Sırma Tarım, Burcu
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Tarim, Burcu Sirma
Sirma Tarim, Burcu
Tarım, Burcu Sırma
Sirma Tarim, Burcu
Tarım, Burcu Sırma
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Email Address
burcusirma@iyte.edu.tr
Main Affiliation
03.02. Department of Chemical Engineering
Status
Current Staff
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WoS Researcher ID
Sustainable Development Goals
1NO POVERTY
0
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2ZERO HUNGER
0
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3GOOD HEALTH AND WELL-BEING
2
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4QUALITY EDUCATION
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5GENDER EQUALITY
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6CLEAN WATER AND SANITATION
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7AFFORDABLE AND CLEAN ENERGY
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8DECENT WORK AND ECONOMIC GROWTH
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9INDUSTRY, INNOVATION AND INFRASTRUCTURE
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10REDUCED INEQUALITIES
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11SUSTAINABLE CITIES AND COMMUNITIES
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12RESPONSIBLE CONSUMPTION AND PRODUCTION
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13CLIMATE ACTION
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14LIFE BELOW WATER
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15LIFE ON LAND
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16PEACE, JUSTICE AND STRONG INSTITUTIONS
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17PARTNERSHIPS FOR THE GOALS
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Scholarly Output
7
Articles
5
Views / Downloads
17903/564
Supervised MSc Theses
0
Supervised PhD Theses
1
WoS Citation Count
48
Scopus Citation Count
56
Patents
0
Projects
0
WoS Citations per Publication
6.86
Scopus Citations per Publication
8.00
Open Access Source
2
Supervised Theses
1
| Journal | Count |
|---|---|
| Separation Science and Technology | 2 |
| ACS Applied Nano Materials | 1 |
| Advanced Materials Interfaces | 1 |
| Soft Matter | 1 |
Current Page: 1 / 1
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7 results
Scholarly Output Search Results
Now showing 1 - 7 of 7
Article Citation - WoS: 7Citation - Scopus: 11Hydrophobic Deep Eutectic Solvent Effect on Acrylic Acid Separation From Aqueous Media by Using Reactive Extraction and Modeling With Response Surface Methodology(Taylor & Francis, 2022) Lalikoğlu, Melisa; Aşçı, Yavuz Selim; Sırma Tarım, Burcu; Yıldız, Mahmut; Arat, RefikHydrophobic deep eutectic solvents (HDES) are new-generation green solvents that have emerged in recent years. In this study, the efficiency of using HDES as a solvent in separating acrylic acid from its aqueous solution by reactive extraction method was investigated. As a solvent, HDES prepared with a mixture of TOPO and menthol has been used for the recovery of acrylic acid for the first time. Physical properties of HDES mixtures such as density, viscosity, and refractive index were determined. In reactive extraction experiments, TOPO, one of the two basic components in the solvent, was also employed as an extractant. With the help of response surface methodology based on Box-Behnken design, the effect of the parameters of amount of extractant (0.1–0.9 g), Menthol/TOPO molar ratio (2–4), and initial acid concentration (3–9%) on the distribution coefficient was investigated and the model equation was formed. The highest distribution coefficient (D = 7.8) was achieved with the molar ratio of Menthol/TOPO is 2. Upon examining all the results obtained, it was seen that more than 90% of acrylic acid could be extracted from the aqueous phase to the organic phase.Article Citation - WoS: 2Citation - Scopus: 2Integration of Leu-Asp Cell Attachment Motif Into Self-Assembling Peptide Sequences for Nanofibrillar Hydrogel Formation in Wound Healing(Amer Chemical Soc, 2025) Tarim, Burcu Sirma; Sırma Tarım, Burcu; Tamburaci, Sedef; Top, Ayben; Uysal, Berk; Top, AybenFunctionalizing peptide sequences with cell adhesion motifs enhances their cellular bioactivity. Numerous studies have focused on incorporating the Arg-Gly-Asp (RGD) motif into peptide hydrogels; however, the integration of other bioactive domains has yet to be comprehensively investigated. In this study, one of the essential fibronectin-derived cell-binding domains, Leu-Asp-Val (LDV), was integrated into the self-assembling peptide to obtain extracellular matrix (ECM)-mimetic nanofibrillar hydrogelators. IBP1A (NH2-KLDVKLDVKLKV-CONH2) and IBP1B (NH2-KLDVKLDVKLDV-CONH2) peptides were designed accordingly. These peptides