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High Resolution Analysis (high + resolution_analysis)

Distribution by Scientific Domains

Medical Sciences	50%

Selected Abstracts

High resolution analysis of follicular lymphoma genomes reveals somatic recurrent sites of copy-neutral loss of heterozygosity and copy number alterations that target single genes,

GENES, CHROMOSOMES AND CANCER, Issue 8 2010
K-John J. Cheung
A multiplatform approach, including conventional cytogenetic techniques, BAC array comparative genomic hybridization, and Affymetrix 500K SNP arrays, was applied to the study of the tumor genomes of 25 follicular lymphoma biopsy samples with paired normal DNA samples to characterize balanced translocations, copy number imbalances, and copy-neutral loss of heterozygosity (cnLOH). In addition to the t(14;18), eight unique balanced translocations were found. Commonly reported FL-associated copy number regions were revealed including losses of 1p32-36, 6q, and 10q, and gains of 1q, 6p, 7, 12, 18, and X. The most frequent regions affected by copy-neutral loss of heterozygosity were 1p36.33 (28%), 6p21.3 (20%), 12q21.2-q24.33 (16%), and 16p13.3 (24%). We also identified by SNP analysis, 45 aberrant regions that each affected one gene, including CDKN2A, CDKN2B, FHIT, KIT, PEX14, and PTPRD, which were associated with canonical pathways involved in tumor development. This study illustrates the power of using complementary high-resolution platforms on paired tumor/normal specimens and computational analysis to provide potential insights into the significance of single-gene somatic aberrations in FL tumorigenesis. © 2010 Wiley-Liss,Inc. [source]

High resolution analysis of non-small cell lung cancer cell lines by whole genome tiling path array CGH

INTERNATIONAL JOURNAL OF CANCER, Issue 6 2006
Cathie Garnis
Abstract Chromosomal regions harboring tumor suppressors and oncogenes are often deleted or amplified. Array comparative genomic hybridization detects segmental DNA copy number alterations in tumor DNA relative to a normal control. The recent development of a bacterial artificial chromosome array, which spans the human genome in a tiling path manner with >32,000 clones, has facilitated whole genome profiling at an unprecedented resolution. Using this technology, we comprehensively describe and compare the genomes of 28 commonly used non-small cell lung carcinoma (NSCLC) cell models, derived from 18 adenocarcinomas (AC), 9 squamous cell carcinomas and 1 large cell carcinoma. Analysis at such resolution not only provided a detailed genomic alteration template for each of these model cell lines, but revealed novel regions of frequent duplication and deletion. Significantly, a detailed analysis of chromosome 7 identified 6 distinct regions of alterations across this chromosome, implicating the presence of multiple novel oncogene loci on this chromosome. As well, a comparison between the squamous and AC cells revealed alterations common to both subtypes, such as the loss of 3p and gain of 5p, in addition to multiple hotspots more frequently associated with only 1 subtype. Interestingly, chromosome 3q, which is known to be amplified in both subtypes, showed 2 distinct regions of alteration, 1 frequently altered in squamous and 1 more frequently altered in AC. In summary, our data demonstrate the unique information generated by high resolution analysis of NSCLC genomes and uncover the presence of genetic alterations prevalent in the different NSCLC subtypes. © 2005 Wiley-Liss, Inc. [source]

High resolution analysis of mating systems: inbreeding in natural populations of Pinus radiata

JOURNAL OF EVOLUTIONARY BIOLOGY, Issue 3 2002
C. Vogl
Pinus radiata has a history of population bottlenecks and is currently restricted to five relatively small populations, three in mainland California, and two on islands off the coast of Baja California. Using highly polymorphic microsatellite markers and a newly developed statistical approach, we were able to estimate individual inbreeding coefficients and can thus analyse the mating system with high resolution. We find a bimodal distribution of inbreeding coefficients: most individuals result from selfing whereas few (in the mainland populations) to a modest number (in the island populations) are likely selfed. In most other pine species and presumably in the ancestral P. radiata population, occurrence of mature selfed individuals would be impossible because of the high genetic load. We therefore conclude that inbreeding depression has been purged in P. radiata and that the mating system has changed as a consequence. [source]

Climatological radar delineation of urban convection for Atlanta, Georgia

INTERNATIONAL JOURNAL OF CLIMATOLOGY, Issue 11 2010
Mace L. Bentley
Abstract The distribution of warm season (June through August) thunderstorm activity surrounding Atlanta, Georgia from 1997 to 2006 was determined utilizing composite reflectivity data obtained from the network of National Weather Service radars. The radar data, at 2 km and 5 min spatial and temporal resolutions, allows for high resolution analyses of urban convective trends when grid averaged over a 10-year period. Maxima of medium- to high-reflectivity episodes were identified to the north of and within downtown Atlanta and immediately east of the primary urban expansion of the central business district (CBD). Additional enhanced, high-reflectivity areas are found in southern Fulton and Clayton counties, located south of downtown Atlanta. These regions are also collocated with high-density urban expansion south of the Atlanta CBD. The research presented is the most comprehensive spatial and temporal analysis of grid averaged composite reflectivity data for urban convection conducted to date. Copyright © 2009 Royal Meteorological Society [source]

High resolution analysis of non-small cell lung cancer cell lines by whole genome tiling path array CGH

Application of comprehensive multidimensional gas chromatography combined with time-of-flight mass spectrometry (GC×GC-TOFMS) for high resolution analysis of hop essential oil

JOURNAL OF SEPARATION SCIENCE, JSS, Issue 5-6 2004
Mark T. Roberts
Abstract The selection and quality of hops is a major determinant in beer flavour. Brewers acknowledge that distinctive characteristics of different hop varieties can be traced to the composition of their essential oils. The difficulty in characterising complex mixtures such as hop oil using 1-D chromatography is that many compounds co-elute. With the introduction of comprehensive multidimensional capillary gas chromatography (GC×GC), there is a tremendous improvement in the separation power or peak capacity. Recent work using GC×GC with flame ionisation detection has suggested that there may be over 1,000 compounds in hop oil. This work describes the use of GC×GC combined with TOFMS detection (Leco Pegasus 4D instrument) to analyse Target hop oil. The TOFMS spectral acquisition rate of 60 Hz provided sufficient spectra per peak (2-D peak base width of 0.1,0.2 s) for identification (119 components were identified with 45 previously unreported compounds). When analysing results, an advantage of GC×GC coupled to TOFMS is that 2-D chromatograms can be viewed for individual masses that are characteristic of particular functional groups. This allows the analyst to view the various homologous series of compounds although in certain cases coelution may still be present as shown by the esters with mass 75. [source]