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Penerapan Metode K-Means untuk Evaluasi Senyawa Anti Kanker Berdasarkan Kajian Proteomik Sel MCF7 Mochammad Pratama Viadi; Marji Marji; Sri Widyarti
Jurnal Pengembangan Teknologi Informasi dan Ilmu Komputer Vol 3 No 5 (2019): Mei 2019
Publisher : Fakultas Ilmu Komputer (FILKOM), Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (447.078 KB)

Cancer is a disease that originates from several body cells that can divide without stopping and can spread to surrounding tissues. Then split cell will attack and damage the surrounding tissue. Especially in breast cancer or occupying the top level in cancer. This cancer originates from a glandular tract in the breast which declared a malignant tumor. In the detection this disease can use bioinformatics techniques, namely proteomic studies. Output produced is a grouping of the results of the anti-cancer process on the development of cancer in the form of clustering using the K-Means process which is divided into 2, active and inactive. The results of system testing were carried out using Silhoutte Coefficient and Precision Recall Accuracy. In the Silhoutte Coefficient test getting the optimal cluster is 5 with a value of 0.6827. Whereas in testing the Precision Recall Accuracy, the Precision value was 67.59%, the Recall value was 79.57%, and the accuracy rate was at 57.71%. Using 10-fold cross validation get an average accuracy of 62.26%.

Adaptive Immune Response Stimulation on Nephrolithiasis Mice Model after Treatment of Tempuyung (Sonchus arvensis L.) Leaf Extract Khoirin Maghfiroh; Muhaimin Rifa'i; Sri Widyarti
The Journal of Experimental Life Science Vol. 4 No. 2 (2014)
Publisher : Postgraduate School, Universitas Brawijaya

Calcium crystal accumulation on kidney can cause kidney stone (nephrolithiasis). The oxalate calcium crystal which is deposite on the kidney can trigger inflammation on the epithelial that is able to induce cells death (necrosis). The necrosis is able to cause inflammation and it will affect the body's immune system. Infection agent that comes to the body will be responded by the innate immunity which will be responded later by adaptive immunity. One of herbal agent that is expected to be used to stimulate adaptive immunity response is Tempuyung (Sonchus arvensis) leaf extract. The aim of this study is to find out the change of relative amount of CD4+ T cells, CD8+ T cells, and B (B220) cells on nephrolithiasis mice model after S.arvensis leaf extract. The mice are divided into six groups; control group, placebo, nephrolithiasis, S.arvensis leaf extract for 7 days, nephrolithiasis then it is continued with S.arvensis leaf extract for 7 days, and simultaneous (nephrolithiasis and S.arvensis leaf extract for 3 months). The amount of relative T lymphocyte cells is measured by using BD FACSCalibur FlowcytometerTM. The data is analyzed by using ANOVA one way (p<0.05) using SPSS 16.0 software for Windows. The result shows that there are changes of relative CD4+ T cells, CD8+ T cells, and B (B220) cells on nephrolithiasis mice model after the giving of S.arvensis leaf extract. The treatment of S.arvensis leaf extract on the nephrolithiasis mice model can stimulate the homeostatic activity by suppressing the B cells. Compound of S.arvensis leaf extract that can inhibit of Th1 cells and the increase of Th2 cells by proliferation cells activity. The treatment of S.arvensis leaf extract for 7 days can suppress CD4+. The S.arvensis leaf extract can stimulate adaptive immune response which is caused by immunomodulatory active component.Keywords: Nephrolithiasis, Sonchus arvensis L., leaf extract, adaptive immune response.