self-assemble into hydrogels in phosphate-buffered saline (PBS) at pH 7.4 and deionized water at neutral pH with storage modulus values between similar to 200 and similar to 2000 Pa. Flow curves and the cyclic strain sweep data confirmed that the hydrogels have shear thinning, injectability, and self-healing properties. Flexible nanofibrillar morphology was observed in the TEM images. Nanofibril widths of IBP1A and IBP1B networks were measured as 8.2 +/- 1.1 and 4.5 +/- 0.8 nm, respectively. In vitro tests were also conducted to evaluate these peptides in wound healing applications. The IBP1A peptide with a +3 charge at neutral pH exhibited modest antibacterial activity against Gram (+) and Gram (-) bacteria. In vitro cell culture experiments show that the IBP1A and IBP1B hydrogels promoted the growth of fibroblast cells and glycosaminoglycan secretion compared with the KLDL12 control peptide, which does not contain the LDV motif. The designed hydrogels induced cell attachment within 72 h by altering the cell morphology similar to their natural 3D microenvironment, whereas cells exhibited spindle-like morphology on the KLDL12 hydrogel and tissue culture polystyrene (TCP). Moreover, IBP1B accelerated in vitro wound healing by facilitating fibroblast migration. These results suggest that these bioactive injectable peptide hydrogels have potential in wound healing and skin tissue regeneration.Article Development of Self-Assembled Peptide Hydrogels Containing Matrix-Metalloproteinase Degradable Motifs for 3D Lung Cancer Models(Royal Society of Chemistry, 2026) Tarim, Burcu Sirma; Tamburaci, Sedef; Top, AybenHydrogel-forming peptides, including matrix metalloproteinase (MMP)-degradable motifs, have been employed to investigate cell-extracellular matrix interactions in vitro. However, their potential in 3D cancer models has been explored only in a few studies. In this study, we used modified MMP-2 degradable motifs (VSLRA or ASLRA) in the design of EDP1 (RVSLRADARVSLRADA) and EDP2 (RASLRADARASLRADA) peptide hydrogelators. The peptides self-assembled into nanofibrillar hydrogels with storage moduli between similar to 300 and similar to 400 Pa. MMP-2 degradation properties of the peptides were confirmed, and a slightly higher MMP-2 responsiveness of the EDP1 hydrogel was observed. The hydrogels were used in the encapsulation of A549 lung adenocarcinoma cancer cells and MRC-5 human lung fibroblast cells. The designed hydrogels supported the proliferation of these cells with high viability and induced cluster formation of encapsulated A549 cells similar to that observed with the RADA hydrogel. However, the hydrogel network structure affected the morphology of the migrated cells in the absence of curcumin. The addition of curcumin decreased the migration and invasion of A549 cells, resulting in a round cell morphology independent of the hydrogel matrices. Anticancer drug tests indicated that cell viability after drug treatment was higher in the 3D hydrogels than in 2D cultures. It was also confirmed that the combinational therapy of doxorubicin and curcumin decreased the cell proliferation and colonization to a greater extent compared to doxorubicin monotherapy. Thus, the hydrogels developed in this study can be used for 3D cancer models or other tissue engineering applications as an alternative to the RADA hydrogel by exploiting the MMP-2 degradation properties.Conference Object Bioactive Self-Assembled Peptide Hydrogels for 3d Cancer Model Applications(Wiley, 2024) Tarim, Burcu Sirma; Tamburaci, Sedef; Top, AybenDoctoral Thesis Biyoaktif Motifler İçeren Kendiliğinden Düzenlenen Peptit Hidrojellerin Geliştirilmesi(2025) Tarım, Burcu Sırma; Top, AybenAlternatif hidrofobik ve hidrofilik amino asitlere ve spesifik yük dağılımlarına sahip peptitler, kendiliğinden düzenlenerek bir araya gelerek hücre dışı matrise (ECM) benzer yapılar oluşturabilir. Peptit hidrojelatörlere hücre yapışma ve enzimatik olarak bozunabilir motifler gibi biyoaktif ipuçları eklenerek ECM benzeri özellikler geliştirilebilir. Çok sayıda çalışma, RGD hücre bağlanma motifi ile işlevselleştirilmiş peptit hidrojellere odaklanmıştır. Bu çalışmanın amacı, peptit hidrojelatörlere alternatif biyoaktif motifler ekleyerek, bu yapıların fizikokimyasal ve biyolojik özelliklerini değerlendirmektir. Bölüm 2'de, yara iyileşmesini hızlandırma potansiyeline sahip α4β1 integrin bağlayıcı LDV dizini ile işlevselleştirilmiş, enjekte edilebilir ve kendi kendini iyileştiren peptit hidrojeller yara iyileştirme uygulamaları için test edilmiştir. Bölüm 3 ve 4'te, hücre yapışma motiflerine (LDV+IKVAV) ve matris metalloproteinaz-2 bozunur dizinlere (VSLRA veya ASLRA) sahip peptit hidrojeller geliştirilmiş ve bu hidrojeller kanser hücrelerinin antikanser ilaç yanıtını değerlendirmek amacıyla 3B akciğer kanseri modelleri olarak incelenmiştir. Peptitler, katı faz peptit sentezi yöntemiyle sentezlenmiş ve saflıkları doğrulanmıştır. Hidrojellerin yapısal, morfolojik ve viskoelastik özellikleri belirlenmiştir. İn vitro hücre kültürü çalışmaları, LDV içeren hidrojellerin fibroblast hücrelerinin büyümesini, yapışmasını, migrasyonunu ve glikozaminoglikan salgılanmasını artırmıştır ve bu hidrojellerin yara iyileşmesini destekleyici potansiyellerini göstermektedir. Bölüm 3 ve 4'te geliştirilen hidrojeller, içerisinde enkapsüle edilen A549 akciğer kanseri hücrelerinin çoğalmasını, sferoid oluşumunu ve invazyonunu desteklemiştir. 