PMID- 16869738
OWN - NLM
STAT- MEDLINE
DCOM- 20060908
LR  - 20071114
IS  - 0091-7451 (Print)
IS  - 0091-7451 (Linking)
VI  - 70
DP  - 2005
TI  - High-resolution ROMA CGH and FISH analysis of aneuploid and diploid breast 
      tumors.
PG  - 51-63
AB  - Combining representational oligonucleotide microarray analysis (ROMA) of tumor 
      DNA with fluorescence in situ hybridization (FISH) of individual tumor cells 
      provides the opportunity to detect and validate a wide range of amplifications, 
      deletions, and rearrangements directly in frozen tumor samples. We have used 
      these combined techniques to examine 101 aneuploid and diploid breast tumors for 
      which long-term follow-up and detailed clinical information were available. We 
      have determined that ROMA provides accurate and sensitive detection of 
      duplications, amplifications, and deletions and yields defined boundaries for 
      these events with a resolution of <50 kbp in most cases. We find that diploid 
      tumors exhibit fewer rearrangements on average than aneuploids, but 
      rearrangements occur at the same locations in both types. Diploid tumors reflect 
      at least three consistent patterns of rearrangement. The reproducibility and 
      frequency of these events, especially in very early stage tumors, provide insight 
      into the earliest chromosomal events in breast cancer. We have also identified 
      correlations between certain sets of rearrangement events and clinically relevant 
      parameters such as long-term survival. These correlations may enable novel 
      prognostic indicators for breast and other cancers as more samples are analyzed.
FAU - Hicks, J
AU  - Hicks J
AD  - Cold Spring Harbor Laboratory, Watson School of Biological Sciences, New York 
      11724, USA.
FAU - Muthuswamy, L
AU  - Muthuswamy L
FAU - Krasnitz, A
AU  - Krasnitz A
FAU - Navin, N
AU  - Navin N
FAU - Riggs, M
AU  - Riggs M
FAU - Grubor, V
AU  - Grubor V
FAU - Esposito, D
AU  - Esposito D
FAU - Alexander, J
AU  - Alexander J
FAU - Troge, J
AU  - Troge J
FAU - Wigler, M
AU  - Wigler M
FAU - Maner, S
AU  - Maner S
FAU - Lundin, P
AU  - Lundin P
FAU - Zetterberg, A
AU  - Zetterberg A
LA  - eng
GR  - 5R01-CA78544-07/CA/NCI NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
PL  - United States
TA  - Cold Spring Harb Symp Quant Biol
JT  - Cold Spring Harbor symposia on quantitative biology
JID - 1256107
RN  - 0 (DNA, Neoplasm)
SB  - IM
MH  - Aneuploidy
MH  - Breast Neoplasms/*genetics/pathology
MH  - DNA, Neoplasm/genetics
MH  - Diploidy
MH  - Female
MH  - Gene Expression Profiling
MH  - Gene Rearrangement
MH  - Genomics
MH  - Humans
MH  - In Situ Hybridization, Fluorescence
MH  - Oligonucleotide Array Sequence Analysis
MH  - Prognosis
EDAT- 2006/07/28 09:00
MHDA- 2006/09/09 09:00
CRDT- 2006/07/28 09:00
PHST- 2006/07/28 09:00 [pubmed]
PHST- 2006/09/09 09:00 [medline]
PHST- 2006/07/28 09:00 [entrez]
AID - 10.1101/sqb.2005.70.055 [doi]
PST - ppublish
SO  - Cold Spring Harb Symp Quant Biol. 2005;70:51-63. doi: 10.1101/sqb.2005.70.055.