| Literature DB >> 34707388 |
Sisi Chang1, Yahui Zhu2, Yutan Xi2, Fuyan Gao2, Juanjuan Lu2, Liang Dong1, Chunzheng Ma1, Honglin Li1.
Abstract
PURPOSE: To evaluate the role of DSCC1 in LUAD. PATIENTS AND METHODS: Based on TCGA and GTEx, the Wilcoxon rank-sum test was used to compare the expression differences of DSCC1 between the normal samples of GTEx combined TCGA and the unpaired tumor samples of TCGA, and to compare DSCC1 expression values between tumor tissues and paired normal LUAD tissues in the TCGA cohort. Kruskal-Wallis rank-sum test, Wilcoxon rank-sum test, and logistics regression were used to compare the relationship between the expression of DSCC1 and the clinicopathological parameters. The biological function of DSCC1 was annotated by GSEA and ssGSEA, while Kaplan-Meier and Cox regression analysis were used to evaluate the prognostic value of DSCC1. Furthermore, the time-dependent ROC curve was used to analyze the diagnostic efficacy of DSCC1 in LUAD.Entities:
Keywords: DSCC1; GSEA; LUAD; biomarker; prognosis
Year: 2021 PMID: 34707388 PMCID: PMC8542575 DOI: 10.2147/IJGM.S329482
Source DB: PubMed Journal: Int J Gen Med ISSN: 1178-7074
Figure 1Flowchart showed the analysis strategy. The design and process of our study are shown in the flowchart, included data selection and exclusion.
The Characteristics of LUAD Patients in TCGA
| Characters | Level | Low Expression of DSCC1 (n=257) | High Expression of DSCC1 (n=256) | |
|---|---|---|---|---|
| T stage (%) | T1 | 103 (40.4%) | 65 (25.5%) | 0.002b |
| T2 | 118 (46.3%) | 158 (62.0%) | ||
| T3 | 25 (9.8%) | 22 (8.6%) | ||
| T4 | 9 (3.5%) | 10 (3.9%) | ||
| N stage (%) | N0 | 180 (72.6%) | 150 (59.3%) | 0.005a |
| N1 | 41 (16.5%) | 54 (21.3%) | ||
| N2 | 27 (10.9%) | 47 (18.6%) | ||
| N3 | 0 (0.0%) | 2 (0.8%) | ||
| M stage (%) | M0 | 174 (96.1%) | 170 (90.4%) | 0.048b |
| M1 | 7 (3.9%) | 18 (9.6%) | ||
| Pathologic stage (%) | Stage I | 159 (63.3%) | 115 (45.3%) | <0.001b* |
| Stage II | 52 (20.7%) | 69 (27.2%) | ||
| Stage III | 32 (12.7%) | 52 (20.5%) | ||
| Stage IV | 8 (3.2%) | 18 (7.1%) | ||
| Primary therapy outcome (%) | CR | 169 (77.2%) | 146 (70.5%) | 0.027a |
| PD | 25 (11.4%) | 43 (20.8%) | ||
| PR | 5 (2.3%) | 1 (0.5%) | ||
| SD | 20 (9.1%) | 17 (8.2%) | ||
| Gender (%) | Female | 155 (60.3%) | 121 (47.3%) | 0.004b |
| Male | 102 (39.7%) | 135 (52.7%) | ||
| Race (%) | Asian | 4 (1.7%) | 3 (1.4%) | 1.000a |
| Black or African American | 27 (11.7%) | 25 (11.6%) | ||
| White | 200 (86.6%) | 187 (87.0%) | ||
| Smoker (%) | No | 48 (19.4%) | 26 (10.4%) | 0.007b |
| Yes | 200 (80.6%) | 225 (89.6%) | ||
| Tumor status (%) | Tumor free | 154 (66.4%) | 134 (59.3%) | 0.141b |
| With tumor | 78 (33.6%) | 92 (40.7%) | ||
| TP53 status (%) | Mut | 74 (29.0%) | 167 (66.0%) | <0.001b* |
| WT | 181 (71.0%) | 86 (34.0%) | ||
| KRAS status (%) | Mut | 73 (28.6%) | 66 (26.1%) | 0.587b |
| WT | 182 (71.4%) | 187 (73.9%) | ||
| Age (median [IQR]) | 67.00 [60.00,74.00] | 64.00 [58.00,71.00] | 0.003c | |
| Number pack years smoked (median [IQR]) | 35.00 [20.00,51.50] | 40.00 [25.00,50.00] | 0.115c |
Notes: aFisher’s exact test; bChi-squared test; cWilcoxon rank-sum test; *Statistically significant.
Figure 2DSCC1 expression levels in different types of human cancers (A), ns, P≥0.05; *P < 0.05; **P < 0.01; ***P < 0.001. The higher expression level of DSCC1 is shown in LUAD compared with normal samples (P < 0.001) (B). DSCC1 expression levels in LUAD and matched normal lung tissues in TCGA cohort (P < 0.001) (C).
Figure 3Association between DSCC1 expression and clinicopathologic characteristics, including T stage (A), N stage (B), M stage (C), pathological stage (D), tumor status (E), primary treatment outcome (F), and TP53 status (G), smoking (H), and sex (I).