3B matrislerde kültive edilen hücreler gelişmiş hücre-hücre etkileşimlerine sahip oldukları için yüksek antikanser ilaç direnci sergilemişlerdir. Dolayısıyla, bu biyoaktif hidrojeller kanser mekanizmalarının in vitro olarak incelenmesi ve antikanser ilaç taramaları için umut verici bir platform sunmaktadır.Article Citation - WoS: 9Citation - Scopus: 10Investigation of Reactive Extraction of Monocarboxylic Acids With Menthol-Based Hydrophobic Deep Eutectic Solvent by Response Surface Methodology(Taylor & Francis Inc, 2023) Yıldız, Esra; Lalikoğlu, Melisa; Aşçı, Yavuz Selim; Sırma Tarım, BurcuThe growing demand for producing organic acids by fermentative techniques has increased the significance of separating carboxylic acids from their fermentation broth with the reactive extraction process. Considering the environmental impacts, deep eutectic solvents can be considered as a potential green alternative for the replacement of volatile organic solvents commonly used in the extraction process. In this study, a new type of green solvent named hydrophobic deep eutectic solvent (HDES) based on decanoic acid as a hydrogen bond acceptor and menthol as a hydrogen bond donor was utilized for the reactive extraction of formic, acetic, and propionic acids from their aqueous solutions. The effect of initial acid concentration, HDES molar ratio, and tri-n-octyl amine (TOA) concentration on extraction efficiency was investigated. Modeling of the reactive extraction process was performed via a response surface methodology with a central composite design. Herein, the effect of the parameters of TOA concentration, HDES molar ratio, and initial acid concentration on the distribution coefficient was investigated. According to the results, it was reported that the most effective parameter on the extraction efficiency (%E) was the amount of extractant. The results of the experimental studies showed that the highest separation efficiency was obtained for 5% initial concentrations of formic, acetic, and propionic acids by using a mixture of 0.5 HDES molar ratio solvent and 1.9 mol/L TOA. The extraction efficiencies of these acids were found to be 88.71, 92.52, and 95.90 with +/- 0.1 standard deviation, respectively.Review Citation - WoS: 30Citation - Scopus: 33Molecular Separation by Using Active and Passive Microfluidic Chip Designs: a Comprehensive Review(Wiley, 2023) Ebrahimi, Aliakbar; Didarian, Reza; Shih, Chih-Hsin; Nasseri, Behzad; Ethan Li, Yi-Chen; Shih, Steven; İçöz, Kutay; Tarım, Ergün Alperay; Akpek, Ali; Çeçen, Berivan; Bal Öztürk, Ayça; Güleç, Kadri; Tarım, Burcu Sırma; Tekin, Hüseyin CumhurSeparation and identification of molecules and biomolecules such as nucleic acids, proteins, and polysaccharides from complex fluids are known to be important due to unmet needs in various applications. Generally, many different separation techniques, including chromatography, electrophoresis, and magnetophoresis, have been developed to identify the target molecules precisely. However, these techniques are expensive and time consuming. “Lab-on-a-chip” systems with low cost per device, quick analysis capabilities, and minimal sample consumption seem to be ideal candidates for separating particles, cells, blood samples, and molecules. From this perspective, different microfluidic-based techniques have been extensively developed in the past two decades to separate samples with different origins. In this review, “lab-on-a-chip” methods by passive, active, and hybrid approaches for the separation of biomolecules developed in the past decade are comprehensively discussed. Due to the wide variety in the field, it will be impossible to cover every facet of the subject. Therefore, this review paper covers passive and active methods generally used for biomolecule separation. Then, an investigation of the combined sophisticated methods is highlighted. The spotlight also will be shined on the elegance of separation successes in recent years, and the remainder of the article explores how these permit the development of novel techniques. © 2023 The Authors. Advanced Materials Interfaces published by Wiley-VCH GmbH.