Prognostic and clinico-pathological significance of BIN1 in breast cancer
Bridging integrator 1 (BIN1) is a potential tumor suppressor that behaves as silent or misplaced in breast, prostate, skin, lung, and colon cancers. Previous studies noted decreased BIN1 expression in breast cancer (BC). Despite this, BIN1's role in breast cancer is not well understood and rema...
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| Format: | Article |
| Language: | English |
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Elsevier
2020-01-01
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| Series: | Informatics in Medicine Unlocked |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352914820301209 |
| _version_ | 1819093467818622976 |
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| author | Subbroto Kumar Saha Md. Ashraful Kader Kazi Abdus Samad Krishno Chandra Biswas Md. Ataur Rahman Md. Anwar Khasru Parvez Md. Shahedur Rahman |
| author_facet | Subbroto Kumar Saha Md. Ashraful Kader Kazi Abdus Samad Krishno Chandra Biswas Md. Ataur Rahman Md. Anwar Khasru Parvez Md. Shahedur Rahman |
| author_sort | Subbroto Kumar Saha |
| collection | DOAJ |
| description | Bridging integrator 1 (BIN1) is a potential tumor suppressor that behaves as silent or misplaced in breast, prostate, skin, lung, and colon cancers. Previous studies noted decreased BIN1 expression in breast cancer (BC). Despite this, BIN1's role in breast cancer is not well understood and remains to be elucidated. Here, we computationally analyzed BIN1 expression and its prognostic role in BC using various databases. Specifically, we found a down-regulated expression profile for the BIN1 gene in different BC subtypes using Oncomine, TCGA, and bcGenExMiner v4.2 web. The expression of BIN1 was found to be associated with various clinico-pathological conditions including estrogen receptor (ER), progesterone receptor (PR) basal-like subtype, and triple-negative breast cancer (TNBC) based on analysis of the bcGenExMiner v4.2 and TCGA databases. In addition to mRNA expression, the correlation between mRNA expression and BIN1 promoter methylation was established using TCGA datasets from UCSC Xena and ULCAN web, and we subsequently examined the relationship of BIN1 promoter methylation with different clinico-pathological conditions in BC patients. Data mining via Kaplan-Meier plotter indicated a positive association between lower BIN1 expression and low BC patient survival and various clinico-pathological conditions in BC patients. Furthermore, we identified a list of genes co-expressed with BIN1 in BC using TCGA data from the ULCAN web. Among the co-expressed genes, glycophorin C (GYPC) had the most predominant positive correlation. This correlation was further confirmed in BC using UCSC Xena and bcGenExMiner v4.2 webs. Overall, this study establishes that attenuated BIN1 expression might induce progression and poor prognosis in BC patients with GYPC association. This could be useful for clinical BC therapy. |
| first_indexed | 2024-12-21T23:11:59Z |
| format | Article |
| id | doaj.art-d352d823be6442c2be7e9340eea8bae1 |
| institution | Directory Open Access Journal |
| issn | 2352-9148 |
| language | English |
| last_indexed | 2024-12-21T23:11:59Z |
| publishDate | 2020-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Informatics in Medicine Unlocked |
| spelling | doaj.art-d352d823be6442c2be7e9340eea8bae12022-12-21T18:47:00ZengElsevierInformatics in Medicine Unlocked2352-91482020-01-0119100327Prognostic and clinico-pathological significance of BIN1 in breast cancerSubbroto Kumar Saha0Md. Ashraful Kader1Kazi Abdus Samad2Krishno Chandra Biswas3Md. Ataur Rahman4Md. Anwar Khasru Parvez5Md. Shahedur Rahman6Department of Stem Cell and Regenerative Biotechnology, Konkuk University, 120 Neungdong-Ro, Seoul, 05029, South Korea; Department of Gynecology and Obstetrics, Johns Hopkins School of Medicine, Baltimore, MD, 21205, United StatesDepartment of Genetic Engineering and Biotechnology, Jashore University of Science and Technology, Jashore, 7408, BangladeshDepartment of Genetic Engineering and Biotechnology, Jashore University of Science and Technology, Jashore, 7408, BangladeshKatlagari Degree College, Jheneidah, 7320, BangladeshCenter for Neuroscience, Brain Science Institute, Korea Institute of Science and Technology (KIST), Seoul, 02792, South KoreaDepartment of Microbiology, Jahangirnagar University, Savar, Dhaka, 1342, BangladeshDepartment of Genetic Engineering and Biotechnology, Jashore University of Science and Technology, Jashore, 7408, Bangladesh; Corresponding author.Bridging integrator 1 (BIN1) is a potential tumor suppressor that behaves as silent or misplaced in breast, prostate, skin, lung, and colon cancers. Previous studies noted decreased BIN1 expression in breast cancer (BC). Despite this, BIN1's role in breast cancer is not well understood and remains to be elucidated. Here, we computationally analyzed BIN1 expression and its prognostic role in BC using various databases. Specifically, we found a down-regulated expression profile for the BIN1 gene in different BC subtypes using Oncomine, TCGA, and bcGenExMiner v4.2 web. The expression of BIN1 was found to be associated with various clinico-pathological conditions including estrogen receptor (ER), progesterone receptor (PR) basal-like subtype, and triple-negative breast cancer (TNBC) based on analysis of the bcGenExMiner v4.2 and TCGA databases. In addition to mRNA expression, the correlation between mRNA expression and BIN1 promoter methylation was established using TCGA datasets from UCSC Xena and ULCAN web, and we subsequently examined the relationship of BIN1 promoter methylation with different clinico-pathological conditions in BC patients. Data mining via Kaplan-Meier plotter indicated a positive association between lower BIN1 expression and low BC patient survival and various clinico-pathological conditions in BC patients. Furthermore, we identified a list of genes co-expressed with BIN1 in BC using TCGA data from the ULCAN web. Among the co-expressed genes, glycophorin C (GYPC) had the most predominant positive correlation. This correlation was further confirmed in BC using UCSC Xena and bcGenExMiner v4.2 webs. Overall, this study establishes that attenuated BIN1 expression might induce progression and poor prognosis in BC patients with GYPC association. This could be useful for clinical BC therapy.http://www.sciencedirect.com/science/article/pii/S2352914820301209BIN1MethylationBreast cancerPrognosisGYPCOncomine |
| spellingShingle | Subbroto Kumar Saha Md. Ashraful Kader Kazi Abdus Samad Krishno Chandra Biswas Md. Ataur Rahman Md. Anwar Khasru Parvez Md. Shahedur Rahman Prognostic and clinico-pathological significance of BIN1 in breast cancer Informatics in Medicine Unlocked BIN1 Methylation Breast cancer Prognosis GYPC Oncomine |
| title | Prognostic and clinico-pathological significance of BIN1 in breast cancer |
| title_full | Prognostic and clinico-pathological significance of BIN1 in breast cancer |
| title_fullStr | Prognostic and clinico-pathological significance of BIN1 in breast cancer |
| title_full_unstemmed | Prognostic and clinico-pathological significance of BIN1 in breast cancer |
| title_short | Prognostic and clinico-pathological significance of BIN1 in breast cancer |
| title_sort | prognostic and clinico pathological significance of bin1 in breast cancer |
| topic | BIN1 Methylation Breast cancer Prognosis GYPC Oncomine |
| url | http://www.sciencedirect.com/science/article/pii/S2352914820301209 |
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