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  1. Article ; Online: Augmented weighted K-means grey wolf optimizer: An enhanced metaheuristic algorithm for data clustering problems.

    Premkumar, Manoharan / Sinha, Garima / Ramasamy, Manjula Devi / Sahu, Santhoshini / Subramanyam, Chithirala Bala / Sowmya, Ravichandran / Abualigah, Laith / Derebew, Bizuwork

    Scientific reports

    2024  Volume 14, Issue 1, Page(s) 5434

    Abstract: This study presents the K-means clustering-based grey wolf optimizer, a new algorithm intended to improve the optimization capabilities of the conventional grey wolf optimizer in order to address the problem of data clustering. The process that groups ... ...

    Abstract This study presents the K-means clustering-based grey wolf optimizer, a new algorithm intended to improve the optimization capabilities of the conventional grey wolf optimizer in order to address the problem of data clustering. The process that groups similar items within a dataset into non-overlapping groups. Grey wolf hunting behaviour served as the model for grey wolf optimizer, however, it frequently lacks the exploration and exploitation capabilities that are essential for efficient data clustering. This work mainly focuses on enhancing the grey wolf optimizer using a new weight factor and the K-means algorithm concepts in order to increase variety and avoid premature convergence. Using a partitional clustering-inspired fitness function, the K-means clustering-based grey wolf optimizer was extensively evaluated on ten numerical functions and multiple real-world datasets with varying levels of complexity and dimensionality. The methodology is based on incorporating the K-means algorithm concept for the purpose of refining initial solutions and adding a weight factor to increase the diversity of solutions during the optimization phase. The results show that the K-means clustering-based grey wolf optimizer performs much better than the standard grey wolf optimizer in discovering optimal clustering solutions, indicating a higher capacity for effective exploration and exploitation of the solution space. The study found that the K-means clustering-based grey wolf optimizer was able to produce high-quality cluster centres in fewer iterations, demonstrating its efficacy and efficiency on various datasets. Finally, the study demonstrates the robustness and dependability of the K-means clustering-based grey wolf optimizer in resolving data clustering issues, which represents a significant advancement over conventional techniques. In addition to addressing the shortcomings of the initial algorithm, the incorporation of K-means and the innovative weight factor into the grey wolf optimizer establishes a new standard for further study in metaheuristic clustering algorithms. The performance of the K-means clustering-based grey wolf optimizer is around 34% better than the original grey wolf optimizer algorithm for both numerical test problems and data clustering problems.
    Language English
    Publishing date 2024-03-05
    Publishing country England
    Document type Journal Article
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-024-55619-z
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Author Correction: Augmented weighted K-means grey wolf optimizer: An enhanced metaheuristic algorithm for data clustering problems.

    Premkumar, Manoharan / Sinha, Garima / Ramasamy, Manjula Devi / Sahu, Santhoshini / Subramanyam, Chithirala Bala / Sowmya, Ravichandran / Abualigah, Laith / Derebew, Bizuwork

    Scientific reports

    2024  Volume 14, Issue 1, Page(s) 7288

    Language English
    Publishing date 2024-03-27
    Publishing country England
    Document type Published Erratum
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-024-58099-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Revealing role of epigenetic modifiers and DNA oxidation in cell-autonomous regulation of Cancer stem cells.

    Ferrer-Diaz, Alejandra I / Sinha, Garima / Petryna, Andrew / Gonzalez-Bermejo, Ruth / Kenfack, Yannick / Adetayo, Oluwadamilola / Patel, Shyam A / Hooda-Nehra, Anupama / Rameshwar, Pranela

    Cell communication and signaling : CCS

    2024  Volume 22, Issue 1, Page(s) 119

    Abstract: Background: Breast cancer cells (BCCs) can remain undetected for decades in dormancy. These quiescent cells are similar to cancer stem cells (CSCs); hence their ability to initiate tertiary metastasis. Dormancy can be regulated by components of the ... ...

