Query: microarray*
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11519 records returned
Chromosomal Microarray Interpretation: What Is a Child Neurologist to Do?
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The chromosomal microarray now plays a central role in the evaluation of children with neurologic developmental disorders, including global developmental delay, mental retardation, and increasingly also autistic spectrum disorders. As arrays become more sophisticated and their use more widespread, the child neurologist is likely to encounter abnormal chromosomal microarray results. The interpretation of such data is not always straightforward. This review article discusses in a practical manner the nature of chromosomal microarray results, describes an algorithm to help the child neurologist navigate a variety of testing s...
Source: Pediatric Neurology - November 20, 2009 Category: Neurology Authors: Alex R. Paciorkowski, Min Fang Tags: Review Article Source Type: journals
3D small-molecule microarrays.Email this article to a colleague.
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A PEG based 3D hydrogel slide was developed specifically for small-molecule microarraying purposes, which displayed improved loading capacity, signal sensitivity and spot morphology compared with a commercially available slide and comparative 2D slide.
PMID: 19920998 [PubMed - as supplied by publisher]
Source: Chemical Communications - November 20, 2009 Category: Chemistry Authors: Marsden DM, Nicholson RL, Ladlow M, Spring DR Tags: Chem Commun (Camb) Source Type: journals
HAMSTER: visualizing microarray experiments as a set of minimum spanning treesEmail this article to a colleague.
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Conclusions:
Researchers may find it helpful to include HAMSTER in their microarray analysis workflow as it can offer insights that differ from hierarchical clustering. We believe that HAMSTER would be useful for certain types of gradient data sets (e.g time-series data) and data that indicate relationships between cells/tissues. Both the source and the web server variant of HAMSTER are available from http://hamster.cbrc.jp/.
Source: Source Code for Biology and Medicine - November 20, 2009 Category: Information Technology Authors: Raymond WanLarisa KiselevaHajime HaradaHiroshi MamitsukaPaul Horton Source Type: journals
Automated uro-oncology data collection: the Cancer Research Uro-Oncology DatabaseEmail this article to a colleague.
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To develop a relational database (Cancer Research Uro-Oncology Database, CRUD©) to enable automatic data collection on all urological malignancies within our region, as there is increasing emphasis on good data collection for surgical patients with cancer, and numerous overlapping systems that are amassing data on the same patients. Links have been established between pathological databases, multidisciplinary team data-collection systems and patient-survival monitoring facilities, providing accurate pathology, treatment and survival data on all of uro-oncology patients. We are also developing individual modules for the on...
Source: BJU International - November 20, 2009 Category: Urology & Nephrology Authors: Philip J.S. Charlesworth, Neviana Kilbey, Marian Taylor, Russell Leek, David Cranston, Gareth Turner, Jeremy Crew, Adrian Harris, Andrew Protheroe Source Type: journals
Expression profiling of rainbow trout testis development identifies evolutionary conserved genes involved in spermatogenesisEmail this article to a colleague.
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Conclusion:
A comprehensive study of gene expression and associated functions during testis maturation and germ cell differentiation in the rainbow trout is presented. The study identifies new pathways involved during spermatogonia self-renewal or rapid proliferation, meiosis and gamete differentiation, in fish and potentially in all vertebrates. It also provides the necessary basis to further investigate the hormonal and molecular networks that trigger puberty and annual testicular recrudescence in seasonally breeding species.
Source: BMC Genomics - Latest articles - November 20, 2009 Category: Genetics & Stem Cells Authors: Antoine RollandJean-Jacques LareyreAnne-Sophie GoupilJerome MonfortMarie-Jose RicordelDiane EsquerreKarine HugotRemi HoulgatteFrederic ChalmelFlorence Le Gac Source Type: journals
Ligand-specific sequential regulation of transcription factors for differentiation of MCF-7 cellsEmail this article to a colleague.
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Conclusions:
Our analysis indicated that a time-dependent transcriptional regulatory network including c-FOS, FRA-1, and FHL2 is vital in controlling the ERK signaling pathway through a negative feedback loop for MCF-7 cell differentiation.
Source: BMC Genomics - Latest articles - November 20, 2009 Category: Genetics & Stem Cells Authors: Yuko SaekiTakaho EndoKaori IdeTakeshi NagashimaNoriko YumotoTetsuro ToyodaHarukazu SuzukiYoshihide HayashizakiYoshiyuki SakakiMariko Okada-Hatakeyama Source Type: journals
Environmentally-acquired bacteria influence microbial diversity and natural innate immune responses at gut surfacesEmail this article to a colleague.
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Conclusions:
Early-life environment significantly affects both microbial composition of the adult gut and mucosal innate immune function. We observed that a microbiota dominated by lactobacilli may function to maintain mucosal immune homeostasis and limit pathogen colonization.
