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Jun Xiao, Qi-xian Wang, You-qing Zhu
MicroRNAs (miRNAs) play important roles in carcinogenesis, but the global miRNA expression profile in gastric stromal tumor tissues remains unclear. This study was to examine the miRNA expression profile in gastric stromal tumor tissues and explore the function of dysregulated miRNAs by performing gene ontology (GO) and pathway enrichment analysis. Total RNA was extracted and purified from 3 pairs of frozen gastric stromal tumor tissues and the adjacent non-tumor tissues by using mirVana™ miRNA isolation kit...
December 2015: Journal of Huazhong University of Science and Technology. Medical Sciences
Long Ma, Kun Wu, Kun Liu, Shuo Gu, Yi Wang, Zongyuan Xu, Xiangyou Yu, Junsong Meng
OBJECTIVE: Ischemia-reperfusion (I/R) is a main cause of acute kidney injury (AKI). The renal expression profiles of microRNA (miRNA) and time course of their changes after renal I/R were explored to screen acute AKI prognostic-related microRNAs and biomarkers. METHODS: The expression profile of miRNA was analyzed for detecting miRNAs in kidney after renal I/R injury. Real-time polymerase chain reaction (PCR) was performed to validate the results of microarray. And the relationship was examined between kidney injury and time course of changes in selected miRNAs...
May 19, 2015: Zhonghua Yi Xue za Zhi [Chinese medical journal]
Jiyong Yin, Jing Sun, Jian Huang, Junsheng Huo
OBJECTIVE: To study the reality detect function of protein microarray which diagnosis the iron deficiency (ID). METHODS: Evaluated anti-interference ability with interference experiment, analyzed the detection stability with many times repeated experiment, detected the same experiment result repeatedly to analyze the detection indate. RESULTS: There was not interference to serum ferritin and soluble transferrin respector from distraction. The protein microarry can be using in 38 d after print probes...
May 2014: Wei Sheng Yan Jiu, Journal of Hygiene Research
Jisheng Li, Yimei Cai, Lupeng Ye, Shaohua Wang, Jiaqian Che, Zhengying You, Jun Yu, Boxiong Zhong
BACKGROUND: The growth and development of the posterior silk gland and the biosynthesis of the silk core protein at the fifth larval instar stage of Bombyx mori are of paramount importance for silk production. RESULTS: Here, aided by next-generation sequencing and microarry assay, we profile 1,229 microRNAs (miRNAs), including 728 novel miRNAs and 110 miRNA/miRNA* duplexes, of the posterior silk gland at the fifth larval instar. Target gene prediction yields 14,222 unique target genes from 1,195 miRNAs...
2014: BMC Genomics
Liping Sun, Jingqiong Hu, Wei Xiong, Xiaomei Chen, Huiyu Li, Shenghua Jie
BACKGROUND: Microvesicles (MVs) packaged with microribonucleic acids (miRNAs) have been shown to be released mainly from tumor cells. However, little information is known for miRNAs from MVs in hepatocellular carcinoma (HCC). Hence, we explored the MVs' miRNAs expression profiles in HCC. METHODS: MVs were collected from peripheral blood of HCC, chronic hepatitis B (CHB) and normal controls. miRNA from MVs were labeled and analyzed by Agilent miRNA microarry. Bioinformatics tools were used to analyze function of the differentially expressed MVs' miRNAs...
December 2013: Acta Gastro-enterologica Belgica
Isao Sakaida
Infused (transplanted) green fluorescent protein (GFP)-positive bone marrow cells (BMCs) migrated into the peri-portal regions of the cirrhotic mouse liver induced continuous CCl4 injection without irradiation (without bone marrow ablation). The infused GFP-positive BMCs differentiated into hepatoblasts detected with Liv2-antibody and then differentiated into albumin-producing hepatocytes. The differentiation "niche" induced by persistent liver damage due to continuous CCl4 injection seems to be an essential factor...
December 2011: Rinsho Byori. the Japanese Journal of Clinical Pathology
Jesús Tamarit-López, Sergi Morais, Rosa Puchades, Angel Maquieira
A novel DNA microarrying platform based on oxygen plasma activation of polycarbonate surface of compact disks (DVD) is presented. Carboxylic acid groups are generated in few seconds on polycarbonate in an efficient, fast, and clean way. Following this surface activation strategy, amino-modified oligonucleotide probes were covalently attached, reaching an immobilization density of 2 pmol cm(-2). Atomic force microscopy imaging revealed the nondestructive character of this treatment when applied for short times, allowing for disk scanning in standard DVD drives...
