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oligonucleotide microarray experiments  (Thermo Fisher)


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    Structured Review

    Thermo Fisher oligonucleotide microarray experiments
    Comparison of transcript quantification by Affymetrix <t>microarray</t> with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.
    Oligonucleotide Microarray Experiments, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/oligonucleotide+microarray+experiments/pmc03013460-1282-23-26
    Average 90 stars, based on 1 article reviews
    oligonucleotide microarray experiments - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "Quantitative Protein and mRNA Profiling Shows Selective Post-Transcriptional Control of Protein Expression by Vasopressin in Kidney Cells * "

    Article Title: Quantitative Protein and mRNA Profiling Shows Selective Post-Transcriptional Control of Protein Expression by Vasopressin in Kidney Cells *

    Journal: Molecular & Cellular Proteomics : MCP

    doi: 10.1074/mcp.M110.004036

    Comparison of transcript quantification by Affymetrix microarray with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.
    Figure Legend Snippet: Comparison of transcript quantification by Affymetrix microarray with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.

    Techniques Used: Microarray, Quantitative RT-PCR

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    Microarray:

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    Article Snippet: .. The circadian mechanism may also regulate a wide variety of additional genes, as a total of 462 out of 5,120 cardiac genes analyzed (∼9%) were rhythmically expressed in murine heart under endogenous circadian conditions, by Affymetrix oligonucleotide microarray analyses . ..

    Article Title: Development and validation of a 23-gene expression signature for molecular subtyping of medulloblastoma in a long-term Chinese cohort.
    Article Snippet: Purpose Medulloblastoma is the most common childhood malignant brain tumor and is a leading cause of cancer-related death in children.. Recent transcriptional studies have shown that medulloblastomas comprise at least four molecular subgroups, each with distinct demographics, genetics, and clinical outcomes.. Medulloblastoma subtyping has become critical for subgroup-specific therapies.

    Article Title: Gene expression analyses in maize inbreds and hybrids with varying levels of heterosis
    Article Snippet: We identified a set of 13,874 features on this platform that are expected to detect the same transcripts as the Affymetrix platform. .. For all Affymetrix DE genes that are present on the 70-mer oligonucleotide microarray we compared the log 2 expression differences between parental inbred lines on both platforms (Figure ). ..

    Article Title: Impaired Plakophilin-2 in obesity breaks cell cycle dynamics to breed adipocyte senescence
    Article Snippet: .. Subsequently, a total of 20,893 transcripts contained in the Affymetrix oligonucleotide microarray were tested for differential expressions in each experiment. ..

    Article Title: Transcriptional Profiles of Leukocyte Populations Provide a Tool for Interpreting Gene Expression Patterns Associated with High Fat Diet in Mice
    Article Snippet: .. All data samples listed in and were generated using the Affymetrix 430 2.0 oligonucleotide microarray, which is the same platform utilized in the Novartis strain-diet-sex survey. ..

    Article Title: Identifying novel glioma associated pathways based on systems biology level meta-analysis
    Article Snippet: .. We collected four publicly available glioma microarray expression datasets, which were performed using Affymetrix oligonucleotide microarray. ..

    other:

    Article Title: Global analysis of gene expression in mineralizing fish vertebra-derived cell lines: new insights into anti-mineralogenic effect of vanadate
    Article Snippet: A similar fold-change compression was observed by Wang et al. while validating two commercial long-oligonucleotide microarray platforms, Applied Biosystems and Agilent, through large scale qPCR analysis of gene expression [ ], and more recently by Ferraresso and colleagues while using Agilent gilthead seabream oligo-array [ ].

    Article Title: Profile of Expression of Genes Encoding Matrix Metallopeptidase 9 (MMP9), Matrix Metallopeptidase 28 (MMP28) and TIMP Metallopeptidase Inhibitor 1 (TIMP1) in Colorectal Cancer: Assessment of the Role in Diagnosis and Prognostication
    Article Snippet: The obtained results indicated that out of 44 mRNA assessed by the oligonucleotide microarray method (HG-U133A, Affymetrix ® ), 11 mRNA differentiate the compared groups with the assumed p<0.05. mRNA heat maps of metalloproteinases and their inhibitors were simultaneously generated for 11 ID mRNA (GeneSpring GX), demonstrating an mRNA concentration profile differentiating CRC from the control.

    Gene Expression:

    Article Title: Development and validation of a 23-gene expression signature for molecular subtyping of medulloblastoma in a long-term Chinese cohort.
    Article Snippet: Purpose Medulloblastoma is the most common childhood malignant brain tumor and is a leading cause of cancer-related death in children.. Recent transcriptional studies have shown that medulloblastomas comprise at least four molecular subgroups, each with distinct demographics, genetics, and clinical outcomes.. Medulloblastoma subtyping has become critical for subgroup-specific therapies.

