[Paper-level Aggregated] PMCID: PMC7099049

Evidence Type(s): Functional

Summary: Mutation: rs16879870 | Summary: The genotype of rs16879870 is significantly associated with the expression of the gene GJB7 in cancer tissues, with allele A linked to increased mRNA expression levels, indicating a potential functional impact on gene expression.

Evidence Type: Functional Mutation: rs854936 | Summary: The genotype of rs854936 is significantly associated with the expression of the gene RTN4R in cancer tissues, with allele C linked to increased mRNA levels, suggesting a functional role in gene expression.

Gene→Variant (gene-first): NA:rs16879870 NA:rs854936

Genes: NA

Variants: rs16879870 rs854936

[Paper-level Aggregated] PMCID: PMC7099049

Evidence Type(s): Prognostic

Summary: Mutation: rs16879870 | Summary: The variant rs16879870 is significantly associated with HNSCC survival and correlates with disease outcome independent of therapy. It is linked to an increased risk of death in patients with HNSCC, and higher expression of GJB7 in cancer tissues correlates with worse prognosis, indicating its potential role as a prognostic marker.

Evidence Type: Prognostic Mutation: rs2641256 | Summary: The variant rs2641256 shows a significant association with HNSCC patients' survival and contributes to the risk of death, suggesting it may serve as a prognostic indicator with implications for survival independent of therapy.

Evidence Type: Prognostic Mutation: rs2761591 | Summary: The variant rs2761591 is significantly associated with HNSCC survival and linked to an increased risk of overall death, highlighting its potential prognostic value and role in disease outcome independent of therapy.

Evidence Type: Prognostic Mutation: rs854936 | Summary: The variant rs854936 demonstrates a significant correlation with HNSCC patients' survival and is associated with a higher risk of death, indicating its relevance as a prognostic factor. Increased expression of RTN4R in cancer tissues is also associated with worse prognosis in HNSCC patients.

Gene→Variant (gene-first): NA:rs16879870 SCIMP(388325):rs2641256 DCDC1(341019):rs2761591 NA:rs854936

Genes: NA SCIMP(388325) DCDC1(341019)

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paper-level Aggregated] PMCID: PMC7099049

Evidence Type(s): Predictive

Summary: No supporting paragraph-level outputs for evidence type Predictive.

Gene→Variant (gene-first):

Genes:

Variants:

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 13

Evidence Type(s): Functional, Prognostic

Summary: Evidence Type: Functional | Mutation: rs16879870 | Summary: The allele A of rs16879870 is associated with an increased mRNA expression level of gene GJB7, indicating a potential functional impact on gene expression. Evidence Type: Functional | Mutation: rs854936 | Summary: The allele C of rs854936 is associated with an increased mRNA level of gene RTN4R, suggesting a functional role in gene expression. Evidence Type: Prognostic | Mutation: rs16879870 | Summary: Higher expression of GJB7 in cancer tissues correlates with worse prognosis in HNSCC patients, indicating a prognostic significance of this variant. Evidence Type: Prognostic | Mutation: rs854936 | Summary: Increased expression of RTN4R in cancer tissues is associated with worse prognosis in HNSCC patients, highlighting its prognostic relevance.

Gene→Variant (gene-first): NA:rs16879870 NA:rs854936

Genes: NA

Variants: rs16879870 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 11

Evidence Type(s): Prognostic

Summary: Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The variant rs2761591 is associated with death in head and neck squamous cell carcinoma (HNSCC), indicating its potential role in disease outcome independent of therapy.

Gene→Variant (gene-first): 341019:rs2761591

Genes: 341019

Variants: rs2761591

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 9

Evidence Type(s): Prognostic, Predictive

Summary: Evidence Type: Prognostic | Mutation: None | Summary: The passage discusses the use of NRG in predicting survival outcomes in HNSCC, indicating a correlation with disease outcome independent of therapy. Evidence Type: Predictive | Mutation: None | Summary: The mention of the ROC model assessing the ability of NRG in predicting survival suggests a correlation with response to treatment, indicating predictive value.

Gene→Variant (gene-first): 2264:AUC from 0

Genes: 2264

Variants: AUC from 0

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 7

Evidence Type(s): Prognostic

Summary: Evidence Type: Prognostic | Mutation: rs16879870 | Summary: The variant rs16879870 is associated with an increased risk of death in patients with HNSCC, indicating its prognostic value in survival outcomes. Evidence Type: Prognostic | Mutation: rs2641256 | Summary: The variant rs2641256 contributes to the risk of death in HNSCC patients, suggesting it has prognostic implications for survival. Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The variant rs2761591 is linked to an increased hazard of death in HNSCC, highlighting its role as a prognostic marker. Evidence Type: Prognostic | Mutation: rs854936 | Summary: The variant rs854936 is associated with a higher risk of death in HNSCC patients, indicating its prognostic significance in survival analysis.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 6

