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  1. Article ; Online: Evaluating CH

    Gulbalkan, Hasan Can / Uzun, Alper / Keskin, Seda

    ACS applied materials & interfaces

    2023  

    Abstract: Considering the large abundance and diversity of metal-organic frameworks (MOFs), evaluating the gas adsorption and separation performance of the entire MOF material space using solely experimental techniques or brute-force computer simulations is ... ...

    Abstract Considering the large abundance and diversity of metal-organic frameworks (MOFs), evaluating the gas adsorption and separation performance of the entire MOF material space using solely experimental techniques or brute-force computer simulations is impractical. In this study, we integrated high-throughput molecular simulations with machine learning (ML) to explore the potential of both synthesized, the real MOFs, and computer-generated, the hypothetical MOFs (hypoMOFs), for adsorption-based CH
    Language English
    Publishing date 2023-12-11
    Publishing country United States
    Document type Journal Article ; Review
    ISSN 1944-8252
    ISSN (online) 1944-8252
    DOI 10.1021/acsami.3c13533
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Letter to Editor: Outcome comparison between muscle and fasciocutaneous flaps after secondary orthopedic procedures.

    Zengin, Caner / Aytaç, Yusuf Alper / Uzun, Ceyhun / Alagöz, Murat Şahin

    Journal of plastic, reconstructive & aesthetic surgery : JPRAS

    2023  Volume 82, Page(s) 282–283

    MeSH term(s) Humans ; Surgical Flaps ; Plastic Surgery Procedures ; Orthopedic Procedures ; Muscles ; Retrospective Studies
    Language English
    Publishing date 2023-04-18
    Publishing country Netherlands
    Document type Letter ; Comment
    ZDB-ID 2217750-4
    ISSN 1878-0539 ; 1748-6815 ; 0007-1226
    ISSN (online) 1878-0539
    ISSN 1748-6815 ; 0007-1226
    DOI 10.1016/j.bjps.2023.04.037
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Apifloristic diversity in the eastern Mediterranean region

    Topal Ali / Uzun Alper / Polat Osman

    Archives of Biological Sciences, Vol 75, Iss 2, Pp 221-

    Implications for biodiversity conservation and use

    2023  Volume 236

    Abstract: The ecological role of honeybees in the world and their value for sustainable agriculture and food industry are more important than ever. For this reason, we study the apiflora in the eastern Mediterranean region of Turkiye in the context of planning bee ...

    Abstract The ecological role of honeybees in the world and their value for sustainable agriculture and food industry are more important than ever. For this reason, we study the apiflora in the eastern Mediterranean region of Turkiye in the context of planning bee forests aimed at biodiversity conservation. The results show that honeybee forests are quite rich in both endemism and apifloristic diversity. A total of 511 plant taxa belonging to 264 genera and 59 families were identified, of which 335 (65%) taxa were evaluated as nectar (N) and/or pollen (P) bearing honey plants (45 N, 54 P, and 236 N&P). In terms of apiflora, the richest families are Fabaceae (n=76, 3 N, 73 N&P), Lamiaceae (n=57, 19 N, 38 N&P) and Asteraceae (n=44, 1 N, 10 P, 33 N&P). Nectariferous plants were more common at higher elevations, while polleniferous plants were more common at lower elevations. According to the Shannon-Wiener diversity index, the highest diversity values were found in honeybee forests at higher elevations and the lowest diversity values at lower elevations. Sorensen analysis also showed that floristic similarities among honeybee forests ranged from 1% to 42%. Cluster analysis supported these differences by dividing the forests into two separate groups.
    Keywords apiflora ; plant conservation ; endemic species ; plant diversity ; türkiye ; Biology (General) ; QH301-705.5
    Subject code 580
    Language English
    Publishing date 2023-01-01T00:00:00Z
    Publisher University of Belgrade, University of Novi Sad
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  4. Article ; Online: MMR Deficiency Defines Distinct Molecular Subtype of Breast Cancer with Histone Proteomic Networks.

    Hacking, Sean / Chou, Charissa / Baykara, Yigit / Wang, Yihong / Uzun, Alper / Gamsiz Uzun, Ece D

    International journal of molecular sciences

    2023  Volume 24, Issue 6

    Abstract: Mismatch repair (MMR) alterations are important prognostic and predictive biomarkers in a variety of cancer subtypes, including colorectal and endometrial. However, in breast cancer (BC), the distinction and clinical significance of MMR are largely ... ...

