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custom-designed oligonucleotide microarray  (Agilent technologies)


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    Structured Review

    Agilent technologies custom-designed oligonucleotide microarray
    The relative transcriptional level of 10 selected genes determined by DNA <t>microarray</t> and qRT-PCR analyses were log 2 transformed, and the values were plotted against each other to evaluate their correlation. The genes analysed by qRT-PCR are listed in .
    Custom Designed Oligonucleotide Microarray, 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/custom-designed+oligonucleotide+microarray/pmc04180751-134-9-7
    Average 90 stars, based on 1 article reviews
    custom-designed oligonucleotide microarray - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "Two Spx Regulators Modulate Stress Tolerance and Virulence in Streptococcus suis Serotype 2"

    Article Title: Two Spx Regulators Modulate Stress Tolerance and Virulence in Streptococcus suis Serotype 2

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0108197

    The relative transcriptional level of 10 selected genes determined by DNA microarray and qRT-PCR analyses were log 2 transformed, and the values were plotted against each other to evaluate their correlation. The genes analysed by qRT-PCR are listed in .
    Figure Legend Snippet: The relative transcriptional level of 10 selected genes determined by DNA microarray and qRT-PCR analyses were log 2 transformed, and the values were plotted against each other to evaluate their correlation. The genes analysed by qRT-PCR are listed in .

    Techniques Used: Microarray, Quantitative RT-PCR, Transformation Assay

    Expression ratios of genes involved in oxidative stress response and virulence in the mutant strains relative to the WT strain by  microarray  analysis <xref ref-type= a ." title="... mutant strains relative to the WT strain by microarray analysis a ..." property="contentUrl" width="100%" height="100%"/>
    Figure Legend Snippet: Expression ratios of genes involved in oxidative stress response and virulence in the mutant strains relative to the WT strain by microarray analysis a .

    Techniques Used: Expressing, Mutagenesis, Microarray

    Related Articles

    Microarray:

    Article Title: Characterization of a newly developed chicken 44K Agilent microarray
    Article Snippet: .. A long oligonucleotide microarray has been manually curated and designed by our group and manufactured using Agilent inkjet technology. ..

    Article Title: Defining E3 ligase-substrate relationships through multiplex CRISPR screening.
    Article Snippet: .. A pool of sgRNAs targeting 187 BTB adaptors at a depth of 6 sgRNAs/gene were synthesized on an oligonucleotide microarray (Agilent) and cloned into the lentiCRISPR v2 vector as described above. ..

    Article Title: Reliable Single Cell Array CGH for Clinical Samples
    Article Snippet: .. This could be achieved by combined use of Ampli1TM WGA technology together with customized DNA labeling technique and high-resolution Agilent SurePrint G3 Human 4×180 k oligonucleotide microarray platform. ..

    Article Title: Treatment of Glucocorticoids Inhibited Early Immune Responses and Impaired Cardiac Repair in Adult Zebrafish
    Article Snippet: .. To assess the overall differential transcript expression in the initial phase of cardiac repair, we compared the overall gene expression profiles of hearts sampled under three conditions: no-injury, 1dpa-vehicle (i.e., normal healing), and 1dpa-beclomethasone (i.e., impaired healing), using the Agilent zebrafish specific 60-mer oligonucleotide microarray. ..

    Article Title: The Odilorhabdin Antibiotic Biosynthetic Cluster and Acetyltransferase Self-Resistance Locus Are Niche and Species Specific.
    Article Snippet: .. The Agilent oligonucleotide microarray used in this study carries two or three 60-mer probes per sequence of interest. .. The 40 sequences of interest were either NRPS-PKS modules or nonmodular genes associated with NRPS-PKS loci identified in the genomic sequences of X. nematophila ATCC 19061T and P. laumondii TT01T (Fig. S7).