Source: BMC Biology - Latest articles - November 20, 2009 Category: Biology Authors: Imke MulderBettina SchmidtChristopher StokesMarie LewisMick BaileyRustam AminovJames ProsserBhupinder GillJohn PluskeClaus-Dieter MayerCorran MuskDenise Kelly Source Type: journals
Follicular lymphoma cells induce T-cell immunologic synapse dysfunction that can be repaired with lenalidomide: implications for the tumor microenvironment and immunotherapyEmail this article to a colleague.
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An important hallmark of cancer progression is the ability of tumor cells to evade immune recognition. Understanding the relationship between neoplastic cells and the immune microenvironment should facilitate the design of improved immunotherapies. Here we identify impaired T-cell immunologic synapse formation as an active immunosuppressive mechanism in follicular lymphoma (FL) and diffuse large B-cell lymphoma (DLBCL). We found a significant reduction in formation of the F-actin immune synapse in tumor-infiltrating T cells (P < .01) from lymphoma patients compared with age-matched healthy donor cells. Peripheral blood ...
Source: Blood - November 19, 2009 Category: Hematology Authors: Ramsay, A. G., Clear, A. J., Kelly, G., Fatah, R., Matthews, J., MacDougall, F., Lister, T. A., Lee, A. M., Calaminici, M., Gribben, J. G. Tags: Immunobiology, Lymphoid Neoplasia Source Type: journals
cDNA Microarray Analysis of Serially Sampled Cervical Cancer Specimens From Patients Treated With ThermochemoradiotherapyEmail this article to a colleague.
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Conclusions: Microarrays showed minor changes in gene expression after thermochemoradiotherapy in locally advanced cervical cancer. We detected 53 differentially expressed genes, mainly involved in fibrosis, tumorigenesis, and immune response. A limitation with the use of serial biopsy specimens was low quality of ribonucleic acid from tumors that respond to highly effective therapy. Another “key limitation” is timing of the post-treatment biopsy, because 24 h may be too late to adequately assess the impact of hyperthermia on gene expression.
Source: International Journal of Radiation Oncology * Biology * Physics - November 19, 2009 Category: Radiology Authors: Erling Dahl Borkamo, Baard-Christian Schem, Øystein Fluge, Ove Bruland, Olav Dahl, Olav Mella Tags: Biology Contributions Source Type: journals
An experimental loop design for the detection of constitutional chromosomal aberrations by array CGHEmail this article to a colleague.
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Conclusions:
The loop design and the performance of the statistical analysis contribute to the quick adoption of array CGH as a routine diagnostic tool. They lower the detection limit of mosaicisms and improve the assignment of copy number variation for genetic association studies.
Source: BioMed Central - November 19, 2009 Category: Journals (General) Authors: Joke AllemeerschSteven Van VoorenFemke HannesBart De MoorJoris Robert VermeeschYves Moreau Source Type: journals
Gene network and pathway analysis of bovine mammary tissue challenged with Streptococcus uberis reveals induction of cell proliferation and inhibition of PPAR-gamma signaling as potential mechanism for the negative relationships between immune response and lipid metabolismEmail this article to a colleague.
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Conclusions:
Results provided novel information into the early signaling and metabolic pathways in mammary tissue that are associated with the innate immune response to S. uberis infection. Our study indicated that IMI challenge with S. uberis (strain O140J) elicited a strong transcriptomic response, leading to potent activation of pro-inflammatory pathways that were associated with a marked inhibition of lipid synthesis, stress-activated kinase signaling cascades, and PPAR signaling (most likely PPARgamma). This latter effect may provide a mechanistic explanation for the inverse relationship between immune response and milk fat synthesis.
Source: BMC Genomics - Latest articles - November 19, 2009 Category: Genetics & Stem Cells Authors: Kasey MoyesJames DrackleyDawn MorinMassimo BionazSandra Rodriguez-ZasRobin EvertsHarris LewinJuan Loor Source Type: journals
Global identification of protein kinase substrates by protein microarray analysisEmail this article to a colleague.
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l Snyder
Herein, we describe a protocol for the global identification of in vitro substrates targeted by protein kinases using protein microarray technology. Large numbers of fusion proteins tagged at their carboxy-termini are purified in 96-well format and spotted in duplicate onto amino-silane-coated slides in a
Source: Nature Protocols - November 19, 2009 Category: Biomedical Science Authors: Janine MokHogune ImMichael Snyder Tags: Protocol Source Type: journals
The contribution of gene expression profiling to breast cancer classification, prognostication and prediction: a retrospective of the last decadeEmail this article to a colleague.
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In the last decade, the development of microarrays and the ability to perform massively parallel gene expression analysis of human tumours were received with great excitement by the scientific community. The promise of microarrays was of apocalyptic dimensions, with some experts envisaging that it would be a matter of a few years for this technology to replace traditional clinicopathological markers in clinical practice and treatment decision-making. The replacement of histopathology by high-tech and more objective approaches to cancer diagnosis, prognostication and prediction was, at that time, a foregone conclusion. Ten ...