The Immunomodulatory Effect of Elephantopus scaber and Sauropus androgynus Extract to Cellular Immune Response in Pregnant Mus muscullus Infected by Salmonella typhimurium Nur Jannah; Moch. Sasmito Djati; Sri Widyarti
The Journal of Experimental Life Science Vol. 6 No. 1 (2016)
Publisher : Postgraduate School, Universitas Brawijaya

Pregnancy has a high risk and is more susceptible to infectious diseases. E. scaber and S. androgynus contains saponins and flavonoids as an immunomodulatory that can increase the body's immunity. The purpose of this study is to determine the immunomodulatory effects of E. scaber and S. androgynus leaf extract against cellular immune response in pregnant mice infected S. typhimurium. This research used seven treatment groups including negative control (K-) mice without injected S. typhimurium, positive control (K+) mice were injected S. typhimurium and extract treatment with 5 variant doses and dissected on the 12th and 18th days. Lymphocytes was isolated from the blood, then relative number of CD4+ and CD8+ were analyzed with flow cytometry and data continued with ANOVA. Statistical analysis showed that different extract dose and duration of treatment had a significant effect on the number of CD4+ and CD8+ T cells. E. scaber and S. androgynus act as immunomudulatory effect and treatment with combination of extracts E. scaber and S. androgynus 50 mg.kg-1 BW + 112.5 mg.kg-1 BW respectively and treatment with extract of S. androgynus 150 mg.kg-1 BW are the optimum treatment which can restore immune system conditions such as normal pregnancy without infection.Keywords: Cellular Immune, E. scaber, Immunomodulatory, S. androgynus, S. typhimurium.

The effect of Phyllanthus niruri and Catharanthus roseus on Macrophage Polarization in Breast Cancer Mice Model: The Effect of P. niruri and C. roseus in Breast Cancer Mice Model Sakti, Sefihara Paramitha; Sari, Fikriya Novita; Rachmawati, Farida; Widyarti, Sri; Rahayu, Sri; Soewondo, Aris; Jatmiko, Yoga Dwi; Rifa'i, Muhaimin
Journal of Tropical Life Science Vol. 14 No. 1 (2024)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.14.01.03

Cancer death cases have increased yearly, and there are estimated to be 21.6 million cancer cases in 2030. Studies of herbal compounds for cancer treatment alternatives are essential because cancer treatment is relatively expensive and has adverse effects. Phyllanthus niruri (Pn) and Catharanthus roseus (Cr) are plants that are known as herbal medicines. Combining the two plants is expected to prevent and enhance the immune system in breast cancer cases. This study aims to analyze the anti-cancer and immunomodulatory effects of P. niruri and C. roseus extract (PCE) in modulating macrophage polarization in breast cancer mice. Experimental animals are divided into six groups and there is healthy control (normal mice), cancer (DMBA-induced mice), cancer mice with cisplatin administration, cancer mice with PCE administration with three different doses, including dose 1 (500 mg/kg Pn + 15 mg/kg Cr), dose 2 (1000 mg/kg Pn + 75 mg/kg Cr), and dose 3 (2000 mg/kg Pn + 375 mg/kg Cr). The mice were injected with DMBA once a week for six weeks to induce cancer in mice. The breast cancer mice model was administered with PCE orally for 14 days. The expression of CD11b+IL-10+ and CD11b+IFN-γ+ demonstrated macrophage polarization. The results showed that breast cancer induction using DMBA increased the level of IL-10 and decreased the level of IFN-γ significantly compared to the normal group (p < 0.05). In specific doses, administration of PCE could reduce IL-10 levels and increase the level of IFN-γ significantly (p < 0.05). PCE can modulate the polarization of macrophages by suppressing the M2-like macrophage and increasing the M1-like macrophage. The ability of PCE to modulate macrophage polarization indicates that the combination of P. niruri and C. roseus has activity as an anti-cancer.

