Your email was sent successfully. Check your inbox.

An error occurred while sending the email. Please try again.

Proceed reservation?

Export
  • 1
    Keywords: ACAD, analysis, animal, animals, CELL, CELLS, CENTRAL-NERVOUS-SYSTEM, DISTINCT, EXPRESSION, fibrobla
    Abstract: Current methods to analyze gene expression measure steady-state levels of mRNA. To specifically analyze mRNA transcription, we have developed a technique that can be applied in vivo in intact cells and animals. Our method makes use of the cellular pyrimidine salvage pathway and is based on affinity-chromatographic isolation of thiolated mRNA. When combined with data on mRNA steady-state levels, this method is able to assess the relative contributions of mRNA synthesis and degradation/stabilization. It overcomes limitations associated with currently available methods such as mechanistic intervention that disrupts cellular physiology, or the inability to apply the techniques in vivo. Our method was first tested in serum response of cultured fibroblast cells and then applied to the study of renal ischemia reperfusion injury, demonstrating its applicability for whole organs in vivo. Combined with data on mRNA steady-state levels, this method provided a detailed analysis of regulatory mechanisms of mRNA expression and the relative contributions of RNA synthesis and turnover within distinct pathways, and identification of genes expressed at low abundance at the transcriptional level
    Type of Publication: Journal article published
    PubMed ID: 17405863
    Signatur Availability
    BibTip Others were also interested in ...
  • 2
    Keywords: CANCER ; EXPRESSION ; carcinoma ; Germany ; PATHWAY ; PATHWAYS ; PROSTATE ; GENE ; GENE-EXPRESSION ; microarray ; RNA ; SAMPLE ; SAMPLES ; TISSUE ; MARKER ; IMPACT ; gene expression ; MICROARRAY DATA ; EXPRESSION ANALYSIS ; genetics ; meta-analysis ; prostate cancer ; PROSTATE-CANCER ; NUCLEOTIDES ; SIGNALING PATHWAY ; VARIABILITY ; DEGRADATION ; POLYMERASE-CHAIN-REACTION ; MICROARRAY ANALYSIS ; heredity ; signaling ; molecular ; RE ; genomics ; METAANALYSIS ; LEVEL ; analysis ; methods ; PROFILES ; TESTS ; ANDROGEN RECEPTOR ; USA ; microbiology ; biotechnology ; NUCLEOTIDE ; breakpoint ; constant cut-off ; degradation plot ; formalin-fixed paraffin embedded tissue ; METHYLACYL-COA RACEMASE
    Abstract: Microarray analysis of formalin-fixed and paraffin-embedded (FFPE) tissue seems to be of importance for the detection of molecular marker sets in prostate cancer (PC). The compromised RNA integrity of FFPE tissue results in a high degree of variability at the probe level of microarray data as shown by degradation plot. We tested methods that reduce the variability by including all probes within 300 nucleotides, within 600 nucleotides, or up to a calculated breakpoint with reference to the 3'-end. Accepted PC pathways such as the Wnt signaling pathway could be observed to be significantly regulated within FFPE microarray datasets. The best representation of PC gene expression, as well as better comparability to meta-analysis and fresh-frozen microarray data, could be obtained with a 600-nucleotide cutoff. Beyond the specific impact for PC microarray data analysis we propose a cutoff of 600 nucleotides for samples for which the integrity of the RNA cannot be guaranteed. (C) 2008 Elsevier Inc. All rights reserved
    Type of Publication: Journal article published
    PubMed ID: 18490134
    Signatur Availability
    BibTip Others were also interested in ...
  • 3
    Keywords: APOPTOSIS ; EXPRESSION ; GROWTH ; GENE ; GENE-EXPRESSION ; PROTEIN ; PROTEINS ; transcription ; IMPACT ; DOWN-REGULATION ; PROGRESSION ; METASTASIS ; E-cadherin ; TGF-BETA ; BREAST-CANCER CELLS ; MESENCHYMAL TRANSITION ; REPRESSORS ZEB1
    Abstract: The Forkhead family of transcription factors comprises numerous members and is implicated in various cellular functions, including cell growth, apoptosis, migration and differentiation.In this study we identified the Forkhead factor FoxQ1 as increased in expression during TGF-beta1 induced changes in epithelial differentiation, suggesting functional roles of FoxQ1 for epithelial plasticity.The repression of FoxQ1 in mammary epithelial cells led to a change in cell morphology characterized by an increase in cell size, pronounced cell-cell contacts and an increased expression of several junction proteins (e.g. E-cadherin). In addition, FoxQ1 knock-down cells revealed rearrangements in the actin-cytoskeleton and slowed down cell cycle G1-phase progression.Furthermore, repression of FoxQ1 enhanced the migratory capacity of coherent mammary epithelial cells.Gene expression profiling of NM18 cells indicated that FoxQ1 is a relevant downstream mediator of TGF-beta1 induced gene expression changes. This included the differential expression of transcription factors involved in epithelial plasticity, e.g. Ets-1, Zeb1 and Zeb2.In summary, this study has elucidated the functional impact of FoxQ1 on epithelial differentiation.
