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Errors in CGAP xProfiler and cDNA DGED: the importance of library parsing and gene selection algorithms

By Andrew T Milnthorpe and Mikhail Soloviev
Topics: Correspondence
Publisher: BioMed Central
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Provided by: PubMed Central

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  2. (1999). All About the cDNA xProfiler Tool. [ cDNAxProfilerHowTo]. Milnthorpe and Soloviev BMC Bioinformatics 2011, 12:97 Page 14 of 1538. Lal
  3. Array Express Archive.
  4. (2007). Atchley WR: Gaussian quadrature formulae for arbitrary positive measures. Evol Bioinform Online
  5. (2000). Auer G: Polypeptide expression in prostate hyperplasia and prostate adenocarcinoma. Anal Cell Pathol
  6. (2010). BD: Impact of race and ethnicity on outcomes for estrogen receptor-negative breast cancers: experience of an academic center with a charity hospital.
  7. (2002). Bioinformatics-based discovery of a novel factor with apparent specificity to colon cancer. In Vivo
  8. Cancer Genome Anatomy Project.
  9. (2005). Chang HR: In silico identification of breast cancer genes by combined multiple high throughput analyses. Int J Mol Med
  10. (1998). Characterization of gene expression in resting and activated mast cells.
  11. (1997). Claverie JM: The significance of digital gene expression profiles. Genome Res
  12. (2002). Cole DJ: Prostate-Specific Ets (PSE) factor: a novel marker for detection of metastatic breast cancer in axillary lymph nodes.
  13. (2004). Diamandis EP: In-silico analysis of kallikrein gene expression in pancreatic and colon cancers. Anticancer Res
  14. (2004). Diamandis EP: Kallikrein gene downregulation in breast cancer.
  15. (2002). Down’s syndrome-associated single minded gene as a novel tumor marker. Anticancer Res
  16. (2010). Enerbäck C: Loss of ICAM-1 signaling induces psoriasin (S100A7) and MUC1 in mammary epithelial cells. Breast Cancer Res Treat
  17. Expression Omnibus.
  18. (2002). GJ: An anatomy of normal and malignant gene expression. Proc Natl Acad Sci USA
  19. (2005). Hanash SM: Identification of defensin alpha6 as a potential biomarker in colon adenocarcinoma.
  20. (2003). Kavsan V: HC gp-39 gene is upregulated in glioblastomas. Cancer Lett
  21. (2000). KW: Analysing uncharted transcriptomes with SAGE. Trends Genet
  22. (2003). L: Database resources of the National Center for Biotechnology. Nucleic Acids Res
  23. (2001). Le Pennec JP: Two messenger RNAs and five isoforms for Po66-CBP, a galectin-8 homolog in a human lung carcinoma cell line. Gene
  24. (2009). Liu SH: Primary vaginal extraosseous Ewing sarcoma/primitive neuroectodermal tumor with cranial metastasis. J Chin Med Assoc
  25. (2007). Marcuard SP: Standardization for transcriptomic molecular markers to screen human colon cancer. Cancer Genomics Proteomics
  26. (2003). ND: Expression profiling of estrogenic compounds using a sheepshead minnow cDNA macroarray. EHP toxicogenics
  27. (2005). Peck K: Prognosis of non-small cell lung cancer patients by detecting circulating cancer cells in the peripheral blood with multiple marker genes. Clin Cancer Res
  28. (2006). QS: [High throughput screening and analysis of prostate cancer-related genes through mining databases] [Article in Chinese]. Ai Zheng
  29. (2001). Quantification of mRNA levels using northern blotting. Methods Mol Biol
  30. (2000). Relevant genomics of neurotensin receptor in cancer. Anticancer Res
  31. (2003). RG: Experimental validation of novel and conventional approaches to quantitative real-time PCR data analysis. Nucleic Acids Res
  32. (2000). Riggins GJ: Identifying potential tumor markers and antigens by database mining and rapid expression screening. Genome Res
  33. (2007). Riggins GJ: PLXDC1 (TEM7) is identified in a genome-wide expression screen of glioblastoma endothelium.
  34. (2001). RL: Genome and genetic resources from the Cancer Genome Anatomy Project. Hum Mol Genet
  35. (2007). Song XY: [Identification of gastric cancer-related genes by multiple high throughput analysis and data mining] [Article in Chinese]. Zhonghua Wei Chang Wai Ke Za Zhi
  36. (2007). Transcriptomic molecular markers for screening human colon cancer in stool and tissue. Cancer Genomics Proteomics
  37. (2008). Useful markers for detecting minimal residual disease in cases of neuroblastoma.
  38. (2008). X: Identification of candidate cancer genes involved in human retinoblastoma by data mining. Childs Nerv Syst
  39. (2006). Xiao SD: Analysis of gene expression profile in colon cancer using the Cancer Genome Anatomy Project and RNA interference.