全基因组的比较基因组杂交技术介绍（Whole-Genome and Custom Fine-Tiling Array CGH）

Whole-Genome and Custom Fine-Tiling Array CGHComparative Genomic Hybridization (CGH) measures DNA copy number differences between a reference genome and your sample genome. NimbleGen offers two high-definition array CGH products: whole-genome array CGH and fine-tiling array CGH. Whole-genome CGH measures copy number differences in DNA across entire genomes, while fine-tiling CGH determines breakpoints at ultrahigh resolution in DNA targets located in any subset of DNA (either a contiguous region or many different regions of interest).

Key features of NimbleGen’s microarrays - ultra-high density and long oligo probes - yield a powerful, high-definition CGH platform for whole genome analysis. With the flexibility of NimbleGen array synthesis, chromosomal aberrations identified in whole-genome surveys can be readily examined at even higher resolution with custom fine-tiling array CGH. Such studies can map genomic changes down to the gene and even exon level and enable breakpoint mapping to less than 500 bp intervals. NimbleGen’s array CGH detects both single and multiple copy changes.

Advantages of NimbleGen Array CGHHighest Resolution Array CGHNimbleGen's high capacity microarrays contain 385,000 probes on a single glass slide. This feature density enables design of a human whole genome CGH array with probes tiled through genic and intergenic regions at a median probe spacing of 6,000 bp. This tiling path array design approach ensures you get the complete picture on genome-wide copy number changes. Ultra-high resolution detection of small deletions and amplifications, as well as breakpoint mapping to less than 500 bp intervals, can be achieved using NimbleGen's fine-tiling arrays with probes as dense as 10 bp spacing.

Isothermal (Tm-Balanced), Long-Oligonucleotide ProbesNimbleGen's exclusive isothermal array design approach enables uniform probe performance, eliminating hybridization artifacts and/or bias and providing higher quality data. Probe lengths are adjusted (45mer - 85mer) to equalize the melting temperature (Tm = 76℃) across the entire set. Thus, probes are optimized to perform equivalently at a given stringency in the genomic regions your experiments require, including AT- and GC-rich regions.

Custom Array CGHNimbleGen's highly flexible Maskless Array Synthesis technology enables rapid prototyping of new array designs. This flexibility enables cost-effective array CGH design for your organism of interest at the whole-genome level or focused on specific chromosomal regions.

Most Up-to-date Genome BuildNimbleGen CGH arrays are always current with the latest genome builds, so there’s no need to put your experiments on hold for a new array CGH design. In addition, you can continue to access array designs based on past genome data builds, which can be particularly useful for comparisons to prior studies.

Products and ServicesHuman Whole-Genome Array CGHWith a capacity of 385,000 isothermal probes, NimbleGen's high-density, long oligo arrays span the entire non-repetitive regions of the human genome in a single array, tiling the full genome at a median probe spacing of 6,000 bp. NimbleGen's Human Whole-Genome Array CGH, available as a catalog design (no design fees), is a cost-effective platform for genome-wide analysis of copy number changes. Unlike other commercial whole-genome array CGH platforms, NimbleGen's Human Whole-Genome Array CGH tiles through both genic and intergenic regions of the genome, providing the most thorough, unbiased coverage available.

Human Whole-Genome Array CGH Analysis of Human Tumor Cell LineThe large array capacity (385,000 features), long oligo probes, and tiling path microarray design enables genome-wide detection of copy number changes in genic and intergenic regions.

Figure A: Whole-genome array CGH results displayed in an “all chromosomes” view in NimbleGen's SignalMap browser, which includes gene annotation with direct links to NCBI. Data are provided as General Feature Format (GFF) files for use with SignalMap and other genome browsers.

Figure B: Whole-genome plot of data processed with a 50 Kb averaging window for a global view of copy number changes.Figure C: Zoomed-in view of a region in chromosome 3 showing a single copy loss and 50 Kb microdeletion. Top track is gene annotation, middle track is averaged data with segmentation analysis (red horizontal lines demarcate copy number changes), and bottom track is individual probe data (unaveraged).