    Abstract Background: Breast cancer cells (BCCs) can remain undetected for decades in dormancy. These quiescent cells are similar to cancer stem cells (CSCs); hence their ability to initiate tertiary metastasis. Dormancy can be regulated by components of the tissue microenvironment such as bone marrow mesenchymal stem cells (MSCs) that release exosomes to dedifferentiate BCCs into CSCs. The exosomes cargo includes histone 3, lysine 4 (H3K4) methyltransferases - KMT2B and KMT2D. A less studied mechanism of CSC maintenance is the process of cell-autonomous regulation, leading us to examine the roles for KMT2B and KMT2D in sustaining CSCs, and their potential as drug targets.
    Methods: Use of pharmacological inhibitor of H3K4 (WDR5-0103), knockdown (KD) of KMT2B or KMT2D in BCCs, real time PCR, western blot, response to chemotherapy, RNA-seq, and flow cytometry for circulating markers of CSCs and DNA hydroxylases in BC patients. In vivo studies using a dormancy model studied the effects of KMT2B/D to chemotherapy.
    Results: H3K4 methyltransferases sustain cell autonomous regulation of CSCs, impart chemoresistance, maintain cycling quiescence, and reduce migration and proliferation of BCCs. In vivo studies validated KMT2's role in dormancy and identified these genes as potential drug targets. DNA methylase (DNMT), predicted within a network with KMT2 to regulate CSCs, was determined to sustain circulating CSC-like in the blood of patients.
    Conclusion: H3K4 methyltransferases and DNA methylation mediate cell autonomous regulation to sustain CSC. The findings provide crucial insights into epigenetic regulatory mechanisms underlying BC dormancy with KMT2B and KMT2D as potential therapeutic targets, along with standard care. Stem cell and epigenetic markers in circulating BCCs could monitor treatment response and this could be significant for long BC remission to partly address health disparity.
    MeSH term(s) Humans ; Neoplastic Stem Cells/pathology ; Histones/genetics ; Epigenesis, Genetic ; Methyltransferases/genetics ; DNA ; Neoplasms/pathology ; Intracellular Signaling Peptides and Proteins/genetics
    Chemical Substances Histones ; Methyltransferases (EC 2.1.1.-) ; DNA (9007-49-2) ; WDR5 protein, human ; Intracellular Signaling Peptides and Proteins
    Language English
    Publishing date 2024-02-12
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2126315-2
    ISSN 1478-811X ; 1478-811X
    ISSN (online) 1478-811X
    ISSN 1478-811X
    DOI 10.1186/s12964-024-01512-1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: A Scanning Electron Microscope Evaluation of the Efficacy of Different Fluoride-releasing Dental Restorative Materials to Prevent Enamel Demineralization: An

    Dhananjaya, Kiran M / Chakraborty, Mrinmoy / Vadavadagi, Suneel V / Sinha, Garima / Verma, Tanya / Deb, Saikat

    The journal of contemporary dental practice

    2021  Volume 22, Issue 11, Page(s) 1292–1296

    Abstract: Aim: Aim of the present research was to investigate the effectiveness of various fluoride-releasing dental restorative agents in preventing demineralization of enamel.: Materials and methods: Eighty human mandibular permanent molar teeth constituted ... ...

