PMID- 24347051
OWN - NLM
STAT- MEDLINE
DCOM- 20150226
LR  - 20211021
IS  - 1552-4930 (Electronic)
IS  - 1552-4922 (Print)
IS  - 1552-4922 (Linking)
VI  - 85
IP  - 4
DP  - 2014 Apr
TI  - Spatial quantitation of FISH signals in diploid versus aneuploid nuclei.
PG  - 339-52
LID - 10.1002/cyto.a.22426 [doi]
AB  - Fluorescence in situ hybridization (FISH) is the most widely used molecular 
      technique to visualize chromosomal abnormalities. Here, we describe a novel 3D 
      modeling approach to allow precise shape estimation and localization of FISH 
      signals in the nucleus of human embryonic stem cells (hES) undergoing progressive 
      but defined aneuploidy. The hES cell line WA09 acquires an extra copy of 
      chromosome 12 in culture with increasing passages. Both diploid and aneuploid 
      nuclei were analyzed to quantitate the differences in the localization of 
      centromeric FISH signals for chromosome 12 as it transitions from euploidy to 
      aneuploidy. We employed superquadric modeling primitives coupled with principal 
      component analysis to determine the 3D position of FISH signals within the 
      nucleus. A novel aspect of our modeling approach is that it allows comparison of 
      FISH signals across multiple cells by normalizing the position of the centromeric 
      signals relative to a reference landmark in oriented nuclei. Using this model we 
      present evidence of changes in the relative positioning of centromeres in 
      trisomy-12 cells when compared with diploid cells from the same population. Our 
      analysis also suggests a significant change in the spatial distribution of at 
      least one of the FISH signals in the aneuploid chromosome complements implicating 
      that an overall change in centromere position may occur in trisomy-12 due to the 
      addition of an extra chromosome. These studies underscore the unique utility of 
      our modeling algorithms in quantifying FISH signals in three dimensions.
CI  - (c) 2013 International Society for Advancement of Cytometry.
FAU - Shete, Amol
AU  - Shete A
AD  - Department of Computer Science, University of Houston, Houston, Texas.
FAU - Rao, Pulivarthi
AU  - Rao P
FAU - Pati, Debananda
AU  - Pati D
FAU - Merchant, Fatima
AU  - Merchant F
LA  - eng
GR  - R01 CA109330/CA/NCI NIH HHS/United States
GR  - R01 CA109478/CA/NCI NIH HHS/United States
GR  - 1R01 CA109330/CA/NCI NIH HHS/United States
GR  - 1R01 CA109478/CA/NCI NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
PT  - Research Support, Non-U.S. Gov't
DEP - 20131217
PL  - United States
TA  - Cytometry A
JT  - Cytometry. Part A : the journal of the International Society for Analytical 
      Cytology
JID - 101235694
SB  - IM
MH  - *Algorithms
MH  - Aneuploidy
MH  - Cell Line
MH  - Cell Nucleus/*genetics
MH  - Diploidy
MH  - Embryonic Stem Cells
MH  - Humans
MH  - Image Processing, Computer-Assisted/*methods
MH  - *Imaging, Three-Dimensional
MH  - In Situ Hybridization, Fluorescence/*methods
MH  - Models, Theoretical
MH  - Principal Component Analysis
PMC - PMC3972278
MID - NIHMS553325
OTO - NOTNLM
OT  - 3D modeling
OT  - FISH
OT  - aneuploidy
OT  - centromere position
OT  - hES cells
OT  - spatial quantitation of centromere position
OT  - superquadric primitives
OT  - trisomy-12
EDAT- 2013/12/19 06:00
MHDA- 2015/02/27 06:00
PMCR- 2015/04/01
CRDT- 2013/12/19 06:00
PHST- 2013/03/06 00:00 [received]
PHST- 2013/09/27 00:00 [revised]
PHST- 2013/11/21 00:00 [accepted]
PHST- 2013/12/19 06:00 [entrez]
PHST- 2013/12/19 06:00 [pubmed]
PHST- 2015/02/27 06:00 [medline]
PHST- 2015/04/01 00:00 [pmc-release]
AID - 10.1002/cyto.a.22426 [doi]
PST - ppublish
SO  - Cytometry A. 2014 Apr;85(4):339-52. doi: 10.1002/cyto.a.22426. Epub 2013 Dec 17.