In silico study of active compounds ADMET Profiling in Curcuma xanthorrhiza Roxb and Tamarindus indica as Tuberculosis Treatment Sherry Aristyani; M. Irsyad Nur; Sri Widyarti; Sutiman B. Sumitro
Jurnal Jamu Indonesia Vol. 3 No. 3 (2018): Jurnal Jamu Indonesia
Publisher : Tropical Biopharmaca Research Center, IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/jji.v3i3.67

Curcuma xanthorrhiza Roxb and Tamarindus indica L. have been used for a long time by Indonesia local societies as tuberculosis therapy. This study explores the active compounds of Curcuma xanthorrhiza Roxb and Tamarindus indica L that important for suppressing the survival of Mycobacterium tuberculosis and predicts the pharmacokinetics and toxicity of the compounds. stringApp of Cytoscape 3.6.0 was used for screening the compounds targeting mycobacteria proteins, then computational tools like SwissADME (http://swissadme.ch/) and admetSAR (http://lmmd.ecust.edu.cn/admetsar1/predict/) were applied for estimating absorption, distribution, metabolism, excretion, and toxicity (ADMET) of active compounds. The result has been shown that there were some active compounds could target proteins of Mycobacterium tuberculosis. According to the profiling result, these compounds had a various characteristic in gastrointestinal absorption, could pass the blood-brain barrier, and had drug-like properties. In toxicity term, the active compounds did not cause Ames toxicity.

Potential of Kesambi Active Compound (Schleichera oleosa) as Antagonist G-Protein Estrogen Receptor 1 (GPER1) by In Silico Radita Intan Aisyah Pratiwi; Widyarti, Sri; Sumitro, Sutiman Bambang
The Journal of Experimental Life Science Vol. 13 No. 1 (2023)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jels.2023.013.01.07

Tamoxifen is a treatment for breast cancer patients which can cause side effects of endometrial cancer because it acts as a GPER1 agonist. Active compounds from Schleichera oleosa are known to have anticancer potential, such as schleicheol and schleicherastatin, especially their ability to prevent cell proliferation. This research conducted an in silico study to determine the potential of the active compound from S. Oleosa as a GPER1 inhibitor. In silico studies include molecular docking and molecular dynamics. The data obtained are binding affinity values, potential energy, RMSD, RMSF, and conformational changes. Active compound candidates with the lowest binding affinity were selected, namely Schleicheol 1 (SCL1), Lupeol (LU), Lupeol acetate (LA), Betulinic acid (BA), and Schleicherastatin 3 (SCR3) with an order of score -8.6, - 8.5, -8.4, -8.4 and -8.4 kcal.mol-1. When complexed with GPER1-Estradiol and GPER1-Tamoxifen, the lowest binding affinity was LU (-8.6 and -8.7 kcal.mol-1). LU binds to the same amino acid as Estradiol and Tamoxifen, namely Leu:271. Based on molecular dynamics, RMSD All (receptor complex) ranged from 3,723 to 5,098 Å, above the normal limit of 3 Å. However, RMSD All shows stability starting from 1.5 ns so that the resulting data can be used. The RMSF value showed higher fluctuations than Tamoxifen at the same binding site as Tamoxifen, including SCL1-T, LU-T, LA-T, and BA-T, which can interfere with the function of the GPER1 receptor. LU, LA, BA, SCL1-T LU-T, and LA-T with GPER1 produce the same structural changes as G15 as GPER1 antagonists. The active compound, especially lupeol, which has the lowest binding affinity, is predicted to have the potential to inhibit GPER1 in silico so that it can be proposed for further testing. Keywords: Endometrial Cancer, GPER1, Schleichera oleosa, Tamoxifen.

Influence of Marsilea crenata and Alpinia purpurata Ethanol Extract on MDA and SOD Testicular Cells of Hyperglycemia Mice Damayanti, Febriane Eka; Rahayu, Sri; Widyarti, Sri
The Journal of Experimental Life Science Vol. 13 No. 3 (2023)
Publisher : Graduate School, Universitas Brawijaya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jels.2023.013.03.04

Hyperglycemia can induce testicular damage that leads to male infertility. Herbal plants, such as Marsilea crenata and Alpinia purpurata, are used for antioxidant defense systems to repair reproductive disorders due to hyperglycemia. This study aims to evaluate the effect of M. crenata and A. purpurata ethanol extracts on MDA and SOD testes of hyperglycemia mice. This study used a completely randomized design with seven treatment groups (n=4), namely N (control group), H (hyperglycemia mice), Met (hyperglycemia mice given metformin), D1 (0. 09 mg.g-1 M. crenata), D2 (0.2 mg.g-1 A. purpurata), D3 (0.09 mg.g-1 M. crenata + 0.2 mg.g-1 A. purpurata), and D4 (0.09 mg.g-1 M. crenata + 0.4 mg.g-1 A. purpurata). The extracts were administered orally for 17 days. Analysis of testicular MDA and SOD levels was performed by flow cytometry. Data analysis was performed with a one-way ANOVA test and continued with the Tukey test. The results showed that the D4 treatment group, compared to D3, D2, D1, Met, H, and N, showed a better decrease in MDA levels (4.47%) and an increase in SOD levels in the D4 group (4.77%). The research concludes that the combination of 0.09 mg.g-1 M. crenata and 0.4 mg.g-1 A. purpurata was an optimal dose to decrease MDA levels and increase SOD levels in the testes of hyperglycemic mice. Keywords: Alpinia purpurata, Marsilea crenata, MDA, SOD, testes.

Analysis Activity of Elephantopus scaber Leaves Extract Against Quantitative Changes of Lymphocytes Cells in BALB/c Mice After Induction of DMBA and Estrogen Rochmatika, Lailiyavina; Widyarti, Sri; Djati, Muhammad Sasmito
The Journal of Experimental Life Science Vol. 9 No. 3 (2019)
Publisher : Graduate School, Universitas Brawijaya

The carcinogenic compounds such as DMBA known for having the ability to promote the DNA damage that affects the growth regulator genes. Therefore, uncontrolled cell growth will occur and change the immune system. Elephantopus scaber extract is considered as an alternative way of handling breast cancer since it capable to affect the work of the immune system. Hence, this study aims to determine the effect of E. scaber extract on quantitative changes of CD4+, CD8+ T cells and proinflammatory cytokines CD4+IFNγ+ and CD4+TNF-α+ after induction of DMBA and estrogen. In vivo experiments were carried out by using 5-6 weeks old of female mice BALB/c strain. The extract of E. scaber leaf powder was obtained from Material Medica Batu, Malang. The experimental animals were divided into five groups such as negative control group (K-), positive control group (K+), mice treated with E. scaber extract for a week (group 1), mice treated with E. scaber extract for 2 weeks (group 2), and mice treated with E. scaber extract for 3 weeks (group 3). Induction of DMBA and estrogen was conducted by injection of DMBA (7.12 dimetylbenz (α) anthracene) 0.56 mg.kgBW-1 and estradiol hormone 0.0504 mg.kgBW-1. Mice were treated with E. scaber extract with a dose of 50 mg.kgBW-1. Lymphocytes were isolated from spleen and observed the CD4+, CD8+ T cells and proinflammatory cytokines CD4+IFN-γ+ and CD4+TNFα+ T cells through flow cytometry analysis. One-way ANOVA (p <0.05) and SPSS were used to analyze this data. The results showed that the induction of DMBA and estradiol hormone affected mice fur loss. It also decreased the immune system by lowering the number of CD4 and CD8 T cells. However, E. scaber extracts increased the number of pro-inflammatory cytokines TNF-α. Furthermore, the DMBA and estradiol induction also promoted the number of CD4+IFN-γ+ in the first week, but decreased the number of CD4+IFN-γ+ at weeks 2 and 3, then increase the number of CD4+IFN-γ+. So, the treatment of E. scaber extracts demonstrated the ability to restore the homeostasis of the immune system in the first and second weeks. Keywords: CD4+, CD8+, DMBA, estrogen, E.scaber, IFN-γ+, TNF-α+

The effect of Phyllanthus niruri and Catharanthus roseus on Macrophage Polarization in Breast Cancer Mice Model: The Effect of P. niruri and C. roseus in Breast Cancer Mice Model Sakti, Sefihara Paramitha; Sari, Fikriya Novita; Rachmawati, Farida; Widyarti, Sri; Rahayu, Sri; Soewondo, Aris; Jatmiko, Yoga Dwi; Rifa'i, Muhaimin
Journal of Tropical Life Science Vol. 14 No. 1 (2024)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.14.01.03

Cancer death cases have increased yearly, and there are estimated to be 21.6 million cancer cases in 2030. Studies of herbal compounds for cancer treatment alternatives are essential because cancer treatment is relatively expensive and has adverse effects. Phyllanthus niruri (Pn) and Catharanthus roseus (Cr) are plants that are known as herbal medicines. Combining the two plants is expected to prevent and enhance the immune system in breast cancer cases. This study aims to analyze the anti-cancer and immunomodulatory effects of P. niruri and C. roseus extract (PCE) in modulating macrophage polarization in breast cancer mice. Experimental animals are divided into six groups and there is healthy control (normal mice), cancer (DMBA-induced mice), cancer mice with cisplatin administration, cancer mice with PCE administration with three different doses, including dose 1 (500 mg/kg Pn + 15 mg/kg Cr), dose 2 (1000 mg/kg Pn + 75 mg/kg Cr), and dose 3 (2000 mg/kg Pn + 375 mg/kg Cr). The mice were injected with DMBA once a week for six weeks to induce cancer in mice. The breast cancer mice model was administered with PCE orally for 14 days. The expression of CD11b+IL-10+ and CD11b+IFN-γ+ demonstrated macrophage polarization. The results showed that breast cancer induction using DMBA increased the level of IL-10 and decreased the level of IFN-γ significantly compared to the normal group (p < 0.05). In specific doses, administration of PCE could reduce IL-10 levels and increase the level of IFN-γ significantly (p < 0.05). PCE can modulate the polarization of macrophages by suppressing the M2-like macrophage and increasing the M1-like macrophage. The ability of PCE to modulate macrophage polarization indicates that the combination of P. niruri and C. roseus has activity as an anti-cancer.

Employing SecA Recombinant Protein to Generate Polyclonal Antibodies for the Rapid Identification of Phytoplasma Fatinah, Arik Arubil; Rifa'i, Muhaimin; Arumingtyas, Estri Laras; Widyarti, Sri
Makara Journal of Science
Publisher : UI Scholars Hub

Show Abstract | Download Original | Original Source | Check in Google Scholar

Phytoplasma, a plant pathogen that threatens plant health, can induce diseases such as yellow wilt, virescence, phyllody, and witches’ broom. Although early detection methods using polyclonal and monoclonal antibodies have been developed, synthetic peptides offer advantages such as higher titers, predictable antigenic characteristics and superior sensitivity and specificity. Epitope mapping plays a key role in designing peptide antigens and includes gene synthesis, transformation, expression assessment, large-scale production, and purification. A study using New Zealand male White rabbits was conducted to generate antibodies against phytoplasma. The SecA (395–470) sequence, obtained from the preprotein translocase meets the criteria of being non-homologous, nonallergic, and antigenic. The three-dimensional structure of SecA (395–470) has a sequential similarity of 77–97% with certain phytoplasma types, and the protein purity exceeds 90%. The production of polyclonal antibodies was successful, achieving titers greater than 1:512,000. The SWISS model was used to predict the 3D structure of SecA in phytoplasma species, revealing structural homology with other phytoplasma species. The recombinant protein antigen SecA was able to induce high-titer antibody formation (>1:512.000). The developed lateral flow immunoassay (LFA) detects phytoplasma in plants using purified and conjugated antibodies. The peptide design, derived from Aster yellows witches-broom (SrI), effectively detects phytoplasma from various groups, especially Cactus witches’ broom phytoplasma (SrII-C) and Peanut witches’ broom phytoplasma (SrII-A). The SrI group phytoplasma was chosen as a reference sequence due to its` ability to infect plants across the broadest host range. LFIA was tested on samples from both phytoplasma-infected and healthy plants using nested PCR. The SecA sequence was successfully produced and used as an immunogen candidate against phytoplasmas.

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