m), other-mut vs WT (n) and phosphatase-mut vs other-mut (o) in ns-NSCLC in the Miao cohort. Figure S7. Predicting prognosis efficiency of different PTPRD mutation types in ctDNA cohorts.a-c PFS of WT vs phosphatase-mut (a), other-mut vs WT (b) and phosphatase-mut vs other-mut (c) in ns-NSCLC in the OAK cohort. d-f PFS of WT vs phosphatase-mut (d), other-mut vs WT (e) and phosphatase-mut vs other-mut (f) in ns-NSCLC in the POPLAR cohort. g-i OS of WT vs phosphatase-mut (g), other-mut vs WT (h) and phosphatase-mut vs other-mut (i) in ns-NSCLC in the OAK cohort. j-l OS of WT vs phosphatase-mut (j), other-mut vs WT (k) and phosphatase-mut vs other-mut (l) in ns-NSCLC in the POPLAR cohort. Figure S8. PTPRD phosphatase-mut predicting prognosis efficiency was independent on TP53/EGFR/KRAS mutation. a-d Interaction plot of PTPRD and TP53, EGFR, KRAS, STK11, KEAP1 in WES cohort (a), MSKCC-240 and MSKCC-350 cohort (b), OAK/POPLAR cohort (c) and TCGA-LUAD cohort (d). e-i HR forest plot of TP53/EGFR/KRAS in ns-NSCLC of discover cohort (e), validation cohort-1(f), validation cohort-2(g) and validation cohort-3 (h-i). Figure S9. PTPRD is not a prognosis biomarker for surgery and adjuvant chemotherapy in lung adenocarcinomas. a-b PFS of WT vs mutation (a) or phosphatase-mut (b) in TCGA-LUAD cohort. c PFS of PTPRD expression high vs low in TCGA-LUAD. d-e OS of WT vs mutation (d) or phosphatase-mut (e) in TCGA-LUAD cohort. f OS of PTPRD expression high vs low in TCGA-LUAD. Figure S10. PTPRD mutation predicting prognosis efficiency in other cancer types.a-f PTPRD mutations predicting OS efficiency in melanoma (a), bladder cancer (b), esophagastric cancer (c), head and neck cancer (d), colorectal cancer (e) and cancer of unknown primary (f) of NG1661 cohort.