Relationship Between Clinicopathologic Features and Gene TPM in LUAD
| Characteristics | Total(N) | Odds Ratio in DSCC1 Expression | |
|---|---|---|---|
| T stage (T2&T3&T4 vs T1) | 510 | 1.04 (1.02–1.07) | 0.002 |
| N stage (N1&N2&N3 vs N0) | 501 | 1.02 (1.00–1.04) | 0.081 |
| M stage (M1 vs M0) | 369 | 1.03 (0.99–1.06) | 0.113 |
| Pathologic stage (Stage II&Stage III&Stage IV vs Stage I) | 505 | 1.03 (1.01–1.05) | 0.008 |
| Primary therapy outcome (PD&SD&PR vs CR) | 426 | 1.02 (0.99–1.04) | 0.143 |
| Race (Asian&Black or African American vs White) | 446 | 0.99 (0.96–1.02) | 0.748 |
| Tumor status (With tumor vs Tumor free) | 458 | 1.02 (0.99–1.04) | 0.184 |
| TP53 status (Mut vs WT) | 508 | 1.10 (1.07–1.14) | <0.001 |
| KRAS status (Mut vs WT) | 508 | 0.98 (0.95–1.00) | 0.066 |
Abbreviations: PD, Progressive Disease; SD, Stable Disease; PR, Partial Response; CR, Complete Response; Mut, Mutant; WT, Wide Type; TPM, transcriptspermillionreads.
Univariate and Multivariate COX Proportional Hazards Analysis of OS for Patients
| Characteristics | Total(N) | Univariate Analysis HR(95% CI) | Multivariate Analysis HR(95% CI) | ||
|---|---|---|---|---|---|
| Tumor status (With tumor vs Tumor free) | 450 | 6.211 (4.258–9.059) | < 0.001a | 6.064 (3.596–10.226) | <0.001a |
| Primary therapy outcome (PD&SD&PR vs CR) | 419 | 2.818 (2.004–3.963) | < 0.001a | 1.774 (1.136–2.771) | 0.012 |
| DSCC1 (High vs Low) | 504 | 1.531 (1.142–2.054) | 0.004 | 1.683 (1.071–2.643) | 0.024 |
| T stage (T2&T3&T4 vs T1) | 501 | 1.668 (1.184–2.349) | 0.003 | 1.237 (0.714–2.143) | 0.448 |
| N stage (N1&N2&N3 vs N0) | 492 | 2.606 (1.939–3.503) | < 0.001a | 1.631 (0.792–3.360) | 0.184 |
| M stage (M1 vs M0) | 360 | 2.111 (1.232–3.616) | 0.007 | 0.852 (0.355–2.048) | 0.721 |
| Pathologic stage (Stage II & Stage III & Stage IV vs Stage I) | 496 | 2.975 (2.188–4.045) | < 0.001a | 0.935 (0.424–2.062) | 0.867 |
| Gender (Male vs Female) | 504 | 1.060 (0.792–1.418) | 0.694 | ||
| Age (>65 vs ≤65) | 494 | 1.228 (0.915–1.649) | 0.171 | ||
| Race (White vs Asian & Black or African American) | 446 | 1.422 (0.869–2.327) | 0.162 | ||
| Anatomic neoplasm subdivision (Right vs Left) | 490 | 1.024 (0.758–1.383) | 0.878 | ||
| Anatomic neoplasm subdivision2 (Peripheral Lung vs Central Lung) | 182 | 0.913 (0.570–1.463) | 0.706 | ||
| Number pack years smoked (≥40 vs <40) | 345 | 1.038 (0.723–1.490) | 0.840 | ||
| Smoker (Yes vs No) | 490 | 0.887 (0.587–1.339) | 0.568 | ||
| TP53 status (Mut vs WT) | 499 | 1.254 (0.936–1.680) | 0.130 | ||
| KRAS status (Mut vs WT) | 499 | 1.087 (0.779–1.517) | 0.623 |
Note: aStatistically significant.
Abbreviations: PD, Progressive Disease; SD, Stable Disease; PR, Partial Response; CR, Complete Response; Mut, Mutant; WT, Wide Type; TPM, transcriptspermillionreads; CI, confidence interval; HR, hazard ratio.
Figure 4Impact of DSCC1 expression on overall survival (A), disease-specific survival (B) in patients with LUAD in TCGA (The Cancer Genome Atlas) cohort. Receiver operating characteristic is used to evaluate the diagnostic efficacy of DSCC1 for LUAD (C).
Gene Sets Enriched in Phenotype High
| Gene Set Name | NES | P. adjust | FDR |
|---|---|---|---|
| SHEDDEN_LUNG_CANCER_POOR_SURVIVAL_A6 | 2.904 | 0.018 | 0.014 |
| KOBAYASHI_EGFR_SIGNALING_24HR_DN | 2.872 | 0.018 | 0.014 |
| CROONQUIST_IL6_DEPRIVATION_DN | 2.703 | 0.018 | 0.014 |
| KEGG_CELL_CYCLE | 2.4 | 0.018 | 0.014 |
| KEGG_P53_SIGNALING_PATHWAY | 1.652 | 0.051 | 0.038 |
| KEGG_B_CELL_RECEPTOR_SIGNALING_PATHWAY | −1.399 | 0.112 | 0.083 |
| KEGG_VEGF_SIGNALING_PATHWAY | −1.433 | 0.087 | 0.065 |
| KEGG_LINOLEIC_ACID_METABOLISM | −2.079 | 0.024 | 0.018 |
Notes: Gene sets with P. adjust < 0.05 and FDR < 0.25 are considered as significant.
Abbreviations: NES, normalized enrichment score; FDR, false discovery rate; KEGG, Kyoto Encyclopedia of Genes and Genomes.
Figure 5The expression level of DSCC1 was associated with the immune infiltration in the tumor microenvironment. The forest plot shows the correlation between DSCC1 expression and immune cell subsets (A). We used Spearman correlation to analyze the correlation between DSCC1 expression and Th2 cells (B) and T helper cells (C). The Wilcoxon rank-sum test was used to analyze the differences in the infiltration level of Th2 cells (D) and T helper cells (E) between the high and low DSCC1 expression groups.