The present invention provides an
oligonucleotide array capable of identifying genes and related pathways involved with the induction of a particular
phenotype by a
cell line, e.g., the genes and related pathways involved with the induction of
transgene expression by the
cell line. The invention is particularly useful when there is little or no information about the
genome of the
cell line being studied, because it provides methods for identifying
consensus sequences for known and previously undiscovered genes, and for designing
oligonucleotide probes to the identified
consensus sequences. Additionally, when the array is to be used to determine optimal conditions for expression of a
transgene by the cell line, the invention teaches methods of including
oligonucleotide probes to
transgene sequences in the array. The invention also provides methods of using the array to identify genes and related pathways involved with the induction of a particular cell line
phenotype. The invention also provides novel polynucleotides of undiscovered genes (i.e., a
gene that had not been sequenced and / or shown to be expressed by CHO cells) and novel polynucleotides involved with the induction of a particular
cell phenotype, e.g., increased survival when grown under stressful culture conditions, increased transgene expression, decreased production of an
antigen, etc. These novel polynucleotides are termed novel CHO sequences and differential CHO sequences, respectively. The invention also provides
genetically engineered expression vectors, host cells, and transgenic animals comprising the novel
nucleic acid molecules of the invention. The invention additionally provides antisense and RNAi molecules to the
nucleic acid molecules of the invention. The invention further provides methods of using the polynucleotides of the invention.