Evidence Type(s): Prognostic

Summary: Evidence Type: Prognostic | Mutation: rs16879870 | Summary: The genotypes CA+AA of rs16879870 are associated with a decreased survival time in patients, indicating a correlation with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs2641256 | Summary: The genotype AA of rs2641256 is associated with an increased death risk in HNSCC, suggesting a correlation with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The genotype GA of rs2761591 is linked to an increased risk of overall death, indicating a correlation with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs854936 | Summary: The genotype AC of rs854936 is associated with an increased risk of overall death, suggesting a correlation with disease outcome independent of therapy.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 5

Evidence Type(s): Prognostic

Summary: Evidence Type: Prognostic | Mutation: rs16879870 | Summary: The variant rs16879870 is significantly correlated with HNSCC patients' survival, indicating its potential role as a prognostic marker. Evidence Type: Prognostic | Mutation: rs2641256 | Summary: The variant rs2641256 shows a significant association with HNSCC patients' survival, suggesting it may serve as a prognostic indicator. Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The variant rs2761591 is correlated with HNSCC patients' survival, highlighting its potential prognostic value. Evidence Type: Prognostic | Mutation: rs854936 | Summary: The variant rs854936 demonstrates a significant correlation with HNSCC patients' survival, indicating its relevance as a prognostic factor.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 4

Evidence Type(s): Prognostic

Summary: Evidence Type: Prognostic | Mutation: rs16879870 | Summary: The SNP rs16879870 is suggested to correlate with disease outcome in head and neck squamous cell carcinoma (HNSCC). Evidence Type: Prognostic | Mutation: rs2641256 | Summary: The SNP rs2641256 is suggested to correlate with disease outcome in head and neck squamous cell carcinoma (HNSCC). Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The SNP rs2761591 is suggested to correlate with disease outcome in head and neck squamous cell carcinoma (HNSCC). Evidence Type: Prognostic | Mutation: rs854936 | Summary: The SNP rs854936 is suggested to correlate with disease outcome in head and neck squamous cell carcinoma (HNSCC).

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 3

Evidence Type(s): Prognostic, Functional

Summary: Evidence Type: Prognostic | Mutation: rs16879870 | Summary: The variant rs16879870 is significantly associated with HNSCC survival, indicating its correlation with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs2641256 | Summary: The variant rs2641256 is significantly associated with HNSCC survival, suggesting it correlates with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs2761591 | Summary: The variant rs2761591 is significantly associated with HNSCC survival, indicating its correlation with disease outcome independent of therapy. Evidence Type: Prognostic | Mutation: rs854936 | Summary: The variant rs854936 is significantly associated with HNSCC survival, suggesting it correlates with disease outcome independent of therapy. Evidence Type: Functional | Mutation: rs16879870 | Summary: The genotype of rs16879870 is significantly associated with the expression of the gene GJB7 in cancer tissues, indicating an alteration in molecular function. Evidence Type: Functional | Mutation: rs854936 | Summary: The genotype of rs854936 is significantly associated with the expression of the gene RTN4R in cancer tissues, indicating an alteration in molecular function.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paper-level Aggregated] PMCID: PMC7099049

Evidence Type(s): Prognostic, Functional

Justification: Prognostic: The SNPs rs16879870, rs2641256, rs2761591, and rs854936 were significantly associated with HNSCC survival, indicating their potential role in predicting patient outcomes. Functional: The genotypes of rs16879870 and rs854936 were significantly associated with the expression of genes GJB7 and RTN4R, respectively, suggesting a functional impact on gene expression related to HNSCC.

Gene→Variant (gene-first): FGFR4(2264):AUC from 0 NA:rs16879870 SCIMP(388325):rs2641256 DCDC1(341019):rs2761591 NA:rs854936

Genes: FGFR4(2264) NA SCIMP(388325) DCDC1(341019)

Variants: AUC from 0 rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 13

Evidence Type(s): Functional, Prognostic

Justification: Functional: The passage discusses how the alleles of rs16879870 and rs854936 are associated with increased mRNA expression levels of their corresponding genes, indicating an alteration in molecular function. Prognostic: The passage reports that higher expression levels of the genes GJB7 and RTN4R correlate with worse prognosis in HNSCC patients, indicating a relationship with disease outcome independent of therapy.

Gene→Variant (gene-first): NA:rs16879870 NA:rs854936

Genes: NA

Variants: rs16879870 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 11

Evidence Type(s): Prognostic

Justification: Prognostic: The passage discusses the effects of risk genotypes, including rs2761591, on death with HNSCC, indicating a correlation with disease outcome.

Gene→Variant (gene-first): 341019:rs2761591

Genes: 341019

Variants: rs2761591

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 9

Evidence Type(s): Prognostic, Predictive

Justification: Prognostic: The passage discusses the ability of a model to predict survival in HNSCC, indicating a correlation between the variant and disease outcome. Predictive: The mention of using NRG in a prediction model for HNSCC survival suggests a relationship with treatment response or sensitivity, aligning with predictive evidence.