    Expressing:

    Article Title: Gene expression analyses in maize inbreds and hybrids with varying levels of heterosis
    Article Snippet: We identified a set of 13,874 features on this platform that are expected to detect the same transcripts as the Affymetrix platform. .. For all Affymetrix DE genes that are present on the 70-mer oligonucleotide microarray we compared the log 2 expression differences between parental inbred lines on both platforms (Figure ). ..

    Article Title: Identifying novel glioma associated pathways based on systems biology level meta-analysis
    Article Snippet: .. We collected four publicly available glioma microarray expression datasets, which were performed using Affymetrix oligonucleotide microarray. ..

    Generated:

    Article Title: Transcriptional Profiles of Leukocyte Populations Provide a Tool for Interpreting Gene Expression Patterns Associated with High Fat Diet in Mice
    Article Snippet: .. All data samples listed in and were generated using the Affymetrix 430 2.0 oligonucleotide microarray, which is the same platform utilized in the Novartis strain-diet-sex survey. ..



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    Comparison of transcript quantification by Affymetrix <t>microarray</t> with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.
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    Image Search Results


    A) The stacked bar chart represents a summary of total upregulated (red) and downregulated (green) genes representing 22 important signaling and disease pathways in AD subjects compared to controls. The output core analysis, reflecting the differential gene expressions obtained from the microarrays (gene sets with≥2-fold change, t -test, p < 0.05). B) Ingenuity Pathway Analysis (IPA)-derived Amyloid Processing network of differentially expressed genes derived from microarray analysis. IPA analysis identified a group of genes expression status and their potential interactive links in the context of Amyloid Processing, Neuronal Death. We noted activation of Gamma Secretase, Beta Secretase, upregulation of ERK1/2 CK1/2 P38MAPK, PKA, PRKCE, CDK5 , and CDK5R1 and downregulation of MAPT , and GSK3B .

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    Article Title: Transcriptomic Analysis of Alzheimer’s Disease Pathways in a Pakistani Population 1

    doi: 10.3233/ADR-230146

    Figure Lengend Snippet: A) The stacked bar chart represents a summary of total upregulated (red) and downregulated (green) genes representing 22 important signaling and disease pathways in AD subjects compared to controls. The output core analysis, reflecting the differential gene expressions obtained from the microarrays (gene sets with≥2-fold change, t -test, p < 0.05). B) Ingenuity Pathway Analysis (IPA)-derived Amyloid Processing network of differentially expressed genes derived from microarray analysis. IPA analysis identified a group of genes expression status and their potential interactive links in the context of Amyloid Processing, Neuronal Death. We noted activation of Gamma Secretase, Beta Secretase, upregulation of ERK1/2 CK1/2 P38MAPK, PKA, PRKCE, CDK5 , and CDK5R1 and downregulation of MAPT , and GSK3B .

    Article Snippet: The oligonucleotide microarray experiments were conducted by EpigenDx (Boston, MA) using the Affymetrix U133 Plus 2.0 Array platform, which has comprehensive coverage of the whole transcribed human genome on a single array.

    Techniques: Derivative Assay, Microarray, Expressing, Activation Assay

    Comparison of transcript quantification by Affymetrix microarray with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.

    Journal: Molecular & Cellular Proteomics : MCP

    Article Title: Quantitative Protein and mRNA Profiling Shows Selective Post-Transcriptional Control of Protein Expression by Vasopressin in Kidney Cells *

    doi: 10.1074/mcp.M110.004036

    Figure Lengend Snippet: Comparison of transcript quantification by Affymetrix microarray with real time RT-PCR. A 200 ng aliquot total RNA from dDAVP- and vehicle-exposed mpkCCD cells was used for quantification of transcript abundances with real time RT-PCR. *, statistically significant versus no change i.e. log2(dDAVP/vehicle) = 0 (p < 0.05, n = 3). The RefSeq accession numbers are: Akap12, NM_031185; Aqp2, NM_009699; Asap2, NM_001004364; C3, NM_009778; Clmn, NM_001040682; Cpt1a, NM_013495; Fth1, NM_010239; Gsdmc1, NM_031378; Gsdmc2, NM_177912; Gsdmc4, XM_001474104; Gstt3, NM_133994; Idh1, NM_001111320; Mon2, NM_153395; Osbpl1a, NM_207530; Spnb3, NM_021287; and Trip11, XM_001001171.

    Article Snippet: To address whether changes in protein abundance measured by SILAC LC-MS/MS are generally because of corresponding changes in mRNA levels, we carried out oligonucleotide microarray experiments (Affymetrix) in mpkCCD cells treated in the same manner (0.1 n m dDAVP or vehicle for 5 days).

    Techniques: Microarray, Quantitative RT-PCR