Table S1 from HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers

List of the human and HPV genomic locations for the 320 identified integration events.</p

Table S2 from HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers

HPV gene expression levels in the 84 HNSCC tumors.</p

Table S3 from HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers

Network statistics for network constructed from 89 genes with/near integration events.</p

Table S4 from HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers

GO terms and KEGG pathways enriched for genes differentially expressed between integration-positive and integration-negative HNC tumors.</p

Supplemental Materials and Methods; Supplementary Tables 5-14; Supplementary Figures 1-3. from HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers

Supplemental Methods, Tables S5-S14, and Figures S1-S3</p

Supplementary methods and figures. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signatures

Supplementary methods and figures. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signature

Table S5. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signatures

The list of genes displayed in Figure 1D. </p

Table S4. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signatures

Neoplasm-associated genes on chr3q and chr16q (identified by gene2Mesh). - The 'logFC', 'p-value' and 'q-value' columns are from testing the expression difference between HPV-KRT and HPV-IMU tumors (UM and TCGA combined). </p

Table S1. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signatures

Differentially expressed neoplasm-associated genes between HPV(+) and HPV(-) HNC tumors in the UM cohort.</p

Table S3. from Subtypes of HPV-Positive Head and Neck Cancers Are Associated with HPV Characteristics, Copy Number Alterations, PIK3CA Mutation, and Pathway Signatures

Enriched GO terms for genes differentially expressed between HPV-KRT and HPV-IMU subgroups in the UM cohort.</p