    Abstract Aim: Aim of the present research was to investigate the effectiveness of various fluoride-releasing dental restorative agents in preventing demineralization of enamel.
    Materials and methods: Eighty human mandibular permanent molar teeth constituted the study group. All samples were subjected to storage in thymol, after which they were taken out to prepare alike proximal box in each. Inductions of artificial enamel surface lesions were done by placing the teeth in demineralizing solution for 96 hours. Subsequently, all 80 molars were randomly assigned to any of the four groups (i.e., 20 in every individual group) according to the restoration as group A: giomer (composite resin containing surface pre-reacted glass-ionomer fillers), group B: compomer (polyacid-modified composite resin), group C: resin-modified glass-ionomer cement (RMGIC), group D: fluoride-releasing composite. After this, the pH cycling was performed, and the samples were subjected to examination beneath scanning electron microscope (SEM).
    Results: Higher mean areas of remineralization were noted when RMGIC (96.34 ± 0.06) was used followed by the compomer (109.52 ± 0.17), giomer (118.39 ± 0.82), and the fluoride-releasing composite group (129.27 ± 0.31) in that order. A statistically significant difference was seen amid the investigational groups that utilized different restorative agents (
    Conclusion: This research infers that the RMGIC-treated samples exhibited significantly superior performance in preventing enamel demineralization in comparison to compomer, giomer as well as fluoride-releasing composites.
    Clinical significance: One among the highly frequently employed anticariogenic materials is fluorides. Owing to this characteristic, they are integrated into numerous restorative substances. Nevertheless, the quantity and speed of fluoride release differ in different agents, which translates to the efficacy of the restorative agent in avoiding demineralization about the restoration.
    MeSH term(s) Dental Enamel/pathology ; Fluorides/therapeutic use ; Glass Ionomer Cements/chemistry ; Glass Ionomer Cements/therapeutic use ; Humans ; Microscopy, Electron, Scanning ; Tooth Demineralization/prevention & control
    Chemical Substances Glass Ionomer Cements ; Fluorides (Q80VPU408O)
    Language English
    Publishing date 2021-11-01
    Publishing country India
    Document type Journal Article
    ISSN 1526-3711
    ISSN (online) 1526-3711
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Gap Junctions and Breast Cancer Dormancy.

    Sinha, Garima / Ferrer, Alejandra I / Moore, Caitlyn A / Naaldijk, Yahaira / Rameshwar, Pranela

    Trends in cancer

    2020  Volume 6, Issue 4, Page(s) 348–357

    Abstract: Breast cancer (BC) relapse, despite clinical advancement, remains one of the biggest issues in the field. Intercellular communication, specifically via connexin (Cx)-mediated gap junctions (GJs), play a key role in the long-term survival of these, ... ...

    Abstract Breast cancer (BC) relapse, despite clinical advancement, remains one of the biggest issues in the field. Intercellular communication, specifically via connexin (Cx)-mediated gap junctions (GJs), play a key role in the long-term survival of these, treatment-resistant breast cancer stem cells (CSCs), allowing for relapse. Both basic and clinical evidence reveal dual roles for GJs, in tumor suppression, generally referred to as dormancy, and progression and metastasis. GJ intercellular communication (GJIC) can be mediated by multiple types of Cxs, depending on the organ to which the BC cells metastasize. This review expands on the differential expression of Cx-mediated GJIC between CSCs and niche cells within a given microenvironment.
    MeSH term(s) Animals ; Antineoplastic Agents/pharmacology ; Antineoplastic Agents/therapeutic use ; Autophagy/drug effects ; Autophagy/immunology ; Breast/growth & development ; Breast/pathology ; Breast Neoplasms/drug therapy ; Breast Neoplasms/immunology ; Breast Neoplasms/pathology ; Cell Communication/drug effects ; Cell Communication/immunology ; Connexins/antagonists & inhibitors ; Connexins/drug effects ; Connexins/immunology ; Connexins/metabolism ; Disease Models, Animal ; Drug Resistance, Neoplasm/drug effects ; Drug Resistance, Neoplasm/immunology ; Female ; Gap Junctions/drug effects ; Gap Junctions/immunology ; Gap Junctions/pathology ; Humans ; Mammary Glands, Animal/growth & development ; Mammary Glands, Animal/pathology ; Mice ; Neoplasm Recurrence, Local/immunology ; Neoplasm Recurrence, Local/pathology ; Neoplasm Recurrence, Local/prevention & control ; Neoplastic Stem Cells/pathology ; Tumor Escape/drug effects ; Tumor Microenvironment/drug effects ; Tumor Microenvironment/immunology
    Chemical Substances Antineoplastic Agents ; Connexins
    Language English
    Publishing date 2020-02-20
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2852626-0
    ISSN 2405-8025 ; 2405-8033 ; 2405-8033
    ISSN (online) 2405-8025 ; 2405-8033
    ISSN 2405-8033
    DOI 10.1016/j.trecan.2020.01.013
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Increased expression of musashi 1 on breast cancer cells has implication to understand dormancy and survival in bone marrow.

