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Hussain N, Chanda R, Abir RA, Mou MA, Hasan MK, Ashraf MA. MPDB 2.0: a large scale and integrated medicinal plant database of Bangladesh. BMC Res Notes 2021; 14:301. [PMID: 34362451 PMCID: PMC8344187 DOI: 10.1186/s13104-021-05721-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2021] [Accepted: 07/29/2021] [Indexed: 12/04/2022] Open
Abstract
Objective MPDB 2.0 is built to be the continuation of MPDB 1.0, to serve as a more comprehensive data repertoire for Bangladeshi medicinal plants, and to provide a user-friendly interface for researchers, health practitioners, drug developers, and students who wish to study the various medicinal & nutritive plants scattered around Bangladesh and the underlying phytochemicals contributing to their efficacy in Bangladeshi folk medicine. Results MPDB 2.0 database (https://www.medicinalplantbd.com/) comprises a collection of more than five hundred Bangladeshi medicinal plants, alongside a record of their corresponding scientific, family, and local names together with their utilized parts, information regarding ailments, active compounds, and PubMed ID of related publications. While medicinal plants are not limited to the borders of any country, Bangladesh and its Southeast Asian neighbors do boast a huge collection of potent medicinal plants with considerable folk-medicinal history compared to most other countries in the world. Development of MPDB 2.0 has been highly focused upon human diseases, albeit many of the plants indexed here can serve in developing biofuel (e.g.: Jatropha curcas used in biofuel) or bioremediation technologies (e.g.: Amaranthus cruentus helps to reduce cadmium level in soil) or nutritive diets (Terminalia chebula can be used in nutritive diets) or cosmetics (Aloe vera used in cosmetics), etc.
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Affiliation(s)
- Nazmul Hussain
- Department of Biochemistry and Molecular Biology, Tejgaon College, National University of Bangladesh, Gazipur, 1704, Bangladesh
| | - Rony Chanda
- Department of Biochemistry and Molecular Biology, Tejgaon College, National University of Bangladesh, Gazipur, 1704, Bangladesh
| | | | | | - Md Kamrul Hasan
- Department of Biochemistry and Molecular Biology, Tejgaon College, National University of Bangladesh, Gazipur, 1704, Bangladesh.
| | - M Arif Ashraf
- Biology department, University of Massachusetts Amherst, Amherst, MA, USA.
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Mou MA, Keya NA, Islam M, Hossain MJ, Al Habib MS, Alam R, Rana S, Samad A, Ahammad F. Validation of CSN1S1 transcriptional expression, promoter methylation, and prognostic power in breast cancer using independent datasets. Biochem Biophys Rep 2020; 24:100867. [PMID: 33381666 PMCID: PMC7767798 DOI: 10.1016/j.bbrep.2020.100867] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2020] [Revised: 10/16/2020] [Accepted: 11/19/2020] [Indexed: 01/09/2023] Open
Abstract
Breast cancer ranked second among most frequent cancer in the world playing a significant role in mortality rate. Having prior knowledge on differentially expressed genes in breast cell carcinoma elucidated important indications to understand the molecular mechanism underneath breast carcinogenesis. In this study we have investigated the distinguished CSN1S1 expression in human breast cancer. We have analyzed CSN1S1 mRNA expression between cancer and normal tissues using TCGA datasets. Moreover, analysis including promoter methylation, mutations, prognosis, co-expression, gene ontology, and pathways of CSN1S1 were performed by the TCGA Wanderer, UCSC Xena, cBioPortal, PrognoScan, UALCAN, and Enricher server. We have observed low mRNA expression and high promoter methylation of CSN1S1 in cancer tissues compared to normal tissues. Furthermore, we have also identified low mRNA expression in clinicopathological patients, as well as 9 deleterious mutations with highly co-expressed protein MRC1, and significantly related signaling pathways. We have found a positive correlation between the lower expression of CSN1S1 and patients surviving with breast cancer. Here we have concluded that CSN1S1 acts as a biomarker for the surveillance and prognosis of breast cancer, and also works as a novel therapeutic target at the molecular and pathway levels. Low transcriptional expression and low survival rate of CSN1S1 in breast cancer. The investigation of clinical profiles and mutational positions of CSN1S1 in breast cancer. The investigation of gene ontology and signaling pathway of CSN1S1 and their co-expressed genes. We identified CSN1S1 and also their co-expressed proteins are the potential biomarkers in breast cancer.
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Affiliation(s)
- Mohsina Akter Mou
- Department of Genetic Engineering and Biotechnology, Shahjalal University of Science and Technology, Bangladesh
| | - Nawshin Atia Keya
- Department of Microbiology, Noakhali Science and Technology University, Bangladesh
| | - Majharul Islam
- Department of Biochemistry and Molecular Biology, Mawlana Bhashani Science and Technology University, Tangail, 1902, Bangladesh
| | | | - Md Syeed Al Habib
- Department of Biochemistry and Molecular Biology, Mawlana Bhashani Science and Technology University, Tangail, 1902, Bangladesh
| | - Rahat Alam
- Department of Genetic Engineering and Biotechnology, Faculty of Biological Sciences and Technology, Jashore University of Science and Technology, Jashore, 7408, Bangladesh.,Laboraty of Computational Biology, Biological Solution Cantre (BiolSol Centre), Dhaka, Bangladesh
| | - Sohel Rana
- Department of Pharmacy, Faculty of Biological Sciences and Technology, Jashore University of Science and Technology, Jashore, 7408, Bangladesh
| | - Abdus Samad
- Department of Genetic Engineering and Biotechnology, Faculty of Biological Sciences and Technology, Jashore University of Science and Technology, Jashore, 7408, Bangladesh.,Laboraty of Computational Biology, Biological Solution Cantre (BiolSol Centre), Dhaka, Bangladesh
| | - Foysal Ahammad
- Department of Genetic Engineering and Biotechnology, Faculty of Biological Sciences and Technology, Jashore University of Science and Technology, Jashore, 7408, Bangladesh.,Laboraty of Computational Biology, Biological Solution Cantre (BiolSol Centre), Dhaka, Bangladesh.,Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, 21589, Saudi Arabia
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