Gene→Variant (gene-first): 2264:AUC from 0

Genes: 2264

Variants: AUC from 0

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 7

Evidence Type(s): Prognostic, Diagnostic

Justification: Prognostic: The passage discusses how the number of risk genotypes (NRG) correlates with the hazard of death in patients with HNSCC, indicating a relationship between the variants and disease outcome. Diagnostic: The variants are used to define and classify patients into groups based on the number of risk genotypes, which is associated with survival outcomes in HNSCC.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 6

Evidence Type(s): Prognostic, Diagnostic

Justification: Prognostic: The passage discusses the association of specific SNP genotypes with survival outcomes in HNSCC, indicating that these variants correlate with risk of death independent of therapy. Diagnostic: The passage mentions the classification performance of risk genotypes of selected SNPs, suggesting their use in defining or classifying disease risk.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 5

Evidence Type(s): Prognostic

Justification: Prognostic: The passage discusses the correlation of specific SNPs with HNSCC patients' survival, indicating that these variants are associated with disease outcome independent of therapy.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 4

Evidence Type(s): Prognostic

Justification: Prognostic: The passage indicates that the SNPs are suggested to play a crucial role in the prognosis of HNSCC, which correlates with disease outcome.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 3

Evidence Type(s): Prognostic, Functional

Justification: Prognostic: The passage discusses the association of SNPs with HNSCC survival, indicating that these variants correlate with disease outcome, specifically overall survival, independent of therapy. Functional: The passage mentions that the genotype of rs16879870 and rs854936 is significantly associated with the expression of specific genes in cancer tissues, suggesting that these variants alter molecular function.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 13

Evidence Type(s): Functional, Prognostic

Justification: Functional: The passage discusses how the alleles of rs16879870 and rs854936 are associated with increased mRNA expression levels of their corresponding genes, indicating an alteration in molecular function. Prognostic: The passage reports that higher expression levels of the genes GJB7 and RTN4R correlate with worse prognosis in HNSCC patients, indicating a relationship with disease outcome independent of therapy.

Gene→Variant (gene-first): NA:rs16879870 NA:rs854936

Genes: NA

Variants: rs16879870 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 11

Evidence Type(s): Prognostic

Justification: Prognostic: The passage discusses the effects of risk genotypes, including rs2761591, on death with HNSCC, indicating a correlation with disease outcome.

Gene→Variant (gene-first): 341019:rs2761591

Genes: 341019

Variants: rs2761591

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 9

Evidence Type(s): Prognostic, Predictive

Justification: Prognostic: The passage discusses the ability of a model to predict survival in HNSCC, indicating a correlation between the variant and disease outcome. Predictive: The mention of using NRG in a prediction model for HNSCC survival suggests a relationship with treatment response or sensitivity, aligning with predictive evidence.

Gene→Variant (gene-first): 2264:AUC from 0

Genes: 2264

Variants: AUC from 0

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 7

Evidence Type(s): Prognostic, Diagnostic

Justification: Prognostic: The passage discusses how the number of risk genotypes (NRG) correlates with the hazard of death in patients with HNSCC, indicating a relationship between the variants and disease outcome. Diagnostic: The variants are used to define and classify patients into groups based on the number of risk genotypes, which is associated with survival outcomes in HNSCC.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 6

Evidence Type(s): Prognostic, Diagnostic

Justification: Prognostic: The passage discusses the association of specific SNP genotypes with survival outcomes in HNSCC, indicating that these variants correlate with risk of death independent of therapy. Diagnostic: The passage mentions the classification performance of risk genotypes of selected SNPs, suggesting their use in defining or classifying disease risk.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: RESULTS PassageIndex: 5

Evidence Type(s): Prognostic

Justification: Prognostic: The passage discusses the correlation of specific SNPs with HNSCC patients' survival, indicating that these variants are associated with disease outcome independent of therapy.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 4

Evidence Type(s): Prognostic

Justification: Prognostic: The passage indicates that the SNPs are suggested to play a crucial role in the prognosis of HNSCC, which correlates with disease outcome.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936

[Paragraph-level] PMCID: PMC7099049 Section: ABSTRACT PassageIndex: 3

Evidence Type(s): Prognostic, Functional

Justification: Prognostic: The passage discusses the association of SNPs with HNSCC survival, indicating that these variants correlate with disease outcome, specifically overall survival, independent of therapy. Functional: The passage mentions that the genotype of rs16879870 and rs854936 is significantly associated with the expression of specific genes in cancer tissues, suggesting that these variants alter molecular function.

Gene→Variant (gene-first): NA:rs16879870 388325:rs2641256 341019:rs2761591 NA:rs854936

Genes: NA 388325 341019

Variants: rs16879870 rs2641256 rs2761591 rs854936