    Nahas, George R / Sherman, Lauren S / Sinha, Garima / El Far, Markos H / Petryna, Andrew / Munoz, Steven M / Silverio, Kimberly A / Shaker, Maran / Neopane, Pujan / Mariotti, Veronica / Rameshwar, Pranela

    Aging

    2023  Volume 15, Issue 9, Page(s) 3230–3248

    Abstract: Breast cancer (BC) stem cells (CSCs) resist treatment and can exist as dormant cells in tissues such as the bone marrow (BM). Years before clinical diagnosis, BC cells (BCCs) could migrate from the primary site where the BM niche cells facilitate ... ...

    Abstract Breast cancer (BC) stem cells (CSCs) resist treatment and can exist as dormant cells in tissues such as the bone marrow (BM). Years before clinical diagnosis, BC cells (BCCs) could migrate from the primary site where the BM niche cells facilitate dedifferentiation into CSCs. Additionally, dedifferentiation could occur by cell autonomous methods. Here we studied the role of Msi 1, a RNA-binding protein, Musashi I (Msi 1). We also analyzed its relationship with the T-cell inhibitory molecule programmed death-ligand 1 (PD-L1) in CSCs. PD-L1 is an immune checkpoint that is a target in immune therapy for cancers. Msi 1 can support BCC growth through stabilization of oncogenic transcripts and modulation of stem cell-related gene expression. We reported on a role for Msi 1 to maintain CSCs. This seemed to occur by the differentiation of CSCs to more matured BCCs. This correlated with increased transition from cycling quiescence and reduced expression of stem cell-linked genes. CSCs co-expressed Msi 1 and PD-L1. Msi 1 knockdown led to a significant decrease in CSCs with undetectable PD-L1. This study has implications for Msi 1 as a therapeutic target, in combination with immune checkpoint inhibitor. Such treatment could also prevent dedifferentiation of breast cancer to CSCs, and to reverse tumor dormancy. The proposed combined treatment might be appropriate for other solid tumors.
    MeSH term(s) Humans ; Female ; B7-H1 Antigen/genetics ; Bone Marrow/pathology ; Breast Neoplasms/pathology
    Chemical Substances B7-H1 Antigen
    Language English
    Publishing date 2023-03-29
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 1945-4589
    ISSN (online) 1945-4589
    DOI 10.18632/aging.204620
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Secretome within the bone marrow microenvironment: A basis for mesenchymal stem cell treatment and role in cancer dormancy.

    Eltoukhy, Hussam S / Sinha, Garima / Moore, Caitlyn A / Gergues, Marina / Rameshwar, Pranela

    Biochimie

    2018  Volume 155, Page(s) 92–103

    Abstract: The secretome produced by cells within the bone marrow is significant to homeostasis. The bone marrow, a well-studied organ, has multiple niches with distinct roles for supporting stem cell functions. Thus, an understanding of mediators involved in the ... ...

