Search Results - "Abdullah, Kahraman"

Cell-wide analysis of protein thermal unfolding reveals determinants of thermostability by Leuenberger, Pascal, Ganscha, Stefan, Kahraman, Abdullah, Cappelletti, Valentina, Boersema, Paul J., von Mering, Christian, Claassen, Manfred, Picotti, Paola

“…Temperature-induced cell death is thought to be due to protein denaturation, but the determinants of thermal sensitivity of proteomes remain largely…”
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xVis: a web server for the schematic visualization and interpretation of crosslink-derived spatial restraints by Grimm, Maximilian, Zimniak, Tomasz, Kahraman, Abdullah, Herzog, Franz

“…The identification of crosslinks by mass spectrometry has recently been established as an integral part of the hybrid structural analysis of protein complexes…”
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Probing Native Protein Structures by Chemical Cross-linking, Mass Spectrometry, and Bioinformatics by Leitner, Alexander, Walzthoeni, Thomas, Kahraman, Abdullah, Herzog, Franz, Rinner, Oliver, Beck, Martin, Aebersold, Ruedi

“…Chemical cross-linking of reactive groups in native proteins and protein complexes in combination with the identification of cross-linked sites by mass…”
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Xwalk: computing and visualizing distances in cross-linking experiments by Kahraman, Abdullah, Malmström, Lars, Aebersold, Ruedi

“…Motivation: Chemical cross-linking of proteins or protein complexes and the mass spectrometry-based localization of the cross-linked amino acids in peptide…”
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Distance restraints from crosslinking mass spectrometry: Mining a molecular dynamics simulation database to evaluate lysine–lysine distances by Merkley, Eric D., Rysavy, Steven, Kahraman, Abdullah, Hafen, Ryan P., Daggett, Valerie, Adkins, Joshua N.

“…Integrative structural biology attempts to model the structures of protein complexes that are challenging or intractable by classical structural methods (due…”
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Global analysis of protein structural changes in complex proteomes by Feng, Yuehan, De Franceschi, Giorgia, Kahraman, Abdullah, Soste, Martin, Melnik, Andre, Boersema, Paul J, de Laureto, Patrizia Polverino, Nikolaev, Yaroslav, Oliveira, Ana Paula, Picotti, Paola

“…Coupling limited proteolysis and a proteomics workflow enables measurement of both subtle and wholesale protein conformational changes in a eukaryotic…”
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Cross-link guided molecular modeling with ROSETTA by Kahraman, Abdullah, Herzog, Franz, Leitner, Alexander, Rosenberger, George, Aebersold, Ruedi, Malmström, Lars

“…Chemical cross-links identified by mass spectrometry generate distance restraints that reveal low-resolution structural information on proteins and protein…”
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Pathogenic impact of transcript isoform switching in 1,209 cancer samples covering 27 cancer types using an isoform-specific interaction network by Kahraman, Abdullah, Karakulak, Tülay, Szklarczyk, Damian, von Mering, Christian

“…Under normal conditions, cells of almost all tissue types express the same predominant canonical transcript isoform at each gene locus. In cancer, however,…”
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Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry by Herzog, Franz, Kahraman, Abdullah, Boehringer, Daniel, Mak, Raymond, Bracher, Andreas, Walzthoeni, Thomas, Leitner, Alexander, Beck, Martin, Hartl, Franz-Ulrich, Ban, Nenad, Malmström, Lars, Aebersold, Ruedi

“…The identification of proximate amino acids by chemical cross-linking and mass spectrometry (XL-MS) facilitates the structural analysis of homogeneous protein…”
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Global-level population genomics reveals differential effects of geography and phylogeny on horizontal gene transfer in soil bacteria by Greenlon, Alex, Chang, Peter L., Damtew, Zehara Mohammed, Muleta, Atsede, Carrasquilla-Garcia, Noelia, Kim, Donghyun, Nguyen, Hien P., Suryawanshi, Vasantika, Krieg, Christopher P., Yadav, Sudheer Kumar, Patel, Jai Singh, Mukherjee, Arpan, Udupa, Sripada, Benjelloun, Imane, Thami-Alami, Imane, Yasin, Mohammad, Patil, Bhuvaneshwara, Singh, Sarvjeet, Sarma, Birinchi Kumar, von Wettberg, Eric J. B., Kahraman, Abdullah, Bukun, Bekir, Assefa, Fassil, Tesfaye, Kassahun, Fikre, Asnake, Cook, Douglas R.

