scholarly journals Discovery of differentially expressed genes in human breast cancer using subtracted cDNA libraries and cDNA microarrays

Oncogene ◽  
2002 ◽  
Vol 21 (14) ◽  
pp. 2270-2282 ◽  
Author(s):  
Yuqiu Jiang ◽  
Susan L Harlocker ◽  
David A Molesh ◽  
David C Dillon ◽  
John A Stolk ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Differentially Expressed Genes ◽  
Human Breast Cancer ◽  
Cdna Microarrays ◽  
Differentially Expressed ◽  
Cdna Libraries ◽  
Human Breast ◽  
Subtracted Cdna Libraries

scholarly journals Microarray Analysis of Suppression Subtracted Hybridisation Libraries Identifies Genes Associated with Breast Cancer Progression

2010 ◽  
Vol 32 (1-2) ◽  
pp. 87-99
Author(s):  
Dong Liu Barraclough ◽  
Susan Sewart ◽  
Philip S. Rudland ◽  
Balvinder S. Shoker ◽  
D. Ross Sibson ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Estrogen Receptor ◽  
Cell Lines ◽  
Microarray Analysis ◽  
Cancer Progression ◽  
Estrogen Receptor Status ◽  
Differentially Expressed ◽  
Cdna Libraries ◽  
Human Breast ◽  
Subtracted Cdna Libraries

Background: A major challenge of cancer research is to identify key molecules which are responsible for the development of the malignant metastatic phenotype, the major cause of cancer death.Methods: Four subtracted cDNA libraries were constructed representing mRNAs differentially expressed between benign and malignant human breast tumour cells and between micro-dissected breast carcinoma in situ and invasive carcinoma. Hundreds of differentially expressed cDNAs from the libraries were micro-arrayed and screened with mRNAs from human breast tumor cell lines and clinical specimens. Gene products were further examined by RT-PCR and correlated with clinical data.Results: The combination of subtractive hybridisation and microarray analysis has identified a panel of 15 cDNAs which shows strong correlations with estrogen receptor status, malignancy or relapse. This panel included S100P, which was associated with aneuploidy in cell lines and relapse/death in patients, and AGR2 which was associated with estrogen receptor and with patient relapse. X-box binding protein-1 is also an estrogen-dependent gene and is associated with better survival for breast cancer patients.Conclusions: The combination of subtracted cDNA libraries and microarray analysis has thus identified potential diagnostic/prognostic biomarkers and targets for cancer therapy, which have not been identified from common prognostic gene signatures.

scholarly journals Infection of the kidneys with the BK polyomavirus is associated with transcriptional induction of PSMB9 and IGFLR1, genes differentially expressed in human breast cancer.

2020 ◽  
Author(s):  
Shahan Mamoor
Keyword(s):  
Breast Cancer ◽  
Differentially Expressed Genes ◽  
Human Breast Cancer ◽  
T Antigen ◽  
Bk Virus ◽  
Differentially Expressed ◽  
Breast Cancers ◽  
Human Breast ◽  
Bk Polyomavirus ◽  
Transcriptional Modulation

The BK polyomavirus is both the cause of nephropathy in kidney transplant patients (1-3) and one of many viruses whose presence has previously been investigated in the tumors of patients with breast cancer (4, 5). We mined published microarray data (6, 7) to identify differentially expressed genes associated with BK polyomavirus infection of the kidneys in patients with transplant-associated nephropathy, integrating these findings with whole transcriptome analysis of human breast cancers to determine the presence of differentially expressed genes in breast cancers whose expression was significantly modulated by BK virus infection. We identified conserved transcriptional modulation of the IGF-like family receptor 1 (IGFLR1) and the proteasome subunit 9 (PSMB9) in the kidneys of patients with transplant-associated nephropathy and in the primary tumors of patients with breast cancer. These data demonstrate the existence of common transcriptional modulation in human breast cancer and in the kidneys associated with BK virus, and provide rationale for evaluation of BK virus large T-antigen expression in the human breast during breast cancer.

scholarly journals A shared transcriptional landscape between human breast cancers and breast cancers induced by genetic modeling of viral infection in mice.

2020 ◽  
Author(s):  
Shahan Mamoor
Keyword(s):  
Breast Cancer ◽  
Viral Infection ◽  
Differentially Expressed Genes ◽  
Mammary Tumor ◽  
Human Breast Cancer ◽  
Differentially Expressed ◽  
Breast Cancers ◽  
Human Breast ◽  
Transgenic Expression ◽  
Genetic Modeling

We recently demonstrated, through analysis of published transcriptome data from human and murine breast cancer that eight genes whose expression was most different in tumors that arise in the mouse breast following transgenic expression of the SV40 large T-antigen or modeling of integration following infection with multiple mammary tumor viruses, including CD36, ASPM, PDGFD and CEP55 were also among the genes most differentially expressed in the primary tumors of humans with breast cancer (1). We report here that these transcriptional similarities are a much larger phenomena, with 45-54% of the top one hundred most differentially expressed genes in murine breast cancer resulting from genetic modeling of viral infection with the murine mammary tumor virus MMTV or transgenic expression of SV40 large T also among the most differentially expressed genes in human breast cancer. Despite inherent differences in transcription due to species divergence, blind whole transcriptome (2-4) analyses reveals striking transcriptional similarity in the landscape of human breast cancer and murine breast cancers resulting from genetic modeling of viral infection, providing further evidence to support the hypothesis that one or more viral agents with transformation capacity may contribute to the development of human breast cancer.

scholarly journals A readthrough transcript of the chemokines CCL14 and CCL15 is differentially expressed in human breast cancer.

2021 ◽  
Author(s):  
Shahan Mamoor
Keyword(s):  
Breast Cancer ◽  
Survival Data ◽  
Human Breast Cancer ◽  
Molecular Subtype ◽  
Differentially Expressed Gene ◽  
Normal Breast ◽  
Differentially Expressed ◽  
Human Breast ◽  
Significant Differential Expression ◽  
Primary Tumors

Breast cancer affects women at relatively high frequency (1). We mined published microarray datasets (2, 3) to determine in an unbiased fashion and at the systems level genes most differentially expressed in the primary tumors of patients with breast cancer. We report here significant differential expression of a readthrough transcript of CCL14 and CCL15, CCL14-CCL15, when comparing primary tumors of the breast to the tissue of origin, the normal breast. CCL14-CCL15 mRNA was present at significantly lower quantities in tumors of the breast as compared to normal breast tissue. Analysis of human survival data revealed that expression of CCL14-CCL15 in primary tumors of the breast was correlated with overall survival in patients with luminal A cancers, demonstrating a relationship between primary tumor expression of a differentially expressed gene and patient survival outcomes influenced by molecular subtype. These data document a potential role for a readthrough chemokine transcript in human breast cancer.

Sign in / Sign up

Export Citation Format

Share Document