Genetic expression profiles and biologic pathway alterations in head and neck squamous cell carcinoma

Choi, Peter; Chu, Chen

doi:10.1002/cncr.21293

Cited by 96 publications

(97 citation statements)

References 150 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Furthermore some seeds showed markedly different in vivo and in vitro behaviours; for example, PFKFB3 (set B, Supplementary Table S1) did not have significant overlap with any other seeds, whereas CCNG2 showed a consistent inverse correlation with other seeds (Fo0; Eq. 4), supporting results from previous studies (Choi and Chen, 2005). Thus, the method was able to identify seeds that behave differently from their peers; for the rest of this study, only the conservative seed set A was used.…”

Section: Derivation Of a Hypoxia Expression Networksupporting

confidence: 85%

Large meta-analysis of multiple cancers reveals a common, compact and highly prognostic hypoxia metagene

et al. 2010

View full text Add to dashboard Cite

BACKGROUND: There is a need to develop robust and clinically applicable gene expression signatures. Hypoxia is a key factor promoting solid tumour progression and resistance to therapy; a hypoxia signature has the potential to be not only prognostic but also to predict benefit from particular interventions. METHODS: An approach for deriving signatures that combine knowledge of gene function and analysis of in vivo co-expression patterns was used to define a common hypoxia signature from three head and neck and five breast cancer studies. Previously validated hypoxia-regulated genes (seeds) were used to generate hypoxia co-expression cancer networks. RESULTS: A common hypoxia signature, or metagene, was derived by selecting genes that were consistently co-expressed with the hypoxia seeds in multiple cancers. This was highly enriched for hypoxia-regulated pathways, and prognostic in multivariate analyses. Genes with the highest connectivity were also the most prognostic, and a reduced metagene consisting of a small number of topranked genes, including VEGFA, SLC2A1 and PGAM1, outperformed both a larger signature and reported signatures in independent data sets of head and neck, breast and lung cancers. CONCLUSION: Combined knowledge of multiple genes' function from in vitro experiments together with meta-analysis of multiple cancers can deliver compact and robust signatures suitable for clinical application.

show abstract

Section: Derivation Of a Hypoxia Expression Networksupporting

confidence: 85%

Large meta-analysis of multiple cancers reveals a common, compact and highly prognostic hypoxia metagene

et al. 2010

View full text Add to dashboard Cite

show abstract

“…Differences in immune host response, tumor adhesion properties, invasiveness modulators, are possible pathways that may differ with tumor anatomic site. Many global gene profiling investigations of HNSCC study patient cohorts with tumors grouped from different anatomic sites, or restrict investigations to one anatomic site [10]. This approach does not allow for direct comparison of expression profiles between different anatomic sites.…”

Section: Introductionmentioning

confidence: 99%

Site-Specific Molecular Signatures Predict Aggressive Disease in HNSCC

Belbin

Smith

Adrien

et al. 2008

Head and Neck Pathol

View full text Add to dashboard Cite

It is known that head and neck squamous cell carcinomas (HNSCC) originating from different anatomic locations can exhibit varying behavior that is not predictable by histopathology of the primary tumor. Using a microarray containing 27,323 cDNA clones, we generated sets of gene expression profiles for 36 HNSCC primary tumors (12 oral cavity, 12 oropharynx, and 12 larynx/ hypopharynx). From these datasets, we ranked genes according to their ability to differentiate between patients whose disease progressed within a 24 month period (aggressive phenotype) and those that did not (nonaggressive phenotype) based on levels of gene expression. A merging of datasets from the three sites revealed that only a fraction of identified genes were shared between any two sites. This contrasted greatly with the significant overlap (approximately 50%) in down-regulated genes identified in tumor/normal comparisons using cases both from oropharynx and larynx/hypopharynx. From these data, we conclude that HNSCC tumors originating from different anatomic sites share consistent changes in gene expression when comparing primary tumors to normal adjacent mucosa; these common changes most likely reflect alterations required for tumor development. In contrast, once a tumor has developed, tumor-host interactions at the different anatomic sites are likely responsible for the site-specific signatures associated with aggressive versus non-aggressive disease. Predictions of outcome based on gene expression profiling are therefore heavily influenced by the anatomic site of the primary tumor.

show abstract

“…In a review on gene expression profiles, a low expression of the CSTB (cystatin B) gene, located at 21q22.3, was reported in 5 of 24 HNSCC microarray studies (7). A decrease of CSTB expression was observed in esophageal carcinoma, breast cancer, prostatic adenocarcinomas and atypical meningiomas (50)(51)(52)(53).…”

Section: Discussionmentioning

confidence: 99%

“…Late presentation of the lesion, lack of suitable markers for early detection and failure of advanced lesions to respond to the available chemotherapy contribute to a poor outcome of HNSCC (7). However, loco-regional relapse and metastasis after conventional therapy appear to be significant contributing factors for restricted survival of HNSCC patients (1).…”

Section: Introductionmentioning

confidence: 99%

Gene expression profiling reveals molecular marker candidates of laryngeal squamous cell carcinoma

Colombo

Fachel²,

Calmon³

et al. 2009

Oncol Rep

View full text Add to dashboard Cite

Genetic expression profiles and biologic pathway alterations in head and neck squamous cell carcinoma

Abstract: Head and neck squamous cell carcinoma (HNSCC) is associated with considerable mortality and morbidity and is a major public health concern worldwide. To date, Ͼ 20 studies incorporating DNA microarray analyses have examined genomewide

Cited by 96 publications

References 150 publications

Large meta-analysis of multiple cancers reveals a common, compact and highly prognostic hypoxia metagene

Large meta-analysis of multiple cancers reveals a common, compact and highly prognostic hypoxia metagene

Site-Specific Molecular Signatures Predict Aggressive Disease in HNSCC

Gene expression profiling reveals molecular marker candidates of laryngeal squamous cell carcinoma

Contact Info

Product

Resources

About