Simultaneous measurement of gene expression and genomic abnormalities using nucleic acid microarrays

A method of for simultaneous detection of gene expression and chromosomal abnormality in a tissue sample comprising:

• (a) providing an array of nucleic acid target elements comprising genomic DNA attached to a solid support wherein the nucleic acid target elements comprise polynucleotide sequences substantially complementary under preselected hybridization conditions to nucleic acids indicative of gene expression and of chromosomal sequence of a tissue sample;
• (b) providing at least three labeled nucleic acid populations:
• (i) a mRNA or cDNA population labeled with a first fluorescent color and derived from the tissue sample,
• (ii) a chromosomal DNA population labeled with a second fluorescent color and derived from the tissue sample, and
• (iii) at least one reference nucleic acid population labeled with a third fluorescent color;
• (c) contacting the array with the labeled nucleic acid populations under hybridization conditions;
• and
• (d) detecting presence and intensity of each of the first, second and third fluorescent colors at at least two target elements.

A method for simultaneous detection of gene expression and chromosomal abnormality in a tissue sample comprising:

• (a) providing an array of nucleic acid target elements attached to a solid support wherein the nucleic acid target elements comprise polynucleotide sequences substantially complementary under preselected hybridization conditions to nucleic acids indicative of gene expression and of chromosomal sequence of a tissue sample;
• (b) providing at least three labeled nucleic acid populations:
• (i) a mRNA or cDNA population labeled with a first fluorescent color and derived from the tissue sample,
• (iii) at least one reference nucleic acid population labeled with a third fluorescent color;
• (c) contacting the array with the labeled nucleic acid populations under hybridization conditions;
• and
• (d) detecting presence and intensity of each of the first, second and third fluorescent colors at at least two target elements.