WO2011140187A3 - Detecting chromosomal rearrangement - Google Patents

Detecting chromosomal rearrangement Download PDF

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Publication number
WO2011140187A3
WO2011140187A3 PCT/US2011/035135 US2011035135W WO2011140187A3 WO 2011140187 A3 WO2011140187 A3 WO 2011140187A3 US 2011035135 W US2011035135 W US 2011035135W WO 2011140187 A3 WO2011140187 A3 WO 2011140187A3
Authority
WO
WIPO (PCT)
Prior art keywords
chromosomal rearrangement
subject
nucleic acid
acid sequences
labeled nucleic
Prior art date
Application number
PCT/US2011/035135
Other languages
French (fr)
Other versions
WO2011140187A2 (en
Inventor
Richard Burack
Janice Spence
Original Assignee
University Of Rochester
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by University Of Rochester filed Critical University Of Rochester
Publication of WO2011140187A2 publication Critical patent/WO2011140187A2/en
Publication of WO2011140187A3 publication Critical patent/WO2011140187A3/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/16—Primer sets for multiplex assays

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Engineering & Computer Science (AREA)
  • Immunology (AREA)
  • Pathology (AREA)
  • Analytical Chemistry (AREA)
  • Zoology (AREA)
  • Genetics & Genomics (AREA)
  • Wood Science & Technology (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Hospice & Palliative Care (AREA)
  • Biophysics (AREA)
  • Oncology (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Provided herein are methods of detecting a chromosomal rearrangement in a subject. The methods comprise isolating deoxyribonucleic acid (DNA) comprising a target DNA sequence from a biological sample from the subject; performing a multiplex PCR assay comprising at least five primer pairs to the targeted DNA sequence, wherein the multiplex PCR assay produces a plurality of labeled nucleic acid sequences; contacting an array with the plurality of labeled nucleic acid sequences; and detecting a binding pattern of the labeled nucleic acid sequences to the array. The binding pattern indicates the presence or absence of a chromosomal rearrangement in the subject.
PCT/US2011/035135 2010-05-04 2011-05-04 Detecting chromosomal rearrangement WO2011140187A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US33112410P 2010-05-04 2010-05-04
US61/331,124 2010-05-04

Publications (2)

Publication Number Publication Date
WO2011140187A2 WO2011140187A2 (en) 2011-11-10
WO2011140187A3 true WO2011140187A3 (en) 2012-03-01

Family

ID=44904448

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2011/035135 WO2011140187A2 (en) 2010-05-04 2011-05-04 Detecting chromosomal rearrangement

Country Status (1)

Country Link
WO (1) WO2011140187A2 (en)

Families Citing this family (10)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9084456B1 (en) * 2012-05-28 2015-07-21 Jack Zemer Linkage for jewelry components
US20150176077A1 (en) * 2012-07-27 2015-06-25 Inserm (Institut National De La Sante Et De La Recherche Medicale) Methods for predicting whether a subject is at risk of developing a follicular lymphoma
WO2014137329A1 (en) * 2013-03-05 2014-09-12 Agilent Technologies, Inc. Synthesis of pools of probes by primer extension
WO2015075196A1 (en) * 2013-11-21 2015-05-28 Assistance Publique - Hopitaux De Paris Method for detecting chromosomal rearrangements
CN105063032A (en) * 2015-08-14 2015-11-18 深圳市瀚海基因生物科技有限公司 Multiple PCR primers and method for constructing leukemia minimal residual disease BCR library based on high-flux sequencing
CN105483256A (en) * 2015-12-30 2016-04-13 广州安必平医药科技股份有限公司 BCR gene and ABL gene detection probe, preparation method thereof and reagent kit
CN107022602A (en) * 2016-02-02 2017-08-08 生物梅里埃公司 A kind of method of detection ALK genetic recombination
GB201709675D0 (en) 2017-06-16 2017-08-02 Inivata Ltd Method for detecting genomic rearrangements
CN108048571A (en) * 2017-12-29 2018-05-18 天津协和华美医学诊断技术有限公司 A kind of detection kit for detecting CML related gene groups
EP3833783A1 (en) 2018-08-08 2021-06-16 Inivata Ltd. Method of sequencing using variable replicate multiplex pcr

Non-Patent Citations (6)

* Cited by examiner, † Cited by third party
Title
DE LELLIS, L. ET AL.: "Analysis of extended genomic rearrangements in oncological research.", ANNALS OF ONCOLOGY, vol. 18, no. 6, June 2007 (2007-06-01), pages VI173 - 178 *
GORELLO, P. ET AL.: "Combined interphase fluorescence in situ hybridization elucidates the genetic heterogeneity of T-cell acute lymphoblastic leukemia in adults.", HEMATOLOGICA, vol. 95, no. 1, January 2010 (2010-01-01), pages 79 - 86 *
MITYAEVA, O.N. ET AL: "Analysis of chromosomal translocation involving MML by hybridization with an oligonucleotide microarray", MOLECULAR BIOLOGY, vol. 38, no. 3, May 2004 (2004-05-01) - June 2004 (2004-06-01), pages 376 - 382 *
NASEDKINA, R. V. ET AL.: "Clinical screening of gene rearrangements in childhood leukemia by using a multiplex polymerase chain reaction-microarray approach.", CLINICAL CANCER RESEARCH, vol. 9, 3 December 2003 (2003-12-03), pages 5620 - 5629, XP002458852 *
RAILE, K. ET AL.: "HNF1 abnormality (mature-onset diabetes of the young 5) in children and adolescents.", DIABETES CARE, vol. 31, no. 11, November 2008 (2008-11-01), pages E83 *
SPENCE, J. M. ET AL.: "Demonstration of array-based analysis for highly multiplexed PCR assays application to detection of IGH@-BCL2 translocations in FFPE follicular lymphoma specimens.", JOURNAL OF MOLECULAR DIAGNOSITICS, vol. 13, no. 3, 22 April 2011 (2011-04-22), pages 252 - 262 *

Also Published As

Publication number Publication date
WO2011140187A2 (en) 2011-11-10

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