    Type of Publication: Journal article published
    PubMed ID: 20717954
    Signatur Availability
    BibTip Others were also interested in ...
  • 4
    Keywords: CANCER ; EXPRESSION ; IRRADIATION ; tumor ; Germany ; DIAGNOSIS ; GENE ; HYBRIDIZATION ; TUMORS ; BREAST ; IN-SITU ; COMPARATIVE GENOMIC HYBRIDIZATION ; MALIGNANCIES ; MUTATIONS ; pathology ; RECURRENT ; C-MYC ; P53 GENE ; CYTOGENETIC ANALYSIS ; soft-tissue sarcoma ; Genetic
    Abstract: Angiosarcomas (AS) are rare vascular malignancies that arise either de novo as primary tumors or secondary to irradiation or chronic lymphedema. The cytogenetics of angiosarcomas are poorly characterized. We applied array-comparative genomic hybridization as a screening method to identify recurrent alterations in 22 cases. Recurrent genetic alterations were identified only in secondary but not in primary AS. The most frequent recurrent alterations were high level amplifications on chromosome 8q24.21 (50%), followed by 10p12-33 (33%) and 5q35.3 (11%). Fluorescence in situ hybridization analysis in 28 primary and 33 secondary angiosarcomas (31 tumors secondary to irradiation, 2 tumors secondary to chronic lymphedema) confirmed high level amplification of MYC on chromosome 8q24.21 as a recurrent genetic alteration found exclusively in 55% of AS secondary to irradiation or chronic lymphedema, but not in primary AS. Amplification of MYC did not predispose to high grade morphology or increased cell turnover. In conclusion, despite their identical morphology, secondary AS are genetically different from primary AS and are characterized by a high frequency of high level amplifications of MYC. This finding may have implications both for the diagnosis and treatment of these tumors. (Am J Pathol 2010, 176:34-39; DOI: 10.2353/ajpath.2010.090637)
    Type of Publication: Journal article published
    PubMed ID: 20008140
    Signatur Availability
    BibTip Others were also interested in ...
  • 5
    Keywords: APOPTOSIS ; CANCER ; EXPRESSION ; proliferation ; Germany ; human ; INHIBITION ; MODEL ; INFORMATION ; SYSTEM ; SYSTEMS ; GENE ; GENES ; PROTEIN ; PROTEINS ; RNA ; transcription ; DIFFERENTIATION ; TISSUE ; MECHANISM ; FAMILY ; RAT ; TISSUES ; CONTRAST ; SEQUENCE ; SEQUENCES ; MOUSE ; IDENTIFICATION ; ENCODES ; Drosophila ; DATABASE ; CAENORHABDITIS-ELEGANS ; STABILITY ; INTERFACE ; RE ; FAMILIES ; databases ; gene regulation ; TARGET GENES ; function ; BIOGENESIS ; cancer research ; SMALL RNAS
    Abstract: MicroRNAs (miRNAs) constitute a recently discovered class of small non-coding RNAs that regulate expression of target genes either by decreasing the stability of the target mRNA or by translational inhibition. They are involved in diverse processes, including cellular differentiation, proliferation and apoptosis. Recent evidence also suggests their importance for cancerogenesis. By far the most important model systems in cancer research are mammalian organisms. Thus, we decided to compile comprehensive information on mammalian miRNAs, their origin and regulated target genes in an exhaustive, curated database called Argonaute (http://www.ma.uni-heidelberg.de/apps/zmf/argonaute/interface). Argonaute collects latest information from both literature and other databases. In contrast to current databases on miRNAs like miRBase:: Sequences, NONCODE or RNAdb, Argonaute hosts additional information on the origin of an miRNA, i.e. in which host gene it is encoded, its expression in different tissues and its known or proposed function, its potential target genes including Gene Ontology annotation, as well as miRNA families and proteins known to be involved in miRNA processing. Additionally, target genes are linked to an information retrieval system that provides comprehensive information from sequence databases and a simultaneous search of MEDLINE with all synonyms of a given gene. The web interface allows the user to get information for a single or multiple miRNAs, either selected or uploaded through a text file. Argonaute currently has information on 839 miRNAs from human, mouse and rat
    Type of Publication: Journal article published
    PubMed ID: 16381827
    Signatur Availability
    BibTip Others were also interested in ...
Close ⊗
This website uses cookies and the analysis tool Matomo. More information can be found here...