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MicroRNA-23b negatively regulates urokinase and c-met and inhibits migration of human hepatocellular carcinoma cells.
Salvi A, Sabelli C, Moncini S, Venturin M, Arici B ,Riva P, Portolani N, Giulini SM, Barlati S and De Petro G.

By bioinformatics we predicted that miR-23b could recognize two sites in the 3’ UTR of uPA (urokinase-type plasminogen activator) and four sites in the 3’ UTR of c-met (hepatocyte growth factor receptor). miR-23b transfections in SKHep1C3 caused uPA and c-met decreased and migration and proliferation inhibition of SKHep1C3; anti-miR-23b transfection in human fibroblasts upregulated uPA and c-met. uPA and c-met shared a common microRNA that negatively regulates their expression.

Identification of differentially expressed transcripts associated to apomixis in B r a c h ia r ia using cDNA microarrays
Eduardo Gorrón 1 , 2, Diana Bernal 1, Silvia Restrepo & Joe Tohme

Apomixis is a trait which allows flowering plants to produce seeds by asexual ways. Molecular mechanisms behind this phenomenon are poorly understood. We used cDNA microrrays coupled to substractive libraries to find genes related to apomixis in Brachiaria. Genes related to meiosis and cell division, and some putative transcription factors, were overexpressed in sexual plants. It may indicate that apomixis could be caused by downregulation of these genes.

Profiling formalin-fixed, paraffin-embedded (FFPE) samples on three Agilent microarray platforms
Grazyna Fedorowicz, Srinka Ghosh, Steve Guerrero, Thomas Wu, and Zora Modrusan

Thousands of formalin-fixed, paraffin-embedded (FFPE) samples from clinical archives are available for retrospective studies. Such samples could provide crucial information for drug target discovery and diagnostics of various diseases. Here we used FFPE samples and their matched fresh-frozen (FF) counterparts to examine their performance on three types of microarrays including whole genome expression, comparative genomic hybridization (CGH) and microRNA.

Profiling formalin-fixed, paraffin-embedded (FFPE) samples on three Agilent microarray platforms
Grazyna Fedorowicz, Srinka Ghosh, Steve Guerrero, Thomas Wu, and Zora Modrusan

Thousands of formalin-fixed, paraffin-embedded (FFPE) samples from clinical archives are available for retrospective studies. Such samples could provide crucial information for drug target discovery and diagnostics of various diseases. Here we used FFPE samples and their matched fresh-frozen (FF) counterparts to examine their performance on three types of microarrays including whole genome expression, comparative genomic hybridization (CGH) and microRNA.

Geneset-based cancer survival analysis: On the non-uniform distributiuon of p-values under the null hypothesis
Esteban Czwan, Benedikt Brors, David Kipling

Although null p-values are assumed to be uniformly distributed in gene expression experiments, the actual distribution often deviates from the assumed distribution. This can incorrectly associate the biology of a geneset with cancer prognosis in geneset-based survival studies. To assess the implications of this, a geneset-based method was developed. This method empirically approximates the distribution of null p-values and tests whether predefined sets of biologically-related genes are associate

A major gene for grain cadmium accumulation in soybean (Glycine max [L] Merr)
Eduardo Rodriguez Benitez1, Makita Hajika1, Tetsuya Yamada1, Koji Takahashi1 and Nobuhiko Oki1

Quantitative Trait Loci (QTL) analyses were conducted in a population derived from a cross of varieties which differ in their seed Cd accumulation. Results suggested that seed Cd accumulation might be controlled by one major gene

DNA polymorphism in the pepper-Phytophthora capsici pathosystem
Cristina Fernández-Otero1,2, Jesús Moreno-González1, and James P. Prince2

Phytophthora capsici is an important soilborne pathogen that produces a devastating disease on many crop species, including pepper. To analyze DNA polymorphism in the P. capsici-pepper pathosystem, six C. annuum lines with various degrees of resistance to P. capsici: Padrón, Couto,CM334,PI201234, SP-11 and JEP; and two P. capsici isolates,GSP1-1 and Ppc3, selected for different levels of virulence, were tested with a variety of molecular markers

Reactome - a knowledgebase of human biological pathways
Esther E Schmidt, Michael Caudy, David Croft, Bernard de Bono, Phani V Garapati, Gopal Gopinath, Marc Gillespie, Robin Haw, Bijay Jassal, Steven Jupe, Alexander Kanapin, Shahana Mahajan, Lisa Matthews, Bruce May, Gavin O’Kelly, Imre Vastrik, Guanming Wu, Ewan Birney, Peter D'Eustachio, Lincoln Stein

Reactome is a manually curated knowledgebase, created and peer-reviewed by experts in their field. Its robust data model describes life processes ranging from metabolism to signal transduction and the cell cycle. As of release 28, Reactome contains 3700 human proteins in 3200 reactions. Data is cross-referenced to publicly available web-based informatics resources. Reactome features the SkyPainter tool for analysis of high-throughput datasets, and the Mart query and data retrieval tool.

Evaluation of a Novel Approach for the Measurement of RNA Quality
Timothy Wilkes; Alison Devonshire; Carole Foy

The potential medical applications of microarrays have generated much interest, within the biomedical community. Numerous potential sources of variation have raised concerns regarding assay consistency and data quality. Previous studies have highlighted RNA integrity as having a major effect on data quality. We describe here a comparison of the performance characteristics of the Agilent (Bioanalyser) and Lab901 (Screen Tape System) platforms, and their capacity to determine sample RNA integrity.

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Showing Results 91 - 100 of 222
Scientific News
Mount Sinai Scientists and International Team Shed New Light on Schizophrenia
Genes and pathways identified could inform new approaches to treatment and address acute need for drug development for this disorder.
Schizophrenia’s Genetic Skyline Rising
Suspect common variants soar from 30 to 108 - NIH-funded study.
Transplanting Gene into Injured Hearts Creates Biological Pacemakers
Researchers develop first minimally invasive gene therapy procedure to treat heart rhythm disorders by transforming ordinary heart muscle cells into specialized rhythm-keeping cells, potentially eliminating future need for electronic pacemakers.
Common Gene Variants Account for Most Genetic Risk for Autism
Roles of heritability, mutations, environment estimated - NIH-funded study.
Illumina's HiSeq X Ten Sequencing Technology for Population Studies
Next-generation sequencing technologies to be implemented at new High-Throughput Genomics Center for the MENA region.
Bowel Cancer Breakthrough May Benefit Thousands of Patients
Researchers at Queen’s University have discovered how two genes cause bowel cancer cells to become resistant to treatments used against the disease.
NIH Scientists Identify Gene Linked to Fatal Inflammatory Disease in Children
Repurposed drugs may offer first potential therapy.
Study Finds Low Oxygen Environment Helps Tumors Silence Critical Genes
The study led by Yale Cancer Center may provide clues to how some aggressive cancers turn off, or silence, genes critical to suppressing tumors.
Researchers Use ‘Big Data’ Approach to Map the Relationships Between Human and Animal Diseases
EID2 database used to prevent and tackle disease outbreaks around the globe.
Researchers Uncover New Cancer Cell Vulnerability
The research showed that telomerase-expressing cells depend upon a gene named p21 for their survival.
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