    Abstract The secretome produced by cells within the bone marrow is significant to homeostasis. The bone marrow, a well-studied organ, has multiple niches with distinct roles for supporting stem cell functions. Thus, an understanding of mediators involved in the regulation of stem cells could serve as a model for clinical problems and solutions such as tissue repair and regeneration. The exosome secretome of bone marrow stem cells is a developing area of research with respect to the regenerative potential by bone marrow cell, particularly the mesenchymal stem cells. The bone marrow niche regulates endogenous processes such as hematopoiesis but could also support the survival of tumors such as facilitating the cancer stem cells to exist in dormancy for decades. The bone marrow-derived secretome will be critical to future development of therapeutic strategies for oncologic diseases, in addition to regenerative medicine. This article discusses the importance for parallel studies to determine how the same secretome may compromise safety during the use of stem cells in regenerative medicine.
    MeSH term(s) Animals ; Bone Marrow/metabolism ; Bone Marrow/pathology ; Cell Survival ; Humans ; Mesenchymal Stem Cells/metabolism ; Mesenchymal Stem Cells/pathology ; Neoplasms/metabolism ; Neoplasms/pathology ; Neoplasms/therapy ; Stem Cell Niche
    Language English
    Publishing date 2018-05-31
    Publishing country France
    Document type Journal Article ; Review
    ZDB-ID 120345-9
    ISSN 1638-6183 ; 0300-9084
    ISSN (online) 1638-6183
    ISSN 0300-9084
    DOI 10.1016/j.biochi.2018.05.018
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Immune modulation by a cellular network of mesenchymal stem cells and breast cancer cell subsets: Implication for cancer therapy.

    Eltoukhy, Hussam S / Sinha, Garima / Moore, Caitlyn A / Sandiford, Oleta A / Rameshwar, Pranela

    Cellular immunology

    2017  Volume 326, Page(s) 33–41

    Abstract: The immune modulatory properties of mesenchymal stem cells (MSCs) are mostly controlled by the particular microenvironment. Cancer stem cells (CSCs), which can initiate a clinical tumor, have been the subject of intense research. This review article ... ...

    Abstract The immune modulatory properties of mesenchymal stem cells (MSCs) are mostly controlled by the particular microenvironment. Cancer stem cells (CSCs), which can initiate a clinical tumor, have been the subject of intense research. This review article discusses investigative studies of the roles of MSCs on cancer biology including on CSCs, and the potential as drug delivery to tumors. An understanding of how MSCs behave in the tumor microenvironment to facilitate the survival of tumor cells would be crucial to identify drug targets. More importantly, since CSCs survive for decades in dormancy for later resurgence, studies are presented to show how MSCs could be involved in maintaining dormancy. Although the mechanism by which CSCs survive is complex, this article focus on the cellular involvement of MSCs with regard to immune responses. We discuss the immunomodulatory mechanisms of MSC-CSC interaction in the context of therapeutic outcomes in oncology. We also discuss immunotherapy as a potential to circumventing this immune modulation.
    MeSH term(s) Breast Neoplasms/immunology ; Breast Neoplasms/pathology ; Breast Neoplasms/therapy ; Cell Communication/immunology ; Cell Survival/immunology ; Humans ; Mesenchymal Stem Cells/immunology ; Models, Immunological ; Neoplastic Stem Cells/immunology ; Signal Transduction/immunology ; Tumor Microenvironment/immunology
    Language English
    Publishing date 2017-08-01
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 80094-6
    ISSN 1090-2163 ; 0008-8749
    ISSN (online) 1090-2163
    ISSN 0008-8749
    DOI 10.1016/j.cellimm.2017.07.011
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Cycling Quiescence in Temozolomide Resistant Glioblastoma Cells Is Partly Explained by microRNA-93 and -193-Mediated Decrease of Cyclin D.

    Munoz, Jessian L / Walker, Nykia D / Mareedu, Satvik / Pamarthi, Sri Harika / Sinha, Garima / Greco, Steven J / Rameshwar, Pranela

    Frontiers in pharmacology

    2019  Volume 10, Page(s) 134

    Abstract: Glioblastoma multiforme (GBM) is a fatal malignancy of the central nervous system, commonly associated with chemoresistance. The alkylating agent Temozolomide (TMZ) is the front-line chemotherapeutic agent and has undergone intense studies on resistance. ...