    Article Title: Mitochondrial MICOS complex genes, implicated in hypoplastic left heart syndrome, maintain cardiac contractility and actomyosin integrity
    Article Snippet: .. To detect aneuploidy, array comparative genomic hybridization was performed using a custom 180 K oligonucleotide microarray (Agilent, Santa Clara, CA), with a genome- wide functional resolution of approximately 100 kilobases. ..

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..

    Synthesized:

    Article Title: Defining E3 ligase-substrate relationships through multiplex CRISPR screening.
    Article Snippet: .. A pool of sgRNAs targeting 187 BTB adaptors at a depth of 6 sgRNAs/gene were synthesized on an oligonucleotide microarray (Agilent) and cloned into the lentiCRISPR v2 vector as described above. ..

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..

    Clone Assay:

    Article Title: Defining E3 ligase-substrate relationships through multiplex CRISPR screening.
    Article Snippet: .. A pool of sgRNAs targeting 187 BTB adaptors at a depth of 6 sgRNAs/gene were synthesized on an oligonucleotide microarray (Agilent) and cloned into the lentiCRISPR v2 vector as described above. ..

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..

    Plasmid Preparation:

    Article Title: Defining E3 ligase-substrate relationships through multiplex CRISPR screening.
    Article Snippet: .. A pool of sgRNAs targeting 187 BTB adaptors at a depth of 6 sgRNAs/gene were synthesized on an oligonucleotide microarray (Agilent) and cloned into the lentiCRISPR v2 vector as described above. ..

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..

    Whole Genome Amplification:

    Article Title: Reliable Single Cell Array CGH for Clinical Samples
    Article Snippet: .. This could be achieved by combined use of Ampli1TM WGA technology together with customized DNA labeling technique and high-resolution Agilent SurePrint G3 Human 4×180 k oligonucleotide microarray platform. ..

    DNA Labeling:

    Article Title: Reliable Single Cell Array CGH for Clinical Samples
    Article Snippet: .. This could be achieved by combined use of Ampli1TM WGA technology together with customized DNA labeling technique and high-resolution Agilent SurePrint G3 Human 4×180 k oligonucleotide microarray platform. ..

    Expressing:

    Article Title: Treatment of Glucocorticoids Inhibited Early Immune Responses and Impaired Cardiac Repair in Adult Zebrafish
    Article Snippet: .. To assess the overall differential transcript expression in the initial phase of cardiac repair, we compared the overall gene expression profiles of hearts sampled under three conditions: no-injury, 1dpa-vehicle (i.e., normal healing), and 1dpa-beclomethasone (i.e., impaired healing), using the Agilent zebrafish specific 60-mer oligonucleotide microarray. ..

    Gene Expression:

    Article Title: Treatment of Glucocorticoids Inhibited Early Immune Responses and Impaired Cardiac Repair in Adult Zebrafish
    Article Snippet: .. To assess the overall differential transcript expression in the initial phase of cardiac repair, we compared the overall gene expression profiles of hearts sampled under three conditions: no-injury, 1dpa-vehicle (i.e., normal healing), and 1dpa-beclomethasone (i.e., impaired healing), using the Agilent zebrafish specific 60-mer oligonucleotide microarray. ..

    Sequencing:

    Article Title: The Odilorhabdin Antibiotic Biosynthetic Cluster and Acetyltransferase Self-Resistance Locus Are Niche and Species Specific.
    Article Snippet: .. The Agilent oligonucleotide microarray used in this study carries two or three 60-mer probes per sequence of interest. .. The 40 sequences of interest were either NRPS-PKS modules or nonmodular genes associated with NRPS-PKS loci identified in the genomic sequences of X. nematophila ATCC 19061T and P. laumondii TT01T (Fig. S7).

    Hybridization:

    Article Title: Mitochondrial MICOS complex genes, implicated in hypoplastic left heart syndrome, maintain cardiac contractility and actomyosin integrity
    Article Snippet: .. To detect aneuploidy, array comparative genomic hybridization was performed using a custom 180 K oligonucleotide microarray (Agilent, Santa Clara, CA), with a genome- wide functional resolution of approximately 100 kilobases. ..