Source: The Journal of Pathology - November 19, 2009 Category: Pathology Authors: Britta Weigelt, Frederick L Baehner, Jorge S Reis-Filho Source Type: journals
Society for Hematology and Stem Cells Travel Grants to ISEH 2010 MeetingEmail this article to a colleague.
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Date: 15 - 18 September, 2010Location: Melbourne Convention & Exhibition Centre, Melbourne Australia (www.mcec.com.au/)
Through the generous support of the State government of Victoria we are able to offer up to 200 travel grants for PhD students and post-doctoral delegates as follows:Delegates traveling from Europe AUD$2000Delegates traveling from the USA AUD$1500Delegates traveling from Asia AUD$1200Delegates traveling from New Zealand or within Australia AUD$300Applications need to be submitted with your abstract and will be assess...
Source: ScanGrants feed - November 19, 2009 Category: Research Authors: Society for Hematology and Stem Cells Source Type: funding
A transcriptome analysis identifies molecular effectors of unconjugated bilirubin in human neuroblastoma SH-SY5Y cellsEmail this article to a colleague.
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Conclusions:
These results show for the first time that UCB exposure induces ER stress response as major intracellular homeostasis in surviving neuroblastoma cells in vitro.
Source: BMC Genomics - Latest articles - November 19, 2009 Category: Genetics & Stem Cells Authors: Raffaella CalligarisCristina BellarosaRossana FotiPaola RoncagliaPablo GiraudiHelena KrmacClaudio TiribelliStefano Gustincich Source Type: journals
Immuno-Fluorescence In Situ Hybridization Index Predicts Survival in Patients With Diffuse Large B-Cell Lymphoma Treated With R-CHOP: A GELA Study [Hematologic Malignancies]Email this article to a colleague.
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Conclusion
Our study demonstrates that combining immunohistochemistry with FISH allows construction of an immunoFISH index that significantly predicts survival in elderly DLBCL patients treated with R-CHOP.
Source: Journal of Clinical Oncology - November 18, 2009 Category: Cancer & Oncology Authors: Copie-Bergman, Gaulard, Leroy, Briere, Baia, Jais, Salles, Berger, Haioun, Tilly, Emile, Banham, Mounier, Gisselbrecht, Feugier, Coiffier, Molina Tags: Translational Oncology, Protein Profiling, Chromosomal Abnormalities Hematologic Malignancies Source Type: journals
Age-Specific Differences in Oncogenic Pathway Dysregulation and Anthracycline Sensitivity in Patients With Acute Myeloid Leukemia [Hematologic Malignancies]Email this article to a colleague.
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Conclusion
AML in the elderly represents a distinct biologic entity characterized by unique patterns of deregulated signaling pathway variations that contributes to poor survival and anthracycline resistance. These insights should enable development and adjustments of clinically meaningful treatment strategies in the older patient population.
Source: Journal of Clinical Oncology - November 18, 2009 Category: Cancer & Oncology Authors: Rao, Valk, Metzeler, Acharya, Tuchman, Stevenson, Rizzieri, Delwel, Buske, Bohlander, Potti, Lowenberg Tags: Epidemiology, Translational Oncology, Hematologic, Other, Gene Expression and Profiling Hematologic Malignancies Source Type: journals
Lipoic acid attenuates high fat diet-induced chronic oxidative stress and immunosuppression in mice jejunum: a microarray analysis.Email this article to a colleague.
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A high fat diet (HFD) has long been linked to immune dysfunction, including diminished numbers or reactivity of lymphocytes, increased susceptibility to infection, inhibited lymphocytes function during antigen-specific responses and developed oxidative stress. Whereas the molecular mechanistic events associated with immune deficiency remain to be fully determined. Using the DNA microarray system, we analyzed the gene expression patterns of lymphocyte related signal transduction proteins in jejunum of C57BL/6 mice in order to gain insight on the possible molecular mechanism by which HFD induced oxidative stress effects ...
Source: Cellular Immunology - November 18, 2009 Category: Allergy & Immunology Authors: Cui J, Le G, Yang R, Shi Y Tags: Cell Immunol Source Type: journals
Mucosal gene signatures to predict response to infliximab in patients with ulcerative colitisEmail this article to a colleague.
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Conclusion:
Gene array studies of ulcerative colitis mucosal biopsies identified predictive panels of genes for (non-)response to infliximab. Further study of the pathways involved should allow a better understanding of the mechanisms of resistance to infliximab therapy in ulcerative colitis.
ClinicalTrials.gov number, NCT00639821.
