Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank

Ivanesa Pardo, Heather A. Lillemoe, Rachel J. Blosser, Mi Ran Choi, Candice Sauder, Diane K. Doxey, Theresa Mathieson, Bradley A. Hancock, Dadrie Baptiste, Rutuja Atale, Matthew Hickenbotham, Jin Zhu, Jarret Glasscock, Anna Maria V. Storniolo, Faye Zheng, RW W. Doerge, Yunlong Liu, Sunil Badve, Milan Radovich, Susan E. Clare

Research output: Contribution to journalArticle

26 Scopus citations

Abstract

Introduction: Our efforts to prevent and treat breast cancer are significantly impeded by a lack of knowledge of the biology and developmental genetics of the normal mammary gland. In order to provide the specimens that will facilitate such an understanding, The Susan G. Komen for the Cure Tissue Bank at the IU Simon Cancer Center (KTB) was established. The KTB is, to our knowledge, the only biorepository in the world prospectively established to collect normal, healthy breast tissue from volunteer donors. As a first initiative toward a molecular understanding of the biology and developmental genetics of the normal mammary gland, the effect of the menstrual cycle and hormonal contraceptives on DNA expression in the normal breast epithelium was examined.Methods: Using normal breast tissue from 20 premenopausal donors to KTB, the changes in the mRNA of the normal breast epithelium as a function of phase of the menstrual cycle and hormonal contraception were assayed using next-generation whole transcriptome sequencing (RNA-Seq).Results: In total, 255 genes representing 1.4% of all genes were deemed to have statistically significant differential expression between the two phases of the menstrual cycle. The overwhelming majority (221; 87%) of the genes have higher expression during the luteal phase. These data provide important insights into the processes occurring during each phase of the menstrual cycle. There was only a single gene significantly differentially expressed when comparing the epithelium of women using hormonal contraception to those in the luteal phase.Conclusions: We have taken advantage of a unique research resource, the KTB, to complete the first-ever next-generation transcriptome sequencing of the epithelial compartment of 20 normal human breast specimens. This work has produced a comprehensive catalog of the differences in the expression of protein-coding genes as a function of the phase of the menstrual cycle. These data constitute the beginning of a reference data set of the normal mammary gland, which can be consulted for comparison with data developed from malignant specimens, or to mine the effects of the hormonal flux that occurs during the menstrual cycle.

Original languageEnglish (US)
Article numberR26
JournalBreast Cancer Research
Volume16
Issue number2
DOIs
StatePublished - Mar 17 2014
Externally publishedYes

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

Fingerprint Dive into the research topics of 'Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank'. Together they form a unique fingerprint.

  • Cite this

    Pardo, I., Lillemoe, H. A., Blosser, R. J., Choi, M. R., Sauder, C., Doxey, D. K., Mathieson, T., Hancock, B. A., Baptiste, D., Atale, R., Hickenbotham, M., Zhu, J., Glasscock, J., Storniolo, A. M. V., Zheng, F., Doerge, RW. W., Liu, Y., Badve, S., Radovich, M., & Clare, S. E. (2014). Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank. Breast Cancer Research, 16(2), [R26]. https://doi.org/10.1186/bcr3627