    Genome Wide:

    Article Title: Mitochondrial MICOS complex genes, implicated in hypoplastic left heart syndrome, maintain cardiac contractility and actomyosin integrity
    Article Snippet: .. To detect aneuploidy, array comparative genomic hybridization was performed using a custom 180 K oligonucleotide microarray (Agilent, Santa Clara, CA), with a genome- wide functional resolution of approximately 100 kilobases. ..

    Functional Assay:

    Article Title: Mitochondrial MICOS complex genes, implicated in hypoplastic left heart syndrome, maintain cardiac contractility and actomyosin integrity
    Article Snippet: .. To detect aneuploidy, array comparative genomic hybridization was performed using a custom 180 K oligonucleotide microarray (Agilent, Santa Clara, CA), with a genome- wide functional resolution of approximately 100 kilobases. ..

    Amplification:

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..

    Polymerase Chain Reaction:

    Article Title: Defining E3 ligase–substrate relationships through multiplex CRISPR screening
    Article Snippet: .. Nucleotide sequences encoding a series of 24-mer peptide tiles starting at 6-mer intervals across the 540 ORFs (a total of 33,566 sequences) were synthesized on an oligonucleotide microarray (Agilent), amplified by PCR, and cloned into a lentiviral GPS vector downstream of GFP by Gibson assembly. ..



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    Image Search Results


    The relative transcriptional level of 10 selected genes determined by DNA microarray and qRT-PCR analyses were log 2 transformed, and the values were plotted against each other to evaluate their correlation. The genes analysed by qRT-PCR are listed in .

    Journal: PLoS ONE

    Article Title: Two Spx Regulators Modulate Stress Tolerance and Virulence in Streptococcus suis Serotype 2

    doi: 10.1371/journal.pone.0108197

    Figure Lengend Snippet: The relative transcriptional level of 10 selected genes determined by DNA microarray and qRT-PCR analyses were log 2 transformed, and the values were plotted against each other to evaluate their correlation. The genes analysed by qRT-PCR are listed in .

    Article Snippet: DNA microarray analysis was performed using an Agilent custom-designed oligonucleotide microarray.

    Techniques: Microarray, Quantitative RT-PCR, Transformation Assay

    Expression ratios of genes involved in oxidative stress response and virulence in the mutant strains relative to the WT strain by  microarray  analysis <xref ref-type= a ." width="100%" height="100%">

    Journal: PLoS ONE

    Article Title: Two Spx Regulators Modulate Stress Tolerance and Virulence in Streptococcus suis Serotype 2

    doi: 10.1371/journal.pone.0108197

    Figure Lengend Snippet: Expression ratios of genes involved in oxidative stress response and virulence in the mutant strains relative to the WT strain by microarray analysis a .

    Article Snippet: DNA microarray analysis was performed using an Agilent custom-designed oligonucleotide microarray.

    Techniques: Expressing, Mutagenesis, Microarray

    Array findings from prenatal single nucleotide polymorphism microarray on amniocytes (estimated 60% mosaicism). Image courtesy of LabCorp (Burlington, North Carolina, United States).

    Journal: Journal of Pediatric Genetics

    Article Title: Mosaic Trisomy 16 Associated with Left Lung Agenesis, Abnormal Left Arm, and Right Pulmonary Artery Stenosis: Expanding the Phenotype and Review of the Literature

    doi: 10.1055/s-0040-1721136

    Figure Lengend Snippet: Array findings from prenatal single nucleotide polymorphism microarray on amniocytes (estimated 60% mosaicism). Image courtesy of LabCorp (Burlington, North Carolina, United States).

    Article Snippet: The CMA on foreskin was performed on a custom designed oligonucleotide microarray (GenomeDx v5).

    Techniques: Microarray

    Array findings from postnatal single nucleotide polymorphism microarray on foreskin tissue (estimated 25–40% mosaicism). Image courtesy of GeneDx (Gaithersburg, Maryland, United States).