Source: Gut - November 18, 2009 Category: Gastroenterology Authors: Arijs, I, Li, K, Toedter, G, Quintens, R, Van Lommel, L, Van Steen, K, Leemans, P, De Hertogh, G, Lemaire, K, Ferrante, M, Schnitzler, F, Thorrez, L, Ma, K, Song, X-Y R, Marano, C, Van Assche, G, Vermeire, S, Geboes, K, Schuit, F, Baribaud, F, Rutgeerts, Tags: Ulcerative colitis, Editor's choice Inflammatory bowel disease Source Type: journals
Synergistic increases of metabolism and oxidation-reduction genes on their expression after combined treatment with a CYP1A inducer and andrographolide.Email this article to a colleague.
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We previously reported that andrographolide greatly enhanced the expression of CYP1A1. Since andrographolide is a major constituent of Andrographis paniculata, which has been employed for centuries in Asia and Europe as a folk remedy, we further analyzed genes whose expression was modified by andrographolide using primary-cultured mouse hepatocytes in a microarray assay. With the threshold for modification set at 2-fold, andrographolide up-regulated 18 genes among 28,853 genes, most of them related to metabolism/oxidation/reduction. Meanwhile, 5 genes, related to protein binding or calcium ion binding, were down-regula...
Source: Chemico-Biological Interactions - November 18, 2009 Category: Molecular Biology Authors: Chatuphonprasert W, Jarukamjorn K, Kondo S, Nemoto N Tags: Chem Biol Interact Source Type: journals
Reciprocal regulation of ZEB1 and AR in triple negative breast cancer cellsEmail this article to a colleague.
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Abstract Zinc-finger enhancer binding protein (ZEB1) is a transcription factor involved in the progression of cancer primarily through
promoting epithelial to mesenchymal transition (EMT). ZEB1 represses the expression of E-cadherin by binding to E-box sequences
in the promoter, thus decreasing epithelial differentiation. We show that ZEB1 and androgen receptor (AR) cross-talk in triple
negative breast cancer cell lines. Chromatin immunoprecipitation analysis demonstrates that ZEB1 binds directly to the E-box
located in the AR promoter. ZEB1 suppression by stably transfecting shRNA in a triple negative breas...
Source: Breast Cancer Research and Treatment - November 18, 2009 Category: Cancer & Oncology Tags: Breast Cancer Research and Treatment Source Type: journals
A strategy for discovery of cancer glyco-biomarkers in serum using newly developed technologies for glycoproteomicsEmail this article to a colleague.
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Detection of cancer at early stages that can be treated through surgery is a difficult task. One methodology for cancer biomarker discovery exploits the fact that glycoproteins produced by cancer cells have altered glycan structures, although the proteins themselves are common, ubiquitous, abundant, and familiar. However, as cancer tissue at the early stage probably constitutes less than 1% of the normal tissue in the relevant organ, only 1% of the relevant glycoproteins in the serum should have altered glycan structures. Here, we describe our strategy to approach the detection of these low-level glycoproteins: (a) a quant...
Source: FEBS Journal - November 18, 2009 Category: Research Authors: Hisashi Narimatsu, Hiromichi Sawaki, Atsushi Kuno, Hiroyuki Kaji, Hiromi Ito, Yuzuru Ikehara Source Type: journals
CD 9 and vimentin distinguish clear cell from chromophobe renal cell carcinomaEmail this article to a colleague.
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Conclusions:
Based on gene expression analysis, we identify CD9 and vimentin as candidate markers for distinguishing between ccRCC and chRCC. In difficult cases and particularly when the amount of diagnostic tissue is limited, vimentin and CD9 staining could serve as a useful adjunct in the differential diagnosis of ccRCC and chRCC.
Source: BMC Clinical Pathology - Latest articles - November 18, 2009 Category: Pathology Authors: Ariel WilliamsJohn HigginsHongjuan ZhaoBorje LjunbergJames Brooks Source Type: journals
The choroid plexus response to a repeated peripheral inflammatory stimulusEmail this article to a colleague.
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Conclusions:
These observations contribute to a better understanding of the brain response to peripheral inflammation and pave the way to study their impact on the progression of several disorders of the central nervous system in which inflammation is known to be implicated.
Source: BMC Neuroscience - Latest articles - November 18, 2009 Category: Neuroscience Authors: Fernanda MarquesJoao SousaGiovanni CoppolaDaniel GeschwindNuno SousaJoana PalhaMargarida Correia-Neves Source Type: journals
Differential expression of miRNA patterns in renal cell carcinoma and nontumorous tissuesEmail this article to a colleague.
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Conclusion Quantitative real-time PCR analysis confirmed microarray data. The report supports that many miRNA expressions were altered
in renal carcinoma, whose expression profiling may provide a useful clue for the pathophysiology research. However, further
longer-term researches are required to investigate the relationship between miRNA and renal carcinoma as well as their role
in carcinogenesis.