    Abstract Mismatch repair (MMR) alterations are important prognostic and predictive biomarkers in a variety of cancer subtypes, including colorectal and endometrial. However, in breast cancer (BC), the distinction and clinical significance of MMR are largely unknown. This may be due in part to the fact that genetic alterations in MMR genes are rare and only seen to occur in around 3% of BCs. In the present study, we analyzed TCGA data using a multi-sample protein-protein interaction (PPI) analysis tool, Proteinarium, and showed a distinct separation between specific MMR-deficient and -intact networks in a cohort of 994 BC patients. In the PPI networks specific to MMR deficiency, highly connected clusters of histone genes were identified. We also found the distribution of MMR-deficient BC to be more prevalent in HER2-enriched and triple-negative (TN) BC subtypes compared to luminal BCs. We recommend defining MMR-deficient BC by next-generation sequencing (NGS) when any somatic mutation is detected in one of the seven MMR genes.
    MeSH term(s) Humans ; Histones/genetics ; Proteomics ; Colorectal Neoplasms ; Triple Negative Breast Neoplasms/genetics ; DNA Mismatch Repair/genetics
    Chemical Substances Histones
    Language English
    Publishing date 2023-03-10
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms24065327
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: A novel alkali activated magnesium silicate as an effective and mechanically strong adsorbent for methylene blue removal.

    Kaya-Özkiper, Kardelen / Uzun, Alper / Soyer-Uzun, Sezen

    Journal of hazardous materials

    2021  Volume 424, Issue Pt A, Page(s) 127256

    Abstract: A novel, cheap, and easy-to-synthesize sepiolite-based alkali-activated material (Sep-AAM), synthesized by the reaction of a magnesium silicate source, sepiolite, with sodium silicate solution, demonstrating high mechanical strength and methylene blue ( ... ...

    Abstract A novel, cheap, and easy-to-synthesize sepiolite-based alkali-activated material (Sep-AAM), synthesized by the reaction of a magnesium silicate source, sepiolite, with sodium silicate solution, demonstrating high mechanical strength and methylene blue (MB) removal performance is introduced. Kinetics data indicated that MB adsorption occurs through pseudo-second-order adsorption kinetics model, while the Langmuir isotherm model provided a better fit to adsorption isotherms. The Sep-AAM provided a removal capacity of 99.92 mg g
    MeSH term(s) Adsorption ; Alkalies ; Hydrogen-Ion Concentration ; Kinetics ; Magnesium ; Magnesium Silicates ; Methylene Blue ; Thermodynamics ; Water Pollutants, Chemical ; Water Purification
    Chemical Substances Alkalies ; Magnesium Silicates ; Water Pollutants, Chemical ; Magnesium (I38ZP9992A) ; Methylene Blue (T42P99266K)
    Language English
    Publishing date 2021-09-20
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1491302-1
    ISSN 1873-3336 ; 0304-3894
    ISSN (online) 1873-3336
    ISSN 0304-3894
    DOI 10.1016/j.jhazmat.2021.127256
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Composite of MIL-101(Cr) with a Pyrrolidinium-Based Ionic Liquid Providing High CO

    Habib, Nitasha / Durak, Ozce / Gulbalkan, Hasan Can / Aydogdu, Ahmet Safa / Keskin, Seda / Uzun, Alper

    ACS applied engineering materials

    2023  Volume 1, Issue 6, Page(s) 1473–1481

    Abstract: Capturing ... ...

    Abstract Capturing CO
    Language English
    Publishing date 2023-05-22
    Publishing country United States
    Document type Journal Article
    ISSN 2771-9545
    ISSN (online) 2771-9545
    DOI 10.1021/acsaenm.3c00010
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Zelkova carpinifolia (Ulmaceae), a relict tree, first recorded in Iraq

    Uzun, Alper / Galalaey, Ali Mala Khedir

    Folia Geobot. 2022 Dec., v. 57, no. 4 p.303-317

    2022  

    Abstract: The relict tree Zelkova carpinifolia (Pall.) K. Koch, ordinarily growing in the Hyrcanian–Euxinian phytogeographic region, is reported for the first time from Iraq, namely the north-east of the country. The site lies on the margin of this species’ ... ...

    Abstract The relict tree Zelkova carpinifolia (Pall.) K. Koch, ordinarily growing in the Hyrcanian–Euxinian phytogeographic region, is reported for the first time from Iraq, namely the north-east of the country. The site lies on the margin of this species’ distribution between the other extant isolated records in the south easternmost region of Turkey and western Iran. Given that this species is extremely rare in neighbouring countries, every single population makes a significant contribution to our understanding of the species’ phytogeography and conservation. The oldest individuals reported in the study are 105, 102, 93, 90 and 84 years old, and the average age is 46. The palaeobotanical background, habitat characteristics and information on population characteristics are presented. Additionally, SEM micrographs of Zelkova carpinifolia leaves were taken and compared with published sources. The findings are discussed in the context of the worldwide distribution of the species and its conservation status.
    Keywords Zelkova ; conservation status ; habitats ; phytogeography ; trees ; Iran ; Iraq
    Language English
    Dates of publication 2022-12
    Size p. 303-317.
    Publishing place Springer Netherlands
    Document type Article ; Online
    ZDB-ID 2047713-2
    ISSN 1874-9348 ; 1211-9520 ; 0015-5551
    ISSN (online) 1874-9348
    ISSN 1211-9520 ; 0015-5551
    DOI 10.1007/s12224-022-09422-1
    Database NAL-Catalogue (AGRICOLA)

