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zebrafish oligo microarray 4×44k platform  (Agilent technologies)


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    Structured Review

    Agilent technologies zebrafish oligo microarray 4×44k platform
    Zebrafish Oligo Microarray 4×44k Platform, supplied by Agilent technologies, 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/zebrafish+microarray+platform/pmc03413166-221-8-7
    Average 90 stars, based on 1 article reviews
    zebrafish oligo microarray 4×44k platform - by Bioz Stars, 2026-09
    90/100 stars

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    other:

    Article Title: Radiogenomic profiling of prostate tumors prior to external beam radiotherapy converges on a transcriptomic signature of TGF-β activity driving tumor recurrence
    Article Snippet: Gene level summaries from Agilent 4×44K microarrays of LNCaP and HPS-19I cultures [ ] were downloaded from GEO (Accession ID GSE51624).

    Article Title: The Arabidopsis Deubiquitylase OTU5 Suppresses Flowering by Histone Modification-Mediated Activation of the Major Flowering Repressors FLC , MAF4 , and MAF5 .
    Article Snippet: The fragmented cRNA was then pooled and hybridized to Arabidopsis (V4) 4×44K Microarray (Agilent Technologies) at 65 ◦C for 17 h. After the washing and drying steps, the microarrays were scanned with an Agilent microarray scanner (Agilent Technologies) at 535 nm for Cy3.

    Article Title: Histone deacetylation primes self-propagation of heterochromatin domains to promote epigenetic inheritance
    Article Snippet: Equal amounts of Cy5- and Cy3-labeled DNA were mixed and hybridized to 4×44K Agilent custom 60-mer oligonucleotide array according to Agilent’s protocol.

    Article Title: Staphylococcal protein A modulates inflammation by inducing interferon signaling in human nasal epithelial cells.
    Article Snippet: For RNA profiling, the Agilent Whole Mouse Genome Microarray 4×44K was used according to the manufacturer’s instruction with 100 ng RNA (RNA integrity number (RIN)> = 7).

    Article Title: c-Myc inhibits LAPTM5 expression in B-cell lymphomas.
    Article Snippet: Myc is a pivotal protooncogenic transcription factor that contributes to the development of almost all Burkitt’s lymphomas and about one-third of diffuse large B-cell lymphomas.. How B-cells sustain their uncontrolled proliferation due to high Myc is not yet well defined.. Here, we found that Myc trans-represses the expression of murine LAPTM5, a gene coding a lysosomeassociated protein, by binding to two E-boxes in the LAPTM5 promoter.

    Microarray:

    Article Title: Proteogenomic analysis reveals adaptive strategies to alleviate the consequences of aneuploidy in cancer
    Article Snippet: Genome-wide comparative genomic hybridization of cell lines (Supplementary Table 2) was carried out by IMGM laboratories (Martinsried, Germany). .. Agilent Human Genome CGH Microarrays (4×44K format) and SurePrint G3 Human CGH Microarray (4×180K format) were used in combination with a Two-Color based hybridization protocol with a commercially available reference gDNA. .. Signals on the microarrays were extracted using the Agilent DNA Microarray Scanner.

    Article Title: MiR-107 and MiR-185 Can Induce Cell Cycle Arrest in Human Non Small Cell Lung Cancer Cell Lines
    Article Snippet: The cRNA probe was generated from total RNA (500 ng) with the Low RNA Input linear amplification & Labeling kit (Agilent Technologies, Santa Clara, CA, USA). .. Cy3-labeled cRNA (1.65 μg) was then fragmented and relative expression was measured by hybridization to 4×44K whole human oligo microarray (Agilent). ..

    Hybridization:

    Article Title: Proteogenomic analysis reveals adaptive strategies to alleviate the consequences of aneuploidy in cancer
    Article Snippet: Genome-wide comparative genomic hybridization of cell lines (Supplementary Table 2) was carried out by IMGM laboratories (Martinsried, Germany). .. Agilent Human Genome CGH Microarrays (4×44K format) and SurePrint G3 Human CGH Microarray (4×180K format) were used in combination with a Two-Color based hybridization protocol with a commercially available reference gDNA. .. Signals on the microarrays were extracted using the Agilent DNA Microarray Scanner.

    Article Title: MiR-107 and MiR-185 Can Induce Cell Cycle Arrest in Human Non Small Cell Lung Cancer Cell Lines
    Article Snippet: The cRNA probe was generated from total RNA (500 ng) with the Low RNA Input linear amplification & Labeling kit (Agilent Technologies, Santa Clara, CA, USA). .. Cy3-labeled cRNA (1.65 μg) was then fragmented and relative expression was measured by hybridization to 4×44K whole human oligo microarray (Agilent). ..