Content Type Journal ArticleCategory Original PaperDOI 10.1007/s00432-009-0726-xAuthors
Zhengjun Yi, Weifang Medical University Department of Laboratory Medicine of Clinical Faculty Weifang ChinaYurong Fu,...
Source: Journal of Cancer Research and Clinical Oncology - November 17, 2009 Category: Cancer & Oncology Tags: Journal of Cancer Research and Clinical Oncology Source Type: journals
Cytokine Receptor-Like Factor 1 is Highly Expressed in Damaged Human Knee Osteoarthritic Cartilage and Involved in Osteoarthritis Downstream of TGF-βEmail this article to a colleague.
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Abstract Osteoarthritis (OA) is the most prevalent joint disease and is characterized by pain and functional loss of the joint. However,
the pathogenic mechanism of OA remains unclear, and no drug therapy for preventing its progress has been established. To identify
genes related to the progress of OA, the gene expression profiles of paired intact and damaged cartilage obtained from OA
patients undergoing joint substitution were compared using oligo microarrays. Using functional categorization combined with
gene ontology and a statistical analysis, five genes were found to be highly expressed in damaged cart...
Source: Calcified Tissue International - November 17, 2009 Category: Orthopaedics Tags: Calcified Tissue International Source Type: journals
Identifiability of isoform deconvolution from junction arrays and RNA-SeqEmail this article to a colleague.
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Motivation: Splice junction microarrays and RNA-seq are two popular ways of quantifying splice variants within a cell. Unfortunately, isoform expressions cannot always be determined from the expressions of individual exons and splice junctions. While this issue has been noted before, the extent of the problem on various platforms has not yet been explored, nor have potential remedies been presented.
Results: We propose criteria that will guarantee identifiability of an isoform deconvolution model on exon and splice junction arrays and in RNA-Seq. We show that up to 97% of 2256 alternatively spliced human genes selected fro...
Source: Bioinformatics - November 17, 2009 Category: Bioinformatics Authors: Hiller, D., Jiang, H., Xu, W., Wong, W. H. Tags: GENE EXPRESSION Source Type: journals
Microglandular adenosis or microglandular adenoma? A molecular genetic analysis of a case associated with atypia and invasive carcinomaEmail this article to a colleague.
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Conclusions: Similar to adenomas, MGA is, at least in some cases, a clonal lesion and may be a non-obligate precursor of a subgroup of high-grade triple-negative and basal-like breast carcinomas.
Source: Histopathology - November 17, 2009 Category: Pathology Authors: Felipe C Geyer, Yael B Kushner, Maryou B Lambros, Rachael Natrajan, Alan Mackay, Narinder Tamber, Kerry Fenwick, Dave Purnell, Alan Ashworth, Rosemary A Walker, Jorge S Reis-Filho Source Type: journals
Disparate oxidant gene expression of airway epithelium compared to alveolar macrophages in smokersEmail this article to a colleague.
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Conclusions:
Thus, the response of different cell-types with an identical genome exposed to the same stress of smoking is different; responses of alveolar macrophages are more subdued than those of airway epithelium. These findings are consistent with the observation that, while the small airway epithelium is vulnerable, alveolar macrophages are not "diseased" in response to smoking.Trial Registration: ClinicalTrials.gov ID: NCT00224185 and NCT00224198
Source: Respiratory Research - November 17, 2009 Category: Respiratory Medicine Authors: Brendan CarolanBen-Gary HarveyNeil HackettTimothy O'ConnorPatricia CassanoRonald Crystal Source Type: journals
Identification of genes associated with multiple cancers via
integrative analysisEmail this article to a colleague.
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Conclusions:
The Mc.TGD can identify a short list of genes associated with one or multiple types of cancers. The identified genes are considerably different from those identified using meta analysis or analysis of marginal effects.
Source: BMC Genomics - Latest articles - November 17, 2009 Category: Genetics & Stem Cells Authors: Shuangge MaJian HuangMeena Moran Source Type: journals
Cellular responses and expression profiling of human bone marrow stromal cells stimulated with enamel matrix proteins in vitroEmail this article to a colleague.
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Conclusions: EMPs promoted cell proliferation and differentiation and gene expression profiles of HBMSCs were affected. This may help elucidation of mechanisms involved in promoting regeneration of periodontal tissues by EMPs.
Source: Cell Proliferation - November 17, 2009 Category: Cytology Authors: Z. C. Song, R. Shu, X. L. Zhang Source Type: journals
Gene Expression Profiles Classify Human Osteosarcoma Xenografts According to Sensitivity to Doxorubicin, Cisplatin, and Ifosfamide.Email this article to a colleague.
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CONCLUSIONS: The expression profiles contained several novel biomarker candidates that may help predict the responsiveness of osteosarcoma to doxorubicin, cisplatin, and ifosfamide. The potential of selected candidates will be further validated on clinical specimens from osteosarcoma patients. (Clin Cancer Res 2009;15(23):OF1-9).