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  8. Article ; Online: MMR Deficiency Defines Distinct Molecular Subtype of Breast Cancer with Histone Proteomic Networks

    Sean Hacking / Charissa Chou / Yigit Baykara / Yihong Wang / Alper Uzun / Ece D. Gamsiz Uzun

    International Journal of Molecular Sciences, Vol 24, Iss 5327, p

    2023  Volume 5327

    Abstract: Mismatch repair (MMR) alterations are important prognostic and predictive biomarkers in a variety of cancer subtypes, including colorectal and endometrial. However, in breast cancer (BC), the distinction and clinical significance of MMR are largely ... ...

    Abstract Mismatch repair (MMR) alterations are important prognostic and predictive biomarkers in a variety of cancer subtypes, including colorectal and endometrial. However, in breast cancer (BC), the distinction and clinical significance of MMR are largely unknown. This may be due in part to the fact that genetic alterations in MMR genes are rare and only seen to occur in around 3% of BCs. In the present study, we analyzed TCGA data using a multi-sample protein–protein interaction (PPI) analysis tool, Proteinarium, and showed a distinct separation between specific MMR-deficient and -intact networks in a cohort of 994 BC patients. In the PPI networks specific to MMR deficiency, highly connected clusters of histone genes were identified. We also found the distribution of MMR-deficient BC to be more prevalent in HER2-enriched and triple-negative (TN) BC subtypes compared to luminal BCs. We recommend defining MMR-deficient BC by next-generation sequencing (NGS) when any somatic mutation is detected in one of the seven MMR genes.
    Keywords MMR ; breast cancer ; comprehensive genomic profiling ; Proteinarium ; histone proteins ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 616
    Language English
    Publishing date 2023-03-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: Integrating Molecular Simulations with Machine Learning Guides in the Design and Synthesis of [BMIM][BF

    Daglar, Hilal / Gulbalkan, Hasan Can / Habib, Nitasha / Durak, Ozce / Uzun, Alper / Keskin, Seda

    ACS applied materials & interfaces

    2023  Volume 15, Issue 13, Page(s) 17421–17431

    Abstract: Considering the existence of a large number and variety of metal-organic frameworks (MOFs) and ionic liquids (ILs), assessing the gas separation potential of all possible IL/MOF composites by purely experimental methods is not practical. In this work, we ...

    Abstract Considering the existence of a large number and variety of metal-organic frameworks (MOFs) and ionic liquids (ILs), assessing the gas separation potential of all possible IL/MOF composites by purely experimental methods is not practical. In this work, we combined molecular simulations and machine learning (ML) algorithms to computationally design an IL/MOF composite. Molecular simulations were first performed to screen approximately 1000 different composites of 1-
    Language English
    Publishing date 2023-03-27
    Publishing country United States
    Document type Journal Article
    ISSN 1944-8252
    ISSN (online) 1944-8252
    DOI 10.1021/acsami.3c02130
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Active Sites and Their Individual Turnover Frequencies for Ethylene Hydrogenation on Reduced Graphene Aerogel.

    Yalcin, Kaan / Kurtoğlu-Öztulum, Samira F / Sarac Oztuna, F Eylul / Kanat, Gizem Hasibe / Unal, Ugur / Uzun, Alper

    Langmuir : the ACS journal of surfaces and colloids

    2024  Volume 40, Issue 8, Page(s) 4044–4053

    Abstract: Graphene aerogel (GA) was reduced at various temperatures to prepare a series of reduced graphene aerogels (rGAs) with different surface characteristics. Detailed characterization demonstrated that an increase in the thermal reduction temperature leads ... ...

    Abstract Graphene aerogel (GA) was reduced at various temperatures to prepare a series of reduced graphene aerogels (rGAs) with different surface characteristics. Detailed characterization demonstrated that an increase in the thermal reduction temperature leads to an increase in surface area accompanied by an increase in surface density of defect sites formed by the removal of the oxygen-containing functional groups. rGA samples were then tested for ethylene hydrogenation under identical conditions. A comparison of catalytic performances of each catalyst demonstrated that the rGA sample prepared by reduction in Ar at 900 °C (rGA-900) provides the highest performance compared with others prepared at lower temperatures. Next, we analyzed the per-gram activity of each catalyst as a sum of individual contributions from different defect sites quantified by Raman spectroscopy and CHNS-O analysis to determine the individual turnover frequencies (TOFs) of each active site. This analysis identified polyene-like structures and interstitial defects associated with amorphous sp
    Language English
    Publishing date 2024-02-18
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2005937-1
    ISSN 1520-5827 ; 0743-7463
    ISSN (online) 1520-5827
    ISSN 0743-7463
    DOI 10.1021/acs.langmuir.3c02848
    Database MEDical Literature Analysis and Retrieval System OnLINE

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