    Journal: Journal of Pediatric Genetics

    Article Title: Mosaic Trisomy 16 Associated with Left Lung Agenesis, Abnormal Left Arm, and Right Pulmonary Artery Stenosis: Expanding the Phenotype and Review of the Literature

    doi: 10.1055/s-0040-1721136

    Figure Lengend Snippet: Array findings from postnatal single nucleotide polymorphism microarray on foreskin tissue (estimated 25–40% mosaicism). Image courtesy of GeneDx (Gaithersburg, Maryland, United States).

    Article Snippet: The CMA on foreskin was performed on a custom designed oligonucleotide microarray (GenomeDx v5).

    Techniques: Microarray

    The rectangular boxes represent the entire transcriptomes of C. elegans and P. pacificus genes assayed on our microarrays, and their area of overlap represents the set of 6,126 1∶1 orthologs present on microarrays of both the nematodes. The ovals represent the fraction of differentially expressed genes in each of the subsets. For the 1∶1 orthologs, we assessed the significance of overlap between the genes differentially expressed in response to a given pathogen using a 2×2 Fisher's exact test. Differences or similarities in survival characteristics of the two nematodes when exposed to the same bacteria are reflected in their respective transcriptional responses. (A) On B. thuringiensis DB27, which is highly lethal to C. elegans but not to P. pacificus , only 23 genes are common between the respective expression profiles of the two nematodes, this overlap being statistically not significant. (B) Similarly, S. aureus is more lethal to C. elegans than P. pacificus , and the overlap between the corresponding expression profiles is limited to just 6 orthologs. Although this overlap is statistically significant (p-value = 0.0002), the extent of overlap is too small to be biologically significant. (C) S. marcescens is lethal to both the nematodes and the extent and significance overlap between the orthologs differentially expressed in the corresponding expression profiles is also relatively high (443 common orthologs, p-value = 7.71E–37). (D) On the pathogen X. nematophila , the observed overlap between the expression profiles in the two nematodes is even higher, with 2,093 orthologs regulated in both nematodes (p-value = 6.92E–134).

    Journal: PLoS ONE

    Article Title: System Wide Analysis of the Evolution of Innate Immunity in the Nematode Model Species Caenorhabditis elegans and Pristionchus pacificus

    doi: 10.1371/journal.pone.0044255

    Figure Lengend Snippet: The rectangular boxes represent the entire transcriptomes of C. elegans and P. pacificus genes assayed on our microarrays, and their area of overlap represents the set of 6,126 1∶1 orthologs present on microarrays of both the nematodes. The ovals represent the fraction of differentially expressed genes in each of the subsets. For the 1∶1 orthologs, we assessed the significance of overlap between the genes differentially expressed in response to a given pathogen using a 2×2 Fisher's exact test. Differences or similarities in survival characteristics of the two nematodes when exposed to the same bacteria are reflected in their respective transcriptional responses. (A) On B. thuringiensis DB27, which is highly lethal to C. elegans but not to P. pacificus , only 23 genes are common between the respective expression profiles of the two nematodes, this overlap being statistically not significant. (B) Similarly, S. aureus is more lethal to C. elegans than P. pacificus , and the overlap between the corresponding expression profiles is limited to just 6 orthologs. Although this overlap is statistically significant (p-value = 0.0002), the extent of overlap is too small to be biologically significant. (C) S. marcescens is lethal to both the nematodes and the extent and significance overlap between the orthologs differentially expressed in the corresponding expression profiles is also relatively high (443 common orthologs, p-value = 7.71E–37). (D) On the pathogen X. nematophila , the observed overlap between the expression profiles in the two nematodes is even higher, with 2,093 orthologs regulated in both nematodes (p-value = 6.92E–134).

    Article Snippet: For P. pacificus experiments, we used our custom designed oligonucleotide microarrays manufactured by Agilent Technologies, which contain ∼93,000 unique probes for the ∼23,000 P. pacificus predicted genes (NCBI GEO accession GPL14372, see for design details of custom microarrays).

    Techniques: Expressing