PMID: 19920113 [PubMed - as supplied by publisher]
Source: Clinical Cancer Research - November 17, 2009 Category: Cancer & Oncology Authors: Bruheim S, Xi Y, Ju J, Fodstad O Tags: Clin Cancer Res Source Type: journals
Protein Kinase A Activation Confers Resistance to Trastuzumab in Human Breast Cancer Cell Lines.Email this article to a colleague.
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CONCLUSIONS: Activation of PKA signaling may be one mechanism contributing to trastuzumab resistance in Her2-positive breast cancer. We propose a molecular model by which PKA confers its effects. (Clin Cancer Res 2009;15(23):OF1-11).
PMID: 19920112 [PubMed - as supplied by publisher]
Source: Clinical Cancer Research - November 17, 2009 Category: Cancer & Oncology Authors: Gu L, Lau SK, Loera S, Somlo G, Kane SE Tags: Clin Cancer Res Source Type: journals
A Four-Gene Signature from NCI-60 Cell Line for Survival Prediction in Non-Small Cell Lung Cancer.Email this article to a colleague.
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CONCLUSION: The invasion-associated four-gene signature derived from NCI-60 lung cancer cell lines had good survival prediction power for NSCLC patients. (Clin Cancer Res 2009;15(23):OF1-7).
PMID: 19920108 [PubMed - as supplied by publisher]
Source: Clinical Cancer Research - November 17, 2009 Category: Cancer & Oncology Authors: Hsu YC, Yuan S, Chen HY, Yu SL, Liu CH, Hsu PY, Wu G, Lin CH, Chang GC, Li KC, Yang PC Tags: Clin Cancer Res Source Type: journals
Expression of Epidermal Growth Factor Receptor (EGFR) and Activated EGFR Predict Poor Response to (Chemo)radiation and Survival in Cervical Cancer.Email this article to a colleague.
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CONCLUSIONS: EGFR and pEGFR immunostainings are frequently observed and independently associated with poor response to therapy and disease-specific survival in cervical cancer patients primarily treated by (chemo)radiation. Our data present the EGFR pathway as a promising therapeutic target in already ongoing clinical trials. (Clin Cancer Res 2009;15(23):OF1-9).
PMID: 19920104 [PubMed - as supplied by publisher]
Source: Clinical Cancer Research - November 17, 2009 Category: Cancer & Oncology Authors: Noordhuis MG, Eijsink JJ, Ten Hoor KA, Roossink F, Hollema H, Arts HJ, Pras E, Maduro JH, Reyners AK, de Bock GH, Wisman GB, Schuuring E, van der Zee AG Tags: Clin Cancer Res Source Type: journals
Pharmacogenetic Testing for Clopidogrel Using the Rapid INFINITI Analyzer: A Dose-Escalation StudyEmail this article to a colleague.
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Conclusions
Increasing the dose of clopidogrel in patients with nonresponder polymorphisms can increase antiplatelet response. Personalizing clopidogrel dosing using pharmacogenomics may be an effective method of optimizing treatment.
Source: Journal of the American College of Cardiology: Cardiovascular Interventions - November 16, 2009 Category: Cardiovascular & Thoracic Surgery Authors: Gladding, P., White, H., Voss, J., Ormiston, J., Stewart, J., Ruygrok, P., Bvaldivia, B., Baak, R., White, C., Webster, M. Tags: Clinical Research Source Type: journals
Stress response genes are suppressed in mouse preimplantation embryos by granulocyte-macrophage colony-stimulating factor (GM-CSF)Email this article to a colleague.
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CONCLUSIONS
We conclude that GM-CSF inhibits the cellular stress response and apoptosis pathways to facilitate embryo growth and survival, and the protective effects of GM-CSF are particularly evident in in vitro culture media, whereas in vivo other cytokines can partly compensate for absence of GM-CSF.
Source: Human Reproduction - November 16, 2009 Category: Reproduction Medicine Authors: Chin, P. Y., Macpherson, A. M., Thompson, J. G., Lane, M., Robertson, S. A. Tags: Embryology Source Type: journals
Development of a DNA Microarray to Detect Antimicrobial Resistance Genes Identified in the National Center for Biotechnology Information DatabaseEmail this article to a colleague.
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Microbial Drug Resistance , Vol. 0, No. 0.
Source: Microbial Drug Resistance - November 16, 2009 Category: Microbiology Tags: article Source Type: journals
Molecular diagnostics in acute leukemiasEmail this article to a colleague.
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Clinical Chemistry and Laboratory Medicine 47 (11): 1333-1341 Abstract Acute myeloid leukemia (AML) and acute lymphoblastic leukemia (ALL) both represent highly heterogeneous entities on the basis of diverse cyto- and molecular genetic alterations with considerable influence on prognosis and therapeutic decisions. In recent years, insights into the complex network of molecular markers underlying this diversity have shown marked progress due to the detection of novel mutations, such as nucleophosmin gene (NPM1) in AML, and due to the description of cooperation pathways in leukemogenesis. Also, targeted therapeutic strategie...
