title: UPMC_PACCM_MOUSE_20K_14
status: Public on May 08 2007
contact.city: Philadelphia
contact.first: Tamas
contact.last: Dolinay
contact.email: tdolinay@hotmail.com
contact.state: PA
contact.address: 220 S. 33rd St., Towne building, Room 390
contact.department: Bioengineering
contact.country: USA
contact.institute: University of Pennsylvania
contact.phone: 4125278764
organism: Mus musculus
manufacture_protocol: CodeLink UniSet Mouse Bioarrays
  CodeLink UniSet Mouse Bioarrays deliver superior results through:
  quality probe design and selection that includes functional validation for accurate and reproducible biological results
  manufacturing process control checkpoints to ensure probe and deposition quality for reproducible experimental results
  unique three-dimensional aqueous gel matrix for higher assay sensitivity and specificity
  optimized reagents, protocols, processing tools, and software for ease of use and reliable performance
  CodeLink UniSet Mouse Bioarrays provide reliable results for comprehensive mouse gene expression profiling.
  Specificity: 90% probe to target sequence identity for better discrimination of highly homologous genes
  Sensitivity: < 1 transcript per cell for better detection of rare messages
  Dynamic range: signal response > 3 orders of magnitude; linear signal response > 2.5 orders of magnitude for more usable data
  Signal reproducibility (total CV): typically < 16% CV for reproducible results in every experiment
  Minimum detectable fold change: > 98% within two-fold change for same-same target hybridization which means reduced noise for better detection of small changes in gene expression and more usable data per bioarray
  High-quality, high-density bioarray for expression profiling
  CodeLink UniSet Mouse Bioarrays are powerful tools for gene expression using the widely adopted mouse model system. Each CodeLink UniSet Mouse Bioarray covers a wide range of the most well-annotated mouse genes published in public databases. These transcripts are useful for performing differential expression studies of many important biological processes in a single experiment. For instance, CodeLink UniSet Mouse Bioarrays can be used to study unique gene expression profiles at different stages of oncogenesis. These studies help to characterize and understand tumor types and tumor progression for use in drug target identification and personalized medicine. In addition, this bioarray enables the investigation of cell and tissue reactions to their environment from stimulus reception to signal transduction processing and response. This bioarray comprehensively covers cell differentiation, development, apoptosis, and metabolism for drugs and other cellular biomolecules.
  Expression profiling information from this bioarray can also provide accurate and reproducible transcriptional expression data that can be used to better understand developmental and morphological differences in cells and tissues. Expression profiling of the genes involved in these types of biological processes can be directly applied to target identification, pathway characterization, and drug effect prediction in basic research and drug development.
  CodeLink UniSet Mouse 20K I Bioarray
  CodeLink UniSet Mouse 20K I Bioarray targets ~20 000 unique, well-annotated mouse genes. This high-density bioarray is part of the CodeLink System solution for higher quality, reproducible gene expression profiling.
  CodeLink UniSet Mouse 20K I gene classification
  Major biological process Number of genes present
  Oncogenesis ~500
  Cell cycle ~500
  Cell-cell signaling ~250
  Signal transduction ~750
  Metabolism ~400
  Developmental process ~250
  Transcription and translation ~400
  Immune and inflammation response ~300
  Protein phosphorylation ~250
  Apoptosis ~100
  RNA processing ~100
  Ion transport ~700
  Table. The biological processes listed are approximate and conservative estimates of the minimum number of genes covered in each CodeLink UniSet Mouse 20K I Biorarray for study. The above classification is based on the “BIOLOGICAL PROCESS” organizing principle from Gene Ontology™ Consortium.
  Specifications
  CodeLink UniSet Mouse 20K I Bioarray content is based on the public NCBI, UniGene, and RefSeq databases. Well-annotated mRNA or coding sequences were chosen to ensure usefulness for a large range of applications in basic research, biotechnology, and drug development. Each sequence was carefully screened to ensure high-quality, specific probe design, and to reduce redundancy of gene targets. Every probe was functionally validated against multiple tissues to ensure best representation of the gene so that the results will be biologically relevant. Every bioarray is also functionally validated during production to further ensure quality performance.
  Number of arrays in set: 1
  Number of probes: 20 209
  Total number of transcripts targeted: 19 932
  Number of discovery genes: 19 801
  Positive controls: 108
  Negative controls: 300
  Housekeeping genes: 100
  Fiducials: 8
  Number of probes per gene: one specific and functionally validated probe
  Oligonucleotide probe length: 30-mer
  RNA sample input: 0.2-2.0 µg total RNA
  Type of assay: one-color
  Storage and handling temperature: room temperature