    Article Title: 1,3-Diarylpyrazolyl-acylsulfonamides as potent anti-tuberculosis agents targeting cell wall biosynthesis in Mycobacterium tuberculosis
    Article Snippet: Fluorescent cDNA was analyzed with the Nanodrop ND-1000. .. Equal amounts (0.7 μg) of Cy3- and Cy5-labeled cDNA were hybridized to the Agilent SurePrint G3 4×44K custom oligonucleotide microarrays (design number 021966, 021362) in the TECAN HS Pro 4800 hybridization station. .. Hybridization was performed using Agilent 2x Gene expression hybridization HI-RPM buffer, and 10x Blocking Reagent at 65 °C for 17 h. Arrays were washed with Agilent Gene Expression Wash Buffer 1 at room temperature and Gene Expression Wash Buffer 2 at 37 °C.

    Expressing:

    Article Title: MiR-107 and MiR-185 Can Induce Cell Cycle Arrest in Human Non Small Cell Lung Cancer Cell Lines
    Article Snippet: The cRNA probe was generated from total RNA (500 ng) with the Low RNA Input linear amplification & Labeling kit (Agilent Technologies, Santa Clara, CA, USA). .. Cy3-labeled cRNA (1.65 μg) was then fragmented and relative expression was measured by hybridization to 4×44K whole human oligo microarray (Agilent). ..



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    Agilent technologies zebrafish oligo microarray 4×44k platform
    Of 12261 potential unique genes, the mRNA expression of 1313 were found to be statistically significantly changed at 24 hpf, with 583 downregulated (grey) and 730 upregulated (black). 836 genes were changed with statistical significance at 36 hpf, of which 243 were downregulated and 593 were upregulated. (n=3 pools of 25 embryos used for <t>microarray</t> analysis, P≤0.05, Students t -test with Benjamini-Hochberg false-discovery rate correction).
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    Average 90 stars, based on 1 article reviews
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    Image Search Results


    Of 12261 potential unique genes, the mRNA expression of 1313 were found to be statistically significantly changed at 24 hpf, with 583 downregulated (grey) and 730 upregulated (black). 836 genes were changed with statistical significance at 36 hpf, of which 243 were downregulated and 593 were upregulated. (n=3 pools of 25 embryos used for microarray analysis, P≤0.05, Students t -test with Benjamini-Hochberg false-discovery rate correction).

    Journal: PLoS ONE

    Article Title: The Transcriptomics of Glucocorticoid Receptor Signaling in Developing Zebrafish

    doi: 10.1371/journal.pone.0080726

    Figure Lengend Snippet: Of 12261 potential unique genes, the mRNA expression of 1313 were found to be statistically significantly changed at 24 hpf, with 583 downregulated (grey) and 730 upregulated (black). 836 genes were changed with statistical significance at 36 hpf, of which 243 were downregulated and 593 were upregulated. (n=3 pools of 25 embryos used for microarray analysis, P≤0.05, Students t -test with Benjamini-Hochberg false-discovery rate correction).

    Article Snippet: To better understand of the molecular mechanisms involved, we investigated changes in the developmental transcriptome prior to hatch, in response to morpholino oligonucleotide knockdown of GR using the Agilent zebrafish microarray platform.

    Techniques: Expressing, Microarray

    qPCR analysis was performed on 7 genes to confirm the transcript abundance seen with the microarray analysis. The selected genes were bmp7a (A), f5 (B) , ff1d (C), myom1a (D), pomca (E), star (F), mc1r (G). Data is presented as mean ± standard error of the mean (normalized to β-actin, SEM; n=5-7 pools of 25 embryos each); * denotes statistical significance ( t -test, p<0.05). (See for fold-changes and p-values).

    Journal: PLoS ONE

    Article Title: The Transcriptomics of Glucocorticoid Receptor Signaling in Developing Zebrafish

    doi: 10.1371/journal.pone.0080726

    Figure Lengend Snippet: qPCR analysis was performed on 7 genes to confirm the transcript abundance seen with the microarray analysis. The selected genes were bmp7a (A), f5 (B) , ff1d (C), myom1a (D), pomca (E), star (F), mc1r (G). Data is presented as mean ± standard error of the mean (normalized to β-actin, SEM; n=5-7 pools of 25 embryos each); * denotes statistical significance ( t -test, p<0.05). (See for fold-changes and p-values).

    Article Snippet: To better understand of the molecular mechanisms involved, we investigated changes in the developmental transcriptome prior to hatch, in response to morpholino oligonucleotide knockdown of GR using the Agilent zebrafish microarray platform.

    Techniques: Microarray

    List of genes confirmed using  microarray  and qPCR with fold-changes and p-values.

    Journal: PLoS ONE

    Article Title: The Transcriptomics of Glucocorticoid Receptor Signaling in Developing Zebrafish

    doi: 10.1371/journal.pone.0080726

    Figure Lengend Snippet: List of genes confirmed using microarray and qPCR with fold-changes and p-values.

    Article Snippet: To better understand of the molecular mechanisms involved, we investigated changes in the developmental transcriptome prior to hatch, in response to morpholino oligonucleotide knockdown of GR using the Agilent zebrafish microarray platform.

    Techniques: Microarray