Source: Clinical Chemistry and Laboratory Medicine - November 16, 2009 Category: Laboratory Medicine Source Type: journals
Linear model for fast background subtraction in oligonucleotide microarraysEmail this article to a colleague.
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Conclusions:
The algorithm has been tested on 360 GeneChips from publicly available data of recent expression experiments. The algorithm is fast and accurate. Strong correlations between the fitted values for different experiments as well as between the free-energy parameters and their counterparts in aqueous solution indicate that our model captures a significant part of the underlying physical chemistry.
Source: Algorithms for Molecular Biology - November 16, 2009 Category: Molecular Biology Authors: K Myriam KrollGerard BarkemaEnrico Carlon Source Type: journals
Small supernumerary marker chromosome originating from chromosome 10 associated with an apparently normal phenotypeEmail this article to a colleague.
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We reported on another prenatal diagnosis of a de novo mosaic sSMC in an apparently normal female fetus whose mother had conceived with assisted reproductive technology (ART) procedures. G-banding analysis of amniotic cells was performed. Spectral karyotyping (SKY) and fluorescence in situ hybridization (FISH) studies with chromosome 10-specific alphoid satellite DNA probe were used to identify the chromosome 10 origin of the sSMC. Further FISH study with telomeric sequence probes showed that the sSMC lacked a hybridization signal, suggesting that the marker could be a ring chromosome. FISH studies using BAC clone probes s...
Source: American Journal of Medical Genetics Part A - November 16, 2009 Category: Genetics & Stem Cells Authors: Pi-Lin Sung, Sheng-Ping Chang, Kuo-Chang Wen, Chia-Ming Chang, Ming-Jie Yang, Lin-Chao Chen, Kuan-Chong Chao, Chi-Ying F. Huang, Yueh-Chun Li, Chyi-Chyang Lin Source Type: journals
3' tag digital gene expression profiling of human brain and universal reference RNA using Illumina Genome AnalyzerEmail this article to a colleague.
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Conclusion:
3' tag DGE profiling with massive parallel sequencing achieved high sensitivity and reproducibility for transcriptome profiling. Although it lacks the ability of detecting alternative splicing events compared to RNA-SEQ, it is much more affordable and clearly out-performed microarrays (Affymetrix) in detecting lower abundant transcripts.
Source: BMC Genomics - Latest articles - November 16, 2009 Category: Genetics & Stem Cells Authors: Yan AsmannEric KleeE ThompsonEdith PerezSumit MiddhaAnn ObergTerry TherneauDavid SmithGregory PolandEric WiebenJean-Pierre Kocher Source Type: journals
The Hydroxyl-Functionalized Magnetic Particles for Purification of Glycan-Binding Proteins.Email this article to a colleague.
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Glycan-protein interactions play important biological roles in biological processes. Although there are some methods such as glycan arrays that may elucidate recognition events between carbohydrates and protein as well as screen the important glycan-binding proteins, there is a lack of simple effectively separate method to purify them from complex samples. In proteomics studies, fractionation of samples can help to reduce their complexity and to enrich specific classes of proteins for subsequent downstream analyses. Herein, a rapid simple method for purification of glycan-binding proteins from proteomic samples was dev...
Source: Current Pharmaceutical Biotechnology - November 16, 2009 Category: Biotechnology Authors: Sun X, Yang G, Sun S, Quan R, Dai W, Li B, Chen C, Li Z Tags: Curr Pharm Biotechnol Source Type: journals
Fitness Costs and Stability of a High-Level Ciprofloxacin Resistance Phenotype in Salmonella enterica Serotype Enteritidis: Reduced Infectivity Associated with Decreased Expression of SPI-1 Genes.Email this article to a colleague.
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In conclusion, high-level ciprofloxacin resistance in Salmonella Enteritidis is associated with fitness costs. In the absence of antibiotic selection pressure isolates may acquire mutations enabling reversion to an intermediate-level ciprofloxacin resistance phenotype associated with less significant fitness costs.
PMID: 19917752 [PubMed - as supplied by publisher]
Source: Antimicrobial Agents and Chemotherapy - November 16, 2009 Category: Microbiology Authors: O'Regan E, Quinn T, Frye JG, Pagès JM, Porwollik S, Fedorka-Cray PJ, McClelland M, Fanning S Tags: Antimicrob Agents Chemother Source Type: journals
Linear model for fast background subtraction in oligonucleotide microarrays.Email this article to a colleague.
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CONCLUSIONS: The algorithm has been tested on 360 GeneChips from publicly available data of recent expression experiments. The algorithm is fast and accurate. Strong correlations between the fitted values for different experiments as well as between the free-energy parameters and their counterparts in aqueous solution indicate that our model captures a significant part of the underlying physical chemistry.