December 21, 2011: Bioconjugate Chemistry
Christian Eichelberg, Sarah Minner, Hendrik Isbarn, Eike Burandt, Luigi Terracciano, Holger Moch, Alexandra Kell, Roman Heuer, Felix K Chun, Guido Sauter, Margit Fisch, Pierre Tennstedt
PURPOSE: Alpha-methyl CoA racemase (AMACR) is used as an immunohistochemical marker for renal cell carcinoma (RCC) subtyping to distinguish papillary (pap) RCC. Expression of AMACR in other renal tumor subtypes is inhomogeneous, and the clinical and prognostic value of AMACR is unknown. The aim of this study was to asses AMACR protein expression in different RCC subtypes and to investigate its prognostic significance. METHODS: Protein expression of AMACR was analyzed in 1,088 renal tumor samples, among them 809 clear cell RCC and 151 papRCC, by immunohistochemistry using tissue microarry (TMA) technique...
August 2013: World Journal of Urology
Hui-min Han, Lin Guo, Li-jua Jiang, Xiao-yu Jiang, Ya-li Lv, Jin-kui Pang, Zhong-min Bai, Wei-juan Che, Rong-hui Xu, Ping Yu, Qiang Li
OBJECTIVE: To investigate the underlying mechanism for the therapeutic effect of a traditional Chinese medicinal recipe, Antidotal and Myogenic Ointment (AMO), on the foot ulcer in diabetic rat using cDNA microarray technology. METHODS: 45 rats were made diabetic by i. p. injection of streptozocin. The treated animals were then fed for 6 months,and subjected to the dissection of distal popliteal artery after ligation of the vessels. Another month later, grade II burn injury was produced on the bottom of their foot as a model of diabetic foot ulcer...
October 2011: Zhongguo Wei Zhong Bing Ji Jiu Yi Xue, Chinese Critical Care Medicine, Zhongguo Weizhongbing Jijiuyixue
Qin Ma, Lie Yang, Cun Wang, Yong-Yang Yu, Bin Zhou, Zhong-Guang Zhou
OBJECTIVE: To investigate the miRNA expression difference between colon cancer and normal colonic mucosa. METHODS: Twelve (12) pairs of colorectal cancer tissue and normal colonic mucosa were collected, total RNA was extracted and purified. After fluorescent tags being added, hybridization was carried out on miRNA microarray chip (Affymetrix company). SAM analysis was performed to find out the significant expression difference, then the difference was verified by RT-PCR, finally target gene analysis software was utilized to predict the miRNA function...
May 2011: Sichuan da Xue Xue Bao. Yi Xue Ban, Journal of Sichuan University. Medical Science Edition
Mireia Vilardell, Axel Rasche, Anja Thormann, Elisabeth Maschke-Dutz, Luis A Pérez-Jurado, Hans Lehrach, Ralf Herwig
BACKGROUND: Down syndrome (DS; trisomy 21) is the most common genetic cause of mental retardation in the human population and key molecular networks dysregulated in DS are still unknown. Many different experimental techniques have been applied to analyse the effects of dosage imbalance at the molecular and phenotypical level, however, currently no integrative approach exists that attempts to extract the common information. RESULTS: We have performed a statistical meta-analysis from 45 heterogeneous publicly available DS data sets in order to identify consistent dosage effects from these studies...
2011: BMC Genomics
Matthew N McCall, Peter N Murakami, Margus Lukk, Wolfgang Huber, Rafael A Irizarry
BACKGROUND: Microarray technology has become a widely used tool in the biological sciences. Over the past decade, the number of users has grown exponentially, and with the number of applications and secondary data analyses rapidly increasing, we expect this rate to continue. Various initiatives such as the External RNA Control Consortium (ERCC) and the MicroArray Quality Control (MAQC) project have explored ways to provide standards for the technology. For microarrays to become generally accepted as a reliable technology, statistical methods for assessing quality will be an indispensable component; however, there remains a lack of consensus in both defining and measuring microarray quality...
2011: BMC Bioinformatics
Su-Shing Chen, Yu-Ping Wang
In developing an integrated framework for translational bioinformatics, we consider bioimaging in the NIH Roadmap that exploits high-resolution genomic imaging for clinical applications to the diagnosis and treatment of genetic disorders/diseases. On one hand, we develop new image processing techniques, while on the other, we use the fusion of several well known ontological standards - Gene Ontology (GO), Clinical Bioinformatics Ontology (CBO), Foundational Model of Anatomy (FMA) and Microarry Gene Expression Data Ontology (MGED) in this framework...
2009: Summit on Translational Bioinformatics
Xinyun Wang, Ling Yuan, Haiyan Zheng, Juan Liu, Xi Huang, Li Wu, Haihong Yuan, Jianlan Zhao
BACKGROUND: Fragile histidine triad (FHIT) is a candidate tumor suppressor gene. Aberrance of FHIT has been observed in multiple carcinomas induced by environmental carcinogens, especially in lung cancer. In this study, the expression of FHIT protein in cell array was detected to further development of cell array and for a rapid, simple, and economical method. METHODS: The lung cancer samples were collected from the Tianjin Medical University General Hospital, the First Central Hospital and the Tianjin Chest Hospital from May to August in 2005...
