Abstract: The invention provides biological molecules modified by reaction with a compound having the formula: R1—X—R2, wherein R1 is a cyclic ether group or an amino group, R2 is an alkoxysilane group and X is a moiety chemically suitable for linking the cyclic ether group or the amino group to the alkoxysilane group. The invention also provides arrays, or “biochips,” comprising these modified biological molecules. Also provided are methods for making and using these compositions.

Abstract: The invention provides computer systems, computer program products and methods for in silico array-based methods for determining the relative amount of biological molecules (e.g., nucleic acid sequences) in two or more samples. The invention also provides novel arrays comprising immobilized calibration molecules (e.g., nucleic acids) for normalizing the results of array-based binding assays (e.g., hybridization reactions).

Abstract: The invention provides computer systems, computer program products and methods for in silico array-based methods for determining the relative amount of biological molecules (e.g., nucleic acid sequences) in two or more samples. The invention also provides novel arrays comprising immobilized calibration molecules (e.g., nucleic acids) for normalizing the results of array-based binding assays (e.g., hybridization reactions).

Abstract: In one aspect the invention provides compilations of nucleic acids, articles of manufacture, e.g., arrays, and methods for the detection of chromosomal abnormalities, such as a chromosomal aneuploidies, deletions, amplifications, and the like, and the diagnosis or prognosis of syndromes associated with a contiguous gene abnormality. Kits are also provided.

Abstract: The invention provides computer systems, computer program products and methods for in silico array-based methods for determining the relative amount of biological molecules (e.g., nucleic acid sequences) in two or more samples. The invention also provides novel arrays comprising immobilized calibration molecules (e.g., nucleic acids) for normalizing the results of array-based binding assays (e.g., hybridization reactions).

Abstract: The invention provides novel methods to map the location and measure the expression of some or all the genes expressed by a cell using array-based nucleic acid hybridizations. The use and applicability of the invention includes identification of tissue specific genes and identifying different tissue types during growth and development. The methods also can be used to identify genes expressing abnormal types of transcripts or abnormal levels or transcripts. Thus, the invention can be used to identify genes encoding transcripts associated with disease processes, such as cancer.

Abstract: The invention provides array-based methods for determining genetic mosaicisms in cell populations, such as biopsy or body fluid samples or cultures of cancer cells. The invention also provides methods for optimizing performance of an array-based comparative genomic hybridization (CGH).