PMID: 19917117 [PubMed - as supplied by publisher]
Source: Algorithms for Molecular Biology : AMB - November 16, 2009 Category: Molecular Biology Authors: Kroll KM, Barkema GT, Carlon E Tags: Algorithms Mol Biol Source Type: journals
Acid ceramidase 1 expression correlates with a better prognosis in ER-positive breast cancer.Email this article to a colleague.
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CONCLUSION: ASAH1 is an estrogen-dependent member of the sphingolipid metabolism, which might provide further prognostic information in ER-positive breast cancers.
PMID: 19905902 [PubMed - in process]
Source: Climacteric - November 15, 2009 Category: Geriatrics Authors: Ruckhäberle E, Holtrich U, Engels K, Hanker L, Gätje R, Metzler D, Karn T, Kaufmann M, Rody A Tags: Climacteric Source Type: journals
Background correction of two-colour cDNA microarray data using spatial smoothing methods.Email this article to a colleague.
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The analysis of two-colour cDNA microarray data usually involves subtracting background values from foreground values prior to normalization and further analysis. This approach has the advantage of reducing bias and the disadvantage of blowing up the variance of lower abundant spots. Whenever background subtraction is considered, it implicitly assumes locally constant background values. In practice, this assumption is often not met, which casts doubts on the usefulness of simple background subtraction. In order to improve background correction, we propose local background smoothing within the pre-processing pipeline of...
Source: TAG. Theoretical and Applied Genetics - November 15, 2009 Category: Genetics & Stem Cells Authors: Schützenmeister A, Piepho HP Tags: Theor Appl Genet Source Type: journals
Use of Short-term Transcriptional Profiles to Assess the Long-term Cancer-Related Safety of Environmental and Industrial ChemicalsEmail this article to a colleague.
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In this study, the use of short-term gene expression profiles was evaluated for predicting the increased incidence of mouse lung tumors. Animals were exposed to a total of 26 diverse chemicals with matched vehicle controls over a period of 3 years. Upon completion, significant batch-related effects were observed. Adjustment for batch effects significantly improved the ability to predict increased lung tumor incidence. For the best statistical model, the estimated predictive accuracy under honest fivefold cross-validation was 79.3% with a sensitivity and specificity of 71.4 and 86.3%, respectively. A learning curve analysis...
Source: Toxicological Sciences - November 13, 2009 Category: Toxicology Authors: Thomas, R. S., Bao, W., Chu, T.-M., Bessarabova, M., Nikolskaya, T., Nikolsky, Y., Andersen, M. E., Wolfinger, R. D. Tags: CARCINOGENICITY Source Type: journals
Gene and Protein Responses of Human Monocytes to Extracellular Cysteine Redox PotentialEmail this article to a colleague.
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The redox potential of the major thiol/disulfide couple, cysteine (Cys) and its disulfide cystine (CySS), in plasma (EhCys) is oxidized in association with oxidative stress, and oxidized EhCys is associated with cardiovascular disease risk. In vitro exposure of monocytes to oxidized EhCys increases expression of the proinflammatory cytokine, interleukin-1β (IL-1β), suggesting that EhCys could be a mechanistic link between oxidative stress and chronic inflammation. Because cell membranes contain multiple Cys-rich proteins, which could be sensitive to EhCys, we sought to determine whether EhCys specifically affects...
Source: Toxicological Sciences - November 13, 2009 Category: Toxicology Authors: Go, Y.-M., Craige, S. E., Orr, M., Gernert, K. M., Jones, D. P. Tags: ENVIRONMENTAL TOXICOLOGY Source Type: journals
Discrimination for Genotoxic and Nongenotoxic Carcinogens by Gene Expression Profiling in Primary Mouse Hepatocytes Improves with Exposure TimeEmail this article to a colleague.
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Assessing the potential carcinogenicity of chemicals for humans represents an ongoing challenge. Chronic rodent bioassays predict human cancer risk at only limited reliability and are simultaneously expensive and long lasting. In order to seek for alternatives, the ability of a transcriptomics-based primary mouse hepatocyte model to classify carcinogens by their modes of action was evaluated. As it is obvious that exposure will induce a cascade of gene expression modifications, in particular, the influence of exposure time in vitro on discriminating genotoxic (GTX) carcinogens from nongenotoxic (NGTX) carcinogens class dis...
Source: Toxicological Sciences - November 13, 2009 Category: Toxicology Authors: Mathijs, K., Brauers, K. J. J., Jennen, D. G. J., Boorsma, A., van Herwijnen, M. H. M., Gottschalk, R. W. H., Kleinjans, J. C. S., van Delft, J. H. M. Tags: IN VITRO TOXICOLOGY AND ALTERNATIVE TESTING Source Type: journals
