Robust inference of kinase activity using functional networks
Yılmaz, Serhan, Ayati, Marzieh, Schlatzer, Daniela, Çiçek, A. Ercüment, Chance, Mark R., Koyutürk, Mehmet
Published in Nature communications (19.02.2021)
Published in Nature communications (19.02.2021)
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Outside Back Cover, Volume 41, Issue 8
Tunca, Ceren, Şeker, Tuncay, Akçimen, Fulya, Coşkun, Cemre, Bayraktar, Elif, Palvadeau, Robin, Zor, Seyit, Koçoğlu, Cemile, Kartal, Ece, Şen, Nesli Ece, Hamzeiy, Hamid, Özoğuz Erimiş, Aslıhan, Norman, Utku, Karakahya, Oğuzhan, Olgun, Gülden, Akgün, Tahsin, Durmuş, Hacer, Şahin, Erdi, Çakar, Arman, Başar Gürsoy, Esra, Babacan Yıldız, Gülsen, İşak, Barış, Uluç, Kayıhan, Hanağası, Haşmet, Bilgiç, Başar, Turgut, Nilda, Aysal, Fikret, Ertaş