    Abstract Glioblastoma multiforme (GBM) is a fatal malignancy of the central nervous system, commonly associated with chemoresistance. The alkylating agent Temozolomide (TMZ) is the front-line chemotherapeutic agent and has undergone intense studies on resistance. These studies reported on mismatch repair gene upregulation, ABC-targeted drug efflux, and cell cycle alterations. The mechanism by which TMZ induces cell cycle arrest has not been well-established. TMZ-resistant GBM cells have been linked to microRNA (miRNA) and exosomes. A cell cycle miRNA array identified distinct miRNAs only in exosomes from TMZ-resistant GBM cell lines and primary spheres. We narrowed the miRs to miR-93 and -193 and showed in computational analyses that they could target Cyclin D1. Since Cyclin D1 is a major regulator of cell cycle progression, we performed cause-effect studies and showed a blunting effects of miR-93 and -193 in Cyclin D1 expression. These two miRs also decreased cell cycling quiescence and induced resistance to TMZ. Taken together, our data provide a mechanism by which GBM cells can exhibit TMZ-induced resistance through miRNA targeting of Cyclin D1. The data provide a number of therapeutic approaches to reverse chemoresistance at the miRNA, exosomal and cell cycle points.
    Language English
    Publishing date 2019-02-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587355-6
    ISSN 1663-9812
    ISSN 1663-9812
    DOI 10.3389/fphar.2019.00134
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article: Impact of Salt Stress on Different Varieties of Palmarosa During Seed Germination

    Sinha, Garima / Birendra Kumar / D.K. Srivastava / Govind Ram / Himanshi Mali

    Journal of essential oil-bearing plants. 2016 May 18, v. 19, no. 4

    2016  

    Abstract: Palmarosa (Cymbopogon martinii (Roxb.) Wats.) is an essential oil bearing perennial crop having geraniol and geranyl acetate in its oil, widely used in cosmetic and perfumery industries. An experiment was conducted to determine germination percentage and ...

    Abstract Palmarosa (Cymbopogon martinii (Roxb.) Wats.) is an essential oil bearing perennial crop having geraniol and geranyl acetate in its oil, widely used in cosmetic and perfumery industries. An experiment was conducted to determine germination percentage and seedling vigor index in PRC-1, Trishna and Tripta varieties of Palmarosa at KCl salt concentrations of 0 mM, 50 mM, 100 mM and 150 mM in Petri-dishes coupled with 16 hrs light and 8 hrs dark photoperiod placed at 25°C temperature. The highest percentage of germination and seedling vigor index I and II was observed in control followed by 50 mM, 100 mM and 150 mM. Germination percentage, seedling vigor index I and II decreased as KCl concentration increased. Highest KCl salt tolerance potential was showed by variety Trishna followed by PRC-1 and Tripta. Varieties PRC-1 and Tripta have salt tolerance potential up to 50 mM while Trishna have up to 150 mM KCl concentration. The result of our study suggests that farmers can raise Palmarosa nursery in normal soil condition and transplant it in soil salinity upto 50 mM KCl concentration. Hence, we suggest that in the nursery more than 50 mM salinity soils should be avoided except variety Trishna which can be grown up to 100 mM KCl concentration at 25°C.
    Keywords acetates ; Cymbopogon martinii ; essential oils ; farmers ; geraniol ; industry ; oils ; photoperiod ; potassium chloride ; salinity ; salt stress ; salt tolerance ; seed germination ; seedlings ; soil quality ; soil salinity ; temperature ; vigor
    Language English
    Dates of publication 2016-0518
    Size p. 1025-1030.
    Publishing place Taylor & Francis
    Document type Article
    ISSN 0976-5026
    DOI 10.1080/0972060X.2016.1194774
    Database NAL-Catalogue (AGRICOLA)

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