PMID- 19074592
OWN - NLM
STAT- MEDLINE
DCOM- 20090505
LR  - 20211020
IS  - 1525-1578 (Print)
IS  - 1943-7811 (Electronic)
IS  - 1525-1578 (Linking)
VI  - 11
IP  - 1
DP  - 2009 Jan
TI  - Customized oligonucleotide array-based comparative genomic hybridization as a 
      clinical assay for genomic profiling of chronic lymphocytic leukemia.
PG  - 25-34
LID - S1525-1578(10)60205-X [pii]
LID - 10.2353/jmoldx.2009.080037 [doi]
AB  - Chromosome gains and losses used for risk stratification in chronic lymphocytic 
      leukemia (CLL) are commonly assessed by multiprobe fluorescence in situ 
      hybridization (FISH) studies. We designed and validated a customized 
      array-comparative genomic hybridization (aCGH) platform as a clinical assay for 
      CLL genomic profiling. A 60-mer, 44,000-probe oligonucleotide array with a 50-kb 
      average spatial resolution was augmented with high-density probe tiling at loci 
      that are frequently aberrant in CLL. Aberrations identified by aCGH were compared 
      with those identified by a FISH panel, including locus-specific probes to ATM 
      (11q22.3), the centromeric region of chromosome 12 (12p11.1-q11), D13S319 
      (13q14.3), LAMP1 (13q34), and TP53 (17p13.1). In 100 CLL samples, aCGH/FISH 
      concordance was seen for 89% of FISH-called aberrations at the ATM (n=18), 
      D13S319 (n=42), LAMP (n=12), and TP53 (n=22) loci and for chromosome 12 (n=14). 
      Eighty-four percentage of FISH/aCGH discordant calls were in samples either at or 
      below the limit of aCGH sensitivity (10% to 25% FISH aberration-containing 
      cells). Therefore, aCGH profiling is a feasible routine clinical test with 
      comparable results to multiprobe FISH studies; however, it may be less sensitive 
      than FISH in cases with low-level aberrations. Further, a customized array design 
      can provide comprehensive genomic profiling with additional accuracy in both 
      identifying and defining the extent of small aberrations at target loci.
FAU - Sargent, Rachel
AU  - Sargent R
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Jones, Dan
AU  - Jones D
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Abruzzo, Lynne V
AU  - Abruzzo LV
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Yao, Hui
AU  - Yao H
AD  - Division of Quantitative Sciences, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Bonderover, Jaime
AU  - Bonderover J
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Cisneros, Marissa
AU  - Cisneros M
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas.
FAU - Wierda, William G
AU  - Wierda WG
AD  - Department of Leukemia, The University of Texas M. D. Anderson Cancer Center, 
      Houston, Texas.
FAU - Keating, Michael J
AU  - Keating MJ
AD  - Department of Leukemia, The University of Texas M. D. Anderson Cancer Center, 
      Houston, Texas.
FAU - Luthra, Rajyalakshmi
AU  - Luthra R
AD  - Department of Hematopathology, The University of Texas M. D. Anderson Cancer 
      Center, Houston, Texas. Electronic address: rluthra@mdanderson.org.
LA  - eng
GR  - P30 CA016672/CA/NCI NIH HHS/United States
GR  - CA16672/CA/NCI NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
DEP - 20081212
PL  - United States
TA  - J Mol Diagn
JT  - The Journal of molecular diagnostics : JMD
JID - 100893612
SB  - IM
MH  - Chromosomes, Human, Pair 12/genetics
MH  - Comparative Genomic Hybridization/*methods
MH  - Gene Expression Profiling/methods
MH  - Genome, Human
MH  - Humans
MH  - Leukemia, Lymphocytic, Chronic, B-Cell/diagnosis/*genetics
MH  - Oligonucleotide Array Sequence Analysis/*methods
MH  - Sensitivity and Specificity
PMC - PMC2607562
EDAT- 2008/12/17 09:00
MHDA- 2009/05/06 09:00
PMCR- 2010/01/01
CRDT- 2008/12/17 09:00
PHST- 2008/12/17 09:00 [entrez]
PHST- 2008/12/17 09:00 [pubmed]
PHST- 2009/05/06 09:00 [medline]
PHST- 2010/01/01 00:00 [pmc-release]
AID - S1525-1578(10)60205-X [pii]
AID - JMDI60205 [pii]
AID - 10.2353/jmoldx.2009.080037 [doi]
PST - ppublish
SO  - J Mol Diagn. 2009 Jan;11(1):25-34. doi: 10.2353/jmoldx.2009.080037. Epub 2008 Dec 
      12.