Project description:Copy number analysis of primary esophageal squamous cell carcinoma (ESCC) from 40 patients in Japan. Integrative analysis of gene expression profiles and genomic alterations obtained from array-CGH and NGS provided us new insight into the pathogenesis of ESCC.
Project description:Genomic DNA extracted from two different Photobacterium profundum strains: SS9 strain (completely sequenced and used to made the microarray) and DSJ4 strain were labeled with Cy3 and Cy5 fluorophores and competitively hybridized on the microarray built on the basis of the SS9 strain genomic sequence. Aim: the identification of the genomic regions absent in the DSJ4 strain with respect to the SS9 strain. The SS9 strain was isolated from the Sulu Trench and display an optimum growth at 28 MPa (2800 metres of depth). The DSJ4 strain was recovered from a sediment sample obtained from the Ryukyu Trench (Japan) at a depth of 5110 m and displays an optimum growth at 10 MPa (but shows no significant change in growth at pressure up to 50 MPa).
Project description:Human ΔNp63-specific siRNA was obtained from Invitrogen (Carlsbad, CA; sense: 5′-ACAAUGCCCAGACUCAAUU-3′; antisense: 5′-AAUUGAGUCUGGGCAUUGU-3′). Scrambled sequence siRNA for the negative control was purchased from Invitrogen. Transfections were performed using Lipofectamine RNAiMAX (Invitrogen) in Opti-MEM (GIBCO) at 40 nmol/L according to the manufacturer's instructions. The culture medium was replaced at 6 h after siRNA transfection. mRNA was extracted from NHEKs transfected with ΔNp63-specific or scramble sequence siRNA at 72 h after transfection. Microarray slides were scanned using a 3D-GENE human 25k (TORAY, Tokyo, Japan) and microarray images were automatically analyzed with AROSTM, version 4.0 (Operon Biotechnologies, Tokyo, Japan).
Project description:Analysis of primary esophageal squamous cell carcinoma (ESCC) from 71 patients in japan. Integrative analysis of gene expression profiles and genomic alterations obtained from array-CGH and NGS provided us new insight into the pathogenesis of ESCC
