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chromosome-7 bac tile-path array  (Agilent technologies)


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    Agilent technologies chromosome-7 bac tile-path array
    CGH using the <t>chromosome</t> <t>7</t> (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).
    Chromosome 7 Bac Tile Path Array, 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/bac+array/pmc03441634-109-11-19
    Average 90 stars, based on 1 article reviews
    chromosome-7 bac tile-path array - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "An Integrated Genomic and Expression Analysis of 7q Deletion in Splenic Marginal Zone Lymphoma"

    Article Title: An Integrated Genomic and Expression Analysis of 7q Deletion in Splenic Marginal Zone Lymphoma

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0044997

    CGH using the chromosome 7 (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).
    Figure Legend Snippet: CGH using the chromosome 7 (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).

    Techniques Used: Expressing, Standard Deviation

    Related Articles

    Fluorescence In Situ Hybridization:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    Amplification:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    Immunohistochemistry:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    Polymer:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    Membrane:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    Staining:

    Article Title: MET tyrosine kinase receptor expression and amplification as prognostic biomarkers of survival in gastroesophageal adenocarcinoma
    Article Snippet: .. A dual‐color MET FISH assay was conducted with the MET IQFISH probe with centromere enumeration probe for chromosome 7 ( CEP7 ; Agilent Technologies, Santa Clara, Calif) and a histology FISH accessory kit (Dako North America, Carpinteria, Calif); scoring was performed as previously described., , An average MET gene copy number (GCN) ≥ 5, a MET / CEP7 ratio ≥ 2, and ≥10% of counted tumor nuclei with ≥15 gene copies were the 3 amplification scoring criteria considered positive, and each assessed independently., Met IHC was performed with a horseradish peroxidase–labeled, dextrose‐based polymer complex bound to a secondary antibody (Dako North America) as previously described., The intensity of cell membrane staining, scored by an experienced pathologist (0, none; 1, low; 2, intermediate; or 3, high), along with the percentage of tumor cells (extensity) for each sample was documented., The membrane max intensity parameter of a given tumor was obtained from the highest IHC score that had a nonzero percentage of staining. ..

    other:

    Article Title: An Integrated Genomic and Expression Analysis of 7q Deletion in Splenic Marginal Zone Lymphoma
    Article Snippet: summarised the 7q deletion in SMZL detected by CGH using a chromosome-7 BAC tile-path array (17 cases) and the Agilent aCGH 244A array CGH (10 cases) from our previous studies , .



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    CGH using the <t>chromosome</t> <t>7</t> (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).
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    Image Search Results


    CGH using the chromosome 7 (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).

    Journal: PLoS ONE

    Article Title: An Integrated Genomic and Expression Analysis of 7q Deletion in Splenic Marginal Zone Lymphoma

    doi: 10.1371/journal.pone.0044997

    Figure Lengend Snippet: CGH using the chromosome 7 (Ch7) BAC tile-path array, Agilent 244A oligonucleotide array platform and chromosome 7 gene resolution oligonucleotide array maps the MDR to a 2.8 Mb region at 7q32 (Panel A). As shown by Affymetrix gene expression analyses, the genes on 7q, particularly those within the MDR are significantly under-expressed in SMZL with 7q deletion than those without the deletion. Panel B shows the genes significantly differentially expressed between SMZL with and without 7q deletion according to P values, while Panel C displays those with further fold change more than 1.25×SD (standard deviation).

    Article Snippet: summarised the 7q deletion in SMZL detected by CGH using a chromosome-7 BAC tile-path array (17 cases) and the Agilent aCGH 244A array CGH (10 cases) from our previous studies , .

    Techniques: Expressing, Standard Deviation

    Clinical cycle of comprehensive preimplantation genetic testing. The process starts with family genetic testing in order to establish normal and disease-associated family haplotypes. Next, oocyte stimulation, retrieval, and fertilization are performed. Embryos surviving until day 5 undergo laser-assisted hatching and biopsy. Biopsy material consisting of a few trophectoderm cells is amplified using one of the WGA techniques. WGA material is further used to assess the embryonic genome, including haplotype, causative variant, aneuploidy, and CNV analyses. The disease-free embryo is subjected to embryo transfer to the uterine cavity. The whole cycle can be repeated within 24 h, with a day-6 embryo being transferred. If the genetic testing takes longer, then embryos are vitrified and thawed before being transferred. PGT—preimplantation genetic testing, WGA—whole-genome amplification, IVF—in vitro fertilization, MPS—massively parallel sequencing, CNV—copy number variation.

    Journal: International Journal of Molecular Sciences

    Article Title: Whole Genome Amplification in Preimplantation Genetic Testing in the Era of Massively Parallel Sequencing

    doi: 10.3390/ijms23094819

    Figure Lengend Snippet: Clinical cycle of comprehensive preimplantation genetic testing. The process starts with family genetic testing in order to establish normal and disease-associated family haplotypes. Next, oocyte stimulation, retrieval, and fertilization are performed. Embryos surviving until day 5 undergo laser-assisted hatching and biopsy. Biopsy material consisting of a few trophectoderm cells is amplified using one of the WGA techniques. WGA material is further used to assess the embryonic genome, including haplotype, causative variant, aneuploidy, and CNV analyses. The disease-free embryo is subjected to embryo transfer to the uterine cavity. The whole cycle can be repeated within 24 h, with a day-6 embryo being transferred. If the genetic testing takes longer, then embryos are vitrified and thawed before being transferred. PGT—preimplantation genetic testing, WGA—whole-genome amplification, IVF—in vitro fertilization, MPS—massively parallel sequencing, CNV—copy number variation.

    Article Snippet: PGT performed on trophectoderm biopsies using PicoPLEX in combination with BlueGnome’s BAC arrays (later Illumina, now discontinued) and subsequently MPS began a major revolution in the availability of human PGT and forever changed the face of clinical in vitro fertilization [ , , ].

    Techniques: Amplification, Variant Assay, Whole Genome Amplification, In Vitro, Sequencing