DNA microarrays are an important tool with a variety of applications in gene expression studies, genotyping, pharmacogenomics, pathogen classification, drug discovery, sequencing and molecular diagnostics. They are having a strong impact in medical diagnostics for cancer, toxicology and infectious disease applications. A series of papers have been published describing DNA biochips as alternative to conventional microarray platforms to facilitate and ameliorate the signal readout. In this review, we will consider the different methods proposed for biochip construction, focusing on electrochemical detection of DNA. We also introduce a novel single-stranded DNA platform performing high-throughput SNP detection and gene expression profiling.

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Overview of Electrochemical DNA Biosensors: New Approaches to Detect the Expression of Life

https://www.researchsquare.com/article/rs-639835/v1.pdf?c=1631899723000

Elevated expression of HMGB1 in squamous-cell carcinoma of the head and neck and its clinical significance.

Expectations, validity, and reality in gene expression profiling.

// John Zeng-Hong Li 1, 2 , Wei Gao 1 , Wen-Bin Lei 3 , Jing Zhao 3 , Jimmy Yu-Wai Chan 1 , William Ignace Wei 1 , Wei-Kuen Ho 1 , Thian-Sze Wong 1 1 Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong 2 Department of Otolaryngology, The First People's Hospital of Foshan, Foshan, People’s Republic of China 3 Department of Otolaryngology, The First Affiliated Hospital of Sun Yet-Sen University, Guangdong, People’s Republic of China Correspondence to: Thian-Sze Wong, email: thainsze@gmail.com Keywords: miR-744-3p, metastasis, PDCD4, PTEN, laryngeal squamous cell carcinoma Received: September 22, 2015      Accepted: August 08, 2016      Published: August 13, 2016 ABSTRACT MicroRNA controls cancer invasion by governing the expression of gene regulating migration and invasion. Here, we reported a novel regulatory pathway controlled by miR-744-3p, which enhanced expression of matrix metallopeptidase 9 (MMP-9) in laryngeal squamous cell carcinoma (LSCC). We profiled the differential micoRNA expression pattern in LSCC cell lines and normal epithelial cultures derived from the head and neck mucosa using microRNA microarray. MiR-7-1-3p, miR-196a/b and miR-744-3p were expressed differentially in the LSCC cell lines. Subsequent validation using real-time PCR revealed that high miR-744-3p level was positively correlated with regional lymph node metastasis of LSCC. Real-time cellular kinetic analysis showed that suppressing miR-744-3p could inhibit migration and invasion of LSCC cell lines and reduce the number of lung metastatic nodules in nude mice modules. In silico analysis revealed that miR-744-3p targeted 2 distinct signaling cascades which eventually upregulated MMP-9 expression in LSCC. First, miR-744-3p could suppress programmed cell death 4 (PDCD4), a direct suppressor of NF-κB (p65). PDCD4 could also prevent AKT activation and suppress MMP-9 expression. Further, suppressing miR-744-3p expression could restore phosphatase and tensin homolog (PTEN) expression. PTEN could inhibit AKT activation and inhibit MMP-9 expression in LSCC cells. The results revealed that suppressing miR-744-3p was effective to inhibit LSCC metastasis by inactivating AKT/mTOR and NF-κB (p65) signaling cascade. Targeting miR-744-3p could be a valuable therapeutic intervention to suppress the aggressiveness of LSCC.

/pdf/microrna-744-3p-promotes-mmp-9-mediated-metastasis-by-42m0oqm3fl.pdf

MicroRNA 744-3p promotes MMP-9-mediated metastasis by simultaneously suppressing PDCD4 and PTEN in laryngeal squamous cell carcinoma

The present invention relates to peptides, nucleic acids and cells for use in 
immunotherapeutic methods. In particular, the present invention relates to the 
immunotherapy of cancer. The present invention furthermore relates to tumor-associated 
cytotoxic T cell (CTL) peptide epitopes, alone or in combination with other tumor-associated 
peptides that serve as active pharmaceutical ingredients of vaccine compositions that 
stimulate anti-tumor immune responses. The present invention relates to more than 70 novel 
peptide sequences and their variants derived from HLA class I and HLA class II molecules of 
human tumor cells that can be used in vaccine compositions for eliciting anti-tumor immune 
responses.

Novel immunotherapy against several tumors, such as lung cancer, including nsclc

Differential gene expression profiling of laryngeal squamous cell carcinoma by laser capture microdissection and complementary DNA microarrays.

Objective To examine the gene expression profile of laryngeal squamous cell carcinoma （LSCC） by combination of laser capture microdissectiou （LCM） and microarray and to identify genetic changes in disease pathogenesis. Methods The study analysed 8 matched pairs of specimens of glottic carcinoma of larynx and histologically normal epithelium tissues adjacent to the carcinoma preserved in the RNAlater reagent. A genome-wide transeriptome analysis was performed by probing 16 eDNA mieroarrays with fluoreseentAabeled amplified RNA derived from laser capture mierodissected cells. Real-time quantitative （RT-PCR） of tissue microarray was used to validate the reliability of cDNA microarrays. Results Significant analysis of microarray（SAM） software and hierarchical cluster analysis of the expressed genes showed that 2351 genes was significantly expressed respectively according to different analysis method （false discover rate =0.63% ）. A selected set of MMP12 ,KRT16, RARB ,PRB1 genes was identified to be consistent with array data by RT-PCR. Conclusions The analysis of gene ontology and pathway distributions futher highlighted genes that may be critically important to laryngeal carcinogenesis. The results strongly suggest that this new approach may facilitate the identification of clinical molecular markers of disease and novel potential therapeutic targets for LSCC.

Key words: 
Laryngeal neoplasms; Carcinoma, squamous cell; Oligonucleotide array sequenceanalysis; Laser capture microdissection

Wei Li

Papers

Differential gene expression profiling of laryngeal squamous cell carcinoma by laser capture microdissection and complementary DNA microarrays.

Global gene expression profiling of laryngeal squamous cell carcinoma by laser capture microdissection and complementary DNA microarrays