February 20, 2009: Zhongguo Fei Ai za Zhi, Chinese Journal of Lung Cancer
Chao Wang, Shouqiang Cao, Ying Yan, Qiao Ying, Tao Jiang, Ke Xu, Anhua Wu
BACKGROUND: Our study aims to evaluate the expression of TLR9 in glioma tissues, examine the association between TLR9 expression, clinicopathological variables, and glioma patient outcome, we further characterized the direct effects of TLR9 agonist CpG ODN upon the proliferation and invasion of glioma cells in vitro. METHODS: RT-PCR and immunofluorescence were used to determine the expression of TLR9 in glioma cell lines and clinical glioma samples. Tissue microarry and immunohistochemistry were applied to evaluated TLR9 expression in 292 newly diagnosed glioma and 13 non-neoplastic brain tissues...
2010: BMC Cancer
Meiyan Liu, Chunhong Li, An Yan, Li Cai
BACKGROUND AND OBJECTIVE: The aim of this study is to screen for multi-drug resistance-related genes of human non-small cell lung cancer (NSCLC), and provide the evidences for drug-sensitive predicting genes of different NSCLC patients treated with chemotherapeutic drugs. METHODS: Sensitivity and inhibition ratio of five antitumor drugs (NVB, GEM, TAL, DOC, CDDP) on 75 fresh NSCLC samples from different individuals were studied by means of culturing primary tumor cells and MTT assay...
April 2010: Zhongguo Fei Ai za Zhi, Chinese Journal of Lung Cancer
Adrian Dragu, Stefan Schnürer, Cordula Surmann-Schmitt, Klaus von der Mark, Michael Stürzl, Frank Unglaub, Maya B Wolf, Mareike Leffler, Justus P Beier, Ulrich Kneser, Raymund E Horch
The aim of this study was to analyse various gene expression profiles of muscle tissue during normoxia, ischaemia and after reperfusion in human muscle free flaps, to gain an understanding of the occurring regulatory, inflammatory and apoptotic processes on a cellular and molecular basis. Eleven Caucasian patients with soft tissue defects needing coverage with microsurgical free muscle flaps were included in this study. In all patients, the muscle samples were taken from free myocutaneous flaps. The first sample was taken before induction of ischaemia in normoxia (I), another one after ischaemia (II), and the last one was taken after reperfusion (III)...
April 2011: Journal of Cellular and Molecular Medicine
Yan-hua Xuan, Gui-ling Li, Hong-yu Jiang, Zhen-hua Lin
OBJECTIVE: To investigate the significance of sonic hedgehog (Shh), indian hedgehog (Ihh), smoothened (Smo) and patched (Ptch) expressions in uterine cervical lesions and their relationships with HPV type 16 infection. METHODS: Totally 183 cases of cervical lesions, including 32 non-neoplastic cervix, 71 cervical intraepithelial neoplasia (28 CINI, 18 CINII, and 25 CINIII) and 80 squamous cell carcinomas (SCC) were selected from the Department of Pathology, Yanbian University Hospital, Yanbian Women Hospital, and Yanbian Tumor Hospital...
March 2009: Zhonghua Bing Li Xue za Zhi Chinese Journal of Pathology
Jin-yun Feng, Guo-zhou Rao, Yu-ping Liu, Ping Li, Rong Cui, Jian-hong Li, Jian-zhong Liu, Zhen-hui Peng
AIM: To investigate the expression of CD1a and CD207 in condyloma acuminatum (CA) epidermis and to understand its significance. METHODS: The mRNA expression of CD1a and CD207 in six CA epidermal lesions and in six normal controls were detected using oligonucleotide microarrys and confirmed by semi-quantitative RT-PCR, and the protein level of CD1a and CD207 in six CA epidermal lesions and in six normal controls were measured by Western blot. RESULTS: With microarrys, the mRNA expression of CD1a and CD207 were detected markedly down-regulated in six CA epidermal lesions as compared with that in six normal controls...
May 2009: Xi Bao Yu Fen Zi Mian Yi Xue za Zhi, Chinese Journal of Cellular and Molecular Immunology
Norihiko Kawamata, Seishi Ogawa, Karl Seeger, Renate Kirschner-Schwabe, Thien Huynh, John Chen, Nairi Megrabian, Jochen Harbott, Martin Zimmermann, Günter Henze, Martin Schrappe, Claus R Bartram, H Phillip Koeffler
Acute lymphoblastic leukemia (ALL) cells at relapse are frequently more resistant to treatment than primary clones and this may be caused by further genetic changes in the ALL cells at relapse. These acquired genomic abnormalities have not been fully characterized. To examine the additional genomic alterations of ALL at relapse, we performed single nucleotide polymorphism genomic microarry (SNP-chip) analysis on 14 ALL bone marrow samples at initial diagnosis, remission and relapse. Only two cases at initial diagnosis had a normal appearing genome by SNP-chip...
June 2009: International Journal of Oncology
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