“…Although microorganisms are known to dominate Earth’s biospheres and drive biogeochemical cycling, little is known about the geographic distributions of…”
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Editorial: The RNA revolution and cancer by Dlamini, Zodwa, Ladomery, Michael R, Kahraman, Abdullah

“…RNA biology has revolutionized cancer understanding and treatment, especially in endocrine-related malignancies. This editorial highlights RNA's crucial role…”
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Molecular Details Underlying Dynamic Structures and Regulation of the Human 26S Proteasome by Wang, Xiaorong, Cimermancic, Peter, Yu, Clinton, Schweitzer, Andreas, Chopra, Nikita, Engel, James L., Greenberg, Charles, Huszagh, Alexander S., Beck, Florian, Sakata, Eri, Yang, Yingying, Novitsky, Eric J., Leitner, Alexander, Nanni, Paolo, Kahraman, Abdullah, Guo, Xing, Dixon, Jack E., Rychnovsky, Scott D., Aebersold, Ruedi, Baumeister, Wolfgang, Sali, Andrej, Huang, Lan

“…The 26S proteasome is the macromolecular machine responsible for ATP/ubiquitin dependent degradation. As aberration in proteasomal degradation has been…”
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Selenium-Mercury Balance in Commercial Fish Species from the Turkish Waters by Ulusoy, Şafak, Mol, Sühendan, Karakulak, F.Saadet, Kahraman, Abdullah E.

“…The interactions between selenium (Se) and mercury (Hg) were assessed in order to interpret public health risk, associated with dietary mercury exposure due to…”
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Heme proteins-Diversity in structural characteristics, function, and folding by Smith, Lorna J., Kahraman, Abdullah, Thornton, Janet M.

“…The characteristics of heme prosthetic groups and their binding sites have been analyzed in detail in a data set of nonhomologous heme proteins. Variations in…”
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Liver Cyst Hydatid Causing Diaphragmatic Rupture: Case Report by Kahraman, Abdullah

“…Liver cyst hydatid which is caused by a parasite called Echinococcus granulosus, is a parasitic infection that leads to endemic disease around the world…”
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The complete chloroplast genome of Cicer reticulatum and comparative analysis against relative Cicer species by Mehmetoğlu, Ezgi, Kaymaz, Yasin, Ateş, Duygu, Kahraman, Abdullah, Tanyolaç, Muhammed Bahattin

“…The chloroplast (cp) genome is an adequate genomic resource to investigate evolutionary relationships among plant species and it carries marker genes available…”
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Potential Health Risks of Heavy Metals to the Turkish and Greek Populations Via Consumption of Spiny Dogfish and Thornback Ray from the Sea of Marmara by Mol, Suhendan, Kahraman, Abdullah E, Ulusoy, Safak

“…Spiny dogfish and thornback ray caught from Turkish waters in the northern part of the Sea of Marmara are mainly exported to Greece for human consumption…”
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Contrasting future lightning stories across Europe by Kahraman, Abdullah, Kendon, Elizabeth J, Fowler, Hayley J, Wilkinson, Jonathan M

“…Thunderstorms are the most common source of hazardous weather at local scales, but are poorly represented in conventional climate models, resulting in high…”
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Cicer turcicum: A New Cicer Species and Its Potential to Improve Chickpea by Toker, Cengiz, Berger, Jens, Eker, Tuba, Sari, Duygu, Sari, Hatice, Gokturk, Ramazan Suleyman, Kahraman, Abdullah, Aydin, Bilal, von Wettberg, Eric J

“…Genetic resources of the genus L. are not only limited when compared to other important food legumes and major cereal crops but also, they include several…”
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Genomic SSR marker development in lentil (Lens culinaris Medik.) and assessment of cross-species/genera transferability to related legumes by Bakır, Melike, Demir, Şehriban, Yıldırım, Cebrail, Kahraman, Abdullah

“…Simple sequence repeat (SSR) markers are valuable genetic and genomic research tools and are extensively used in major crops. However, a paucity of available…”
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