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All Journal Media Penelitian dan Pengembangan Kesehatan Jurnal Biotek Medisiana Indonesia Global Medical and Health Communication Elkawnie Paediatrica Indonesiana Indonesian Journal of Global Health research Narra J Indonesian Journal of Cancer Jurnal Kefarmasian Indonesia
Vivi Setiawaty
Pusat Biomedis dan Teknologi Dasar Kesehatan
Biochemistry, Genetics & Molecular Biology Chemistry Decision Sciences, Operations Research & Management Dentistry Education Engineering Health Professions Immunology & microbiology Languange, Linguistic, Communication & Media Medicine & Pharmacology Nursing Public Health

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The Effect of Pretreatment Temperature in The Mycobacterium tuberculosis Extraction Method on DNA Quality Setianingsih, Tri Yuli; Fitri, Safira; Wahyono, Daniel Joko; Setiawaty, Vivi
Elkawnie: Journal of Islamic Science and Technology Vol 10, No 2 (2024)
Publisher : Universitas Islam Negeri Ar-Raniry Banda Aceh

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22373/ekw.v10i2.23062

Abstract

Abstract: The existing DNA extraction process for Mycobacterium tuberculosis employs a pretreatment step that may not function at its full potential. This inefficient process led to complications in subsequent analysis; thus, it is necessary to determine the successful extraction method with or without adding a pretreatment step. This study aims to determine the effect of temperature pretreatment on the extraction method of M. tuberculosis on the quality of DNA for WGS examination. The research design was analytically descriptive with a kit-based extraction method from ExiPrepTM Dx Mycobacteria Genomic DNA Kit (K-4418), Bioneer. The results of this study were that DNA purity did not differ (p = 0.959) between the pretreatment heating at 950 °C (2.88) and no heating at 950 °C (2.46). DNA concentration did not differ (p-value = 0.111) between pretreatment heating 950C (0.416 ng/µL) and no heating 950C (0.653 ng/µL). The relatively low DNA concentration resulted in the DNA bands not being visualized on agarose gel electrophoresis (0.8%). In conclusion, our study showed that the pretreatment heating step on M. tuberculosis DNA extraction does not affect DNA purity, concentration, or integrity. This inefficiency step can be discarded from the M. tuberculosis DNA extraction process to simplify the extraction processing. However, other extraction kit approaches need to be explored in future studies.Abstrak: Proses ekstraksi DNA Mycobacterium tuberculosis yang saat ini dilakukan memerlukan pretreatment yang mungkin tidak berpengaruh secara optimal. Proses yang tidak efisiensi berpengaruh terhadap analisis selanjutnya, sehingga perlu untuk mengetahui keberhasilan metode ekstraksi dengan penambahan proses pretreatment. Tujuan penelitian ini adalah untuk mengetahui pengaruh pretreatment suhu pada metode ekstraksi M. tuberkulosis terhadap kualitas DNA untuk pemeriksaan WGS. Desain penelitian adalah deskriptif analitik dengan metode ekstraksi berbasis kit dari ExiPrepTM Dx Mycobacteria Genomic DNA Kit (K-4418), Bioneer. Hasil penelitian adalah kemurnian DNA tidak berbeda (p=0,959) antara pretreatment pemanasan 950C (2,88) dengan tanpa pemanasan 950C (2,46). Konsentrasi DNA tidak berbeda (p value = 0,111) antara pretreatment pemanasan 950C (0,416 ng/µL) dengan tanpa pemanasan 950C (0,653 ng/µL). Konsentrasi DNA yang relatif rendah mengakibatkan pita DNA tidak tervisualisasi pada elektroforesis gel agarosa (0,8%). Kesimpulan dari penelitian  ini, bahwa langkah pemanasan awal pada ekstraksi DNA M. tuberkulosis tidak berpengaruh terhadap kemurnian, konsentrasi, dan integritas DNA. Langkah ini dapat dihilangkan dari proses ekstraksi DNA M. tuberkulosis untuk menyederhanakan proses ekstraksi. Namun, pendekatan kit ekstraksi lainnya perlu dieksplorasi dalam penelitian selanjutnya
Comparison of c-MYC Expression between Patients with Germinal Center and Non-Germinal Center B-cell-like Diffuse Large B Cell Lymphoma Hanum, Sitti Fatimah; Hardjolukito, Endang Sri Roostini; Kusmardi, Kusmardi; Murtiani, Farida; Widiantari, Aninda Dinar; Setiawaty, Vivi
Indonesian Journal of Cancer Vol 19, No 2 (2025): June
Publisher : http://dharmais.co.id/

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.33371/ijoc.v19i2.1277

Abstract

Background: c-MYC expression has been used as a prognostic marker to predict prognosis and determine therapeutic strategies in both Diffuse Large B Cell Lymphoma (DLBCL) subtypes. No study on c-MYC expression associated with DLBCL has ever been conducted in Indonesia. Our study aimed to evaluate differences in c-MYC expression in both DLBCL subtypes and assess the immunophenotype profile.Method: We selected 40 DLBCL cases and divided them into Germinal Center B-cell (GCB) and non-GCB subtypes using Hans Criteria. We evaluated c-MYC expression, and a cut-off value of 60.4% was determined using Receiver Operating Characteristic (ROC) curve analysis.Results: We found that c-MYC expression was significantly higher in GCB subtypes compared to non-GCB subtypes (n = 17 (42.5%) vs n = 20 (7.5%), p 0.000 and mostly had an immunophenotype of CD10+/BCL6+/MUM1+.Conclusion: Higher c-MYC expression is found more frequently in GCB subtypes. These findings suggest that c-MYC may play a subtype-specific role in DLBCL pathogenesis, potentially influencing therapeutic decisions for Indonesian patients. Future studies should validate these results in larger, multi-center cohorts and explore the mechanistic link between c-MYC and the GCB subtype and its clinical implications for targeted therapies.
Biomarkers for predicting COVID-19 mortality: A study at Sulianti Saroso Infectious Disease Hospital, Indonesia Maemun, Siti; Widiantari, Aninda D.; Murtiani, Farida; Herlina, Herlina; Tanjungsari, Dian W.; Wijiarti, Kunti; Pratiwi, Tiara Z.; Matondang, Faisal; Rusli, Adria; Rivaldiansyah, Rivaldiansyah; Tampubolon, Maria L.; Mariana, Nina; Setiawaty, Vivi; Purnama, Tri B.
Narra J Vol. 5 No. 2 (2025): August 2025
Publisher : Narra Sains Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.52225/narra.v5i2.1936

Abstract

The high transmissibility and mortality rates of the COVID-19 pandemic pose significant challenges. Patients can deteriorate rapidly, making it crucial to identify laboratory biomarkers for high-risk individuals. The aim of this study was to evaluate the predictive value of various laboratory parameters, including C-reactive protein (CRP), D-dimer, ferritin, neutrophil-to-lymphocyte ratio (NLR), prothrombin time (PT), and procalcitonin (PCT), in predicting COVID-19 mortality. A retrospective cohort study was conducted at Sulianti Saroso Infectious Disease Hospital, where COVID-19 patients were categorized into survivors and non-survivors. The Mann-Whitney test was used to assess group differences, while receiver operating characteristic (ROC) curve analysis was performed to evaluate the predictive performance of each biomarker, with Youden's index (J) determining optimal cut-off values. Kaplan-Meier analysis was used to compare median survival times, and Cox regression assessed hazard rates and the relationship between biomarkers and mortality. A total of 1,598 patients were analyzed, the majority of whom were admitted with oxygen saturation levels >95% and classified as having mild to moderate disease severity. Among them, 216 patients died, resulting in a mortality rate of 13.52%. Significant variations in mortality rates were observed along the survival functions for NLR, ferritin, D-dimer, CRP, and PCT (p<0.001). The survival curves for these biomarkers demonstrated distinct trends across tertiles over time. Among hematological markers, NLR was significantly associated with mortality (p<0.001), with a 1.5–2.2% increased risk per unit increase. Biochemical markers (complete blood count) proved to be more effective than hematological parameters (NLR, ferritin, PT, D-dimer, CRP, PCT) when evaluating individual prognostic performance. Bivariate analysis of CRP, D-dimer, ferritin, NLR, PT, and PCT between survivors and non-survivors showed significant differences. Notably, NLR and PCT were highly relevant for predicting disease prognosis and mortality, with sensitivity and specificity values exceeding 80%.
Macronutrient Intake Among Multidrug-Resistant Tuberculosis Patients in Three Referral Hospitals in Indonesia Mariana, Nina; Gayatri, Anggi; Widyahening, Indah Suci; Rosdiana, Ano; Setiawaty, Vivi; Ascobat, Purwantyastuti
Indonesian Journal of Global Health Research Vol 7 No 5 (2025): Indonesian Journal of Global Health Research
Publisher : GLOBAL HEALTH SCIENCE GROUP

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.37287/ijghr.v7i5.6624

Abstract

Poor nutritional status, such as macro- and micronutrient deficiencies, might lead to worse clinical outcomes in multidrug-resistant tuberculosis (MDR-TB) patients. This study aimed to describe the macronutrient intake among MDR-TB patients and then compare those findings with the Indonesian recommended dietary allowance (RDA). A cross-sectional study of MDR-TB outpatients aged 18-65 years treated with the nine- or 18-month regimens at the end of the first month of treatment was conducted. Macronutrient intake data were obtained from a food consumption survey (24-hour food recall) of MDR-TB outpatients that was conducted by interviewing, recording, and then analyzing using NutriSurvey software, and compared with the RDA of the Ministry of Health of Indonesia. There were 63 outpatients with MDR-TB. The mean age was 38 (SD 12) years, and most of the patients were male (58.7%). Nutritional status based on BMI < 18,5 kg/m2 was observed in 43 patients (68.3%). According to the survey, after the end of the first month of MDR-TB treatment, the median (min–max) daily intake of energy was 1386.5 (519.4 – 2963.6) kcal per day, and the mean of protein was 49.6 (SD 23.0) grams per day. The median (min-max) daily intake of fat was 43.0 (1.1-170.6) grams per day, and the mean carbohydrate was 209.16 (87.9) grams per day. The proportions of energy, protein, fat, and carbohydrate deficiency were 85,7%, 68,8%, 74,6%, 90,5%, respectively. Macronutrient intake among MDR TB patients in this study was lower than the Indonesian recommended dietary allowance. These findings indicate that additional food intake and dietary counseling are needed in MDR-TB patients in Indonesia.
Co-Authors Adria Rusli, Adria Agus Kosasih, Agus Agustiningsih -, Agustiningsih Agustiningsih Agustiningsih Anita Juniatiningsih Arie Ardiansyah Nugraha, Arie Ardiansyah Ascobat, Purwantyastuti Daniel Joko Wahyono Darmawan B Setyanto, Darmawan B Darmawan B. Setyanto, Darmawan B. David H Sidabutar, David H Dewi Lokida Eka Pratiwi Endang R Sedyaningsih Endang R. Sedyaningsih Endang Sri Roostini Hardjolukito Fera Ibrahim Fitri, Safira Gayatri, Anggi Hana Apsari Pawestri, Hana Apsari Hanum, Sitti Fatimah Herlina Herlina Herna -, Herna Holy A. Wibowo Indah S. Widyahening Jahiroh, Jahiroh Kartika D. Puspa Kartika Dewi Puspa Krisna N.A. Pangesti Krisna Nur Andriana Pangesti Kunti Wijiarti, Kunti Kusmardi Kusmardi Maemun, Siti Matondang, Faisal Mirna Robert D.R. van Beest Holle Murtiani, Farida Ni Ketut Susilarini Nike Susanti, Nike Nina Mariana, Nina PERTIWI, INTAN Pratiwi, Tiara Z. Purnama, Tri B. Rahyussalim Rahyussalim, Rahyussalim Reni Herman Renti Mahkota Ririn Ramadhany Rivaldiansyah, Rivaldiansyah rosamarlina, rosamarlina Rosdiana, Ano Saptuti Chunaeni, Saptuti Setianingsih, Tri Yuli Sheila Kadir, Sheila Sinta Purnamawati Tampubolon, Maria L. Tanjungsari, Dian W. Titi Sundari Tjahyani M. Sudiro Tri Kurniawati, Tri Widiantari, Aninda D. Widiantari, Aninda Dinar Wignjadiputro, Ira Yuyun SM Soedarmono, Yuyun SM