DOE Patents title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17

Abstract

Methods and compositions for staining based upon nucleic acid sequence that employ nucleic acid probes are provided. Said methods produce staining patterns that can be tailored for specific cytogenetic analyses. Said probes are appropriate for in situ hybridization and stain both interphase and metaphase chromosomal material with reliable signals. The nucleic acid probes are typically of a complexity greater than 50 kb, the complexity depending upon the cytogenetic application. Methods and reagents are provided for the detection of genetic rearrangements. Probes and test kits are provided for use in detecting genetic rearrangements, particularly for use in tumor cytogenetics, in the detection of disease related loci, specifically cancer, such as chronic myelogenous leukemia (CML), retinoblastoma, ovarian and uterine cancers, and for biological dosimetry. Methods and reagents are described for cytogenetic research, for the differentiation of cytogenetically similar but genetically different diseases, and for many prognostic and diagnostic applications.

Inventors:
; ; ; ;
Issue Date:
Research Org.:
Univ. of California, Oakland, CA (United States); Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1176710
Patent Number(s):
RE40494
Application Number:
11/398,456
Assignee:
The Regents of the University of California (Oakland, CA)
DOE Contract Number:  
W-7405-ENG48
Resource Type:
Patent
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES

Citation Formats

Gray, Joe W., Pinkel, Daniel, Kallioniemi, Olli-Pekka, Kallioniemi, Anne, and Sakamoto, Masaru. Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17. United States: N. p., 2008. Web.
Gray, Joe W., Pinkel, Daniel, Kallioniemi, Olli-Pekka, Kallioniemi, Anne, & Sakamoto, Masaru. Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17. United States.
Gray, Joe W., Pinkel, Daniel, Kallioniemi, Olli-Pekka, Kallioniemi, Anne, and Sakamoto, Masaru. Tue . "Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17". United States. https://www.osti.gov/servlets/purl/1176710.
@article{osti_1176710,
title = {Chromosome-specific staining to detect genetic rearrangements associated with chromosome 3 and/or chromosome 17},
author = {Gray, Joe W. and Pinkel, Daniel and Kallioniemi, Olli-Pekka and Kallioniemi, Anne and Sakamoto, Masaru},
abstractNote = {Methods and compositions for staining based upon nucleic acid sequence that employ nucleic acid probes are provided. Said methods produce staining patterns that can be tailored for specific cytogenetic analyses. Said probes are appropriate for in situ hybridization and stain both interphase and metaphase chromosomal material with reliable signals. The nucleic acid probes are typically of a complexity greater than 50 kb, the complexity depending upon the cytogenetic application. Methods and reagents are provided for the detection of genetic rearrangements. Probes and test kits are provided for use in detecting genetic rearrangements, particularly for use in tumor cytogenetics, in the detection of disease related loci, specifically cancer, such as chronic myelogenous leukemia (CML), retinoblastoma, ovarian and uterine cancers, and for biological dosimetry. Methods and reagents are described for cytogenetic research, for the differentiation of cytogenetically similar but genetically different diseases, and for many prognostic and diagnostic applications.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2008},
month = {9}
}

Works referenced in this record:

On the heterogeneity of the slow reassociating (?unique?) DNA
journal, June 1978


Heterogeneity of chromosome 22 breakpoint in Philadelphia-positive (Ph+) acute lymphocytic leukemia.
journal, March 1986


Cytogenetic profiling using fluorescencein situ hybridization (FISH) and comparative genomic hybridization (CGH)
journal, January 1993


Detection of the Philadelphia chromosome in interphase nuclei
journal, January 1990


Kinetics for Hybridization of Peptide Nucleic Acids (PNA) with DNA and RNA Studied with the BIAcore Technique
journal, April 1997


A direct estimate of the number of human γ-globin genes
journal, May 1976


Four restriction fragment length polymorphisms revealed by probes from a single cosmid map to human chromosome 12q
journal, January 1986


Autoradiographic Detection of Molecular Hybrids between rRNA and DNA in Tissue Sections
journal, March 1970


Detection of bcr-abl fusion in chronic myelogeneous leukemia by in situ hybridization
journal, October 1990


Quantitative in situ hybridization of ribosomal RNA species to polytene chromosomes of Drosophila melanogaster
journal, September 1977


Translocation of c-abl oncogene correlates with the presence of a Philadelphia chromosome in chronic myelocytic leukaemia
journal, November 1983


ERBB2 amplification in breast cancer analyzed by fluorescence in situ hybridization.
journal, June 1992


A Limited Number of Globin Genes in Human DNA
journal, October 1974


Translocation of c-myc in the hereditary renal cell carcinoma associated with a t(3;8)(p14.2;q24.13) chromosomal translocation.
journal, October 1985


Interphase cytogenetics in pathology: principles, methods, and applications of fluorescence in situ hybridization (FISH)
journal, October 1997


Localization of single copy DNA sequences on G-banded human chromosomes by in situ hybridization
journal, July 1981


Fine mapping of the Huntington disease linked D4S10 locus by non-radioactive in situ hybridization
journal, August 1986


Cytogenetic analysis using quantitative, high-sensitivity, fluorescence hybridization.
journal, May 1986


Organization and heterogeneity of sequences within a repeating unit of human Y chromosome deoxyribonucleic acid
journal, July 1979


Use of whole cosmid cloned genomic sequences for chromosomal localization by non-radioactive in situ hybridization
journal, December 1987


A highly polymorphic locus on chromosome 16q revealed by a probe from a chromosome-specific cosmid library
journal, December 1986


Detection of chromosome aberrations in interphase tumor nuclei by nonradioactive in situ hybridization
journal, October 1989


Split-signal FISH for detection of chromosome aberrations in acute lymphoblastic leukemia
journal, March 2004


Human chromosome-specific repetitive DNA sequences: novel markers for genetic analysis
journal, October 1987


Chemically modified nucleic acids as immunodetectable probes in hybridization experiments.
journal, June 1984


Efficient transfer of large DNA fragments from agarose gels to diazobenzyloxymethyl-paper and rapid hybridization by using dextran sulfate.
journal, August 1979


Formation and Detection of Rna-Dna Hybrid Molecules in Cytological Preparations
journal, June 1969


Hemolytic disease of the newborn caused by a new deletion of the entire beta-globin cluster.
journal, August 1983


PNA hybridizes to complementary oligonucleotides obeying the Watson–Crick hydrogen-bonding rules
journal, October 1993


Acceleration of DNA renaturation rates
journal, December 1975


Partial trisomy of the long arm of human chromosome 1 as demonstrated by in situ hybridization with 5S ribosomal RNA
journal, January 1977


Sequence-selective recognition of DNA by strand displacement with a thymine-substituted polyamide
journal, December 1991


Construction of fifteen human chromosome-specific DNA libraries from flow-purified chromosomes
journal, January 1986


Differential distribution of long and short interspersed element sequences in the mouse genome: chromosome karyotyping by fluorescence in situ hybridization.
journal, October 1990


A procedure for the isolation of deoxyribonucleic acid from micro-organisms
journal, April 1961


Hybridization histochemistry
journal, August 1985


The DNA sequence of human chromosome 21
journal, May 2000


Fluorescence in situ hybridization with Alu and L1 polymerase chain reaction probes for rapid characterization of human chromosomes in hybrid cell lines.
journal, September 1990


Genomic mismatch scanning: a new approach to genetic linkage mapping
journal, May 1993


Hereditary spherocytosis associated with deletion of human erythrocyte ankyrin gene on chromosome 8
journal, June 1990


General method for cloning amplified DNA by differential screening with genomic probes.
journal, May 1982


Detection of aneuploidy and possible deletion in paraffin-embedded rhabdomyosarcoma cells with FISH
journal, July 1993


Two homoeo box loci mapped in evolutionarily related mouse and human chromosomes
journal, March 1985


Fluorescence in situ hybridization with human chromosome-specific libraries: detection of trisomy 21 and translocations of chromosome 4.
journal, December 1988


Rapid detection of human chromosome 21 aberrations by in situ hybridization.
journal, December 1988


In situ hybridization and translocation breakpoint mapping
journal, January 1985


Optimizing comparative genomic hybridization for analysis of DNA sequence copy number changes in solid tumors
journal, August 1994


One FISH, two FISH, red FISH, blue FISH
journal, April 1996


Analysis of a dispersed repetitive DNA sequence in isogenic lines of Drosophila
journal, May 1981


Denaturation, renaturation, and loss of DNA during in situ hybridization procedures
journal, May 1986


Removal of repeated sequences from hybridisation probes
journal, January 1985


Improved technique for analysis of formalin-fixed, paraffin-embedded tumors by fluorescence in situ hybridization
journal, June 1994


Characterization of chromosomal anomalies in human breast cancer
journal, October 1990


Bi-color detection of two target DNAs by non-radioactive in situ hybridization
journal, January 1986


Fluorescence In Situ Hybridization in Cancer and Radiation Biology
journal, March 1994


New BAGE (B melanoma antigen) genes mapping to the juxtacentromeric regions of human chromosomes 13 and 21 have a cancer/testis expression profile
journal, December 2002


Translocation of the p53 gene in t(15;17) in acute promyelocytic leukaemia
journal, August 1985


The isolation and characterization of linked δ- and β-globin genes from a cloned library of human DNA
journal, December 1978


Fish technology in chromosome and genome research
journal, January 1997


Feasibility of in situ hybridisation with chromosome specific DNA probes on paraffin wax embedded tissue.
journal, November 1991


Proto-oncogene amplification and homogeneously staining regions in human breast carcinomas
journal, May 1990


Use of DNA and Peptide Nucleic Acid Molecular Beacons for Detection and Quantification of rRNA in Solution and in Whole Cells
journal, September 2003


Localization of sequences specifying messenger RNA to light-staining G-bands of human chromosomes
journal, January 1977


Electron microscopic visualization of tRNA genes with ferritin-avidin: biotin labels
journal, January 1978


Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors
journal, October 1992


Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors
journal, October 1992


Simultaneous visualization of seven different DNA probes by in situ hybridization using combinatorial fluorescence and digital imaging microscopy.
journal, February 1992


An extra segment in chromosome 1 of wild Mus musculus: a C-band positive homogeneously staining region
journal, January 1984


Localization of a unique gene by direct hybridization in situ.
journal, June 1981


Quantitation of in situ hybridization of ribosomal ribonucleic acids to human diploid cells
journal, October 1980


Organization and chromosomal specificity of autosomal homologs of human Y chromosome repeated DNA
journal, January 1985


A polymorphic locus on the long arm of chromosome 20 defined by two probes from a single cosmid
journal, August 1986


Cytogenetic Analysis by In Situ Hybridization with Fluorescently Labeled Nucleic Acid Probes
journal, January 1986


2-Acetylaminofluorene-modified probes for the indirect hybridocytochemical detection of specific nucleic acid sequences
journal, July 1984


A highly polymorphic locus in human DNA revealed by cosmid-derived probes.
journal, September 1985


Biotin and fluorescent labeling of RNA using T4 RNA ligase
journal, January 1983


In Situ Detection of Supernumerary Aberrations of Chromosome-Specific Repetitive DNA Targets in Interphase Nuclei in Human Melanoma Cell Lines and Tissue Sections
journal, April 1992


Construction and characterization of genomic libraries from specific human chromosomes.
journal, May 1982


Cytogenetic and molecular analysis in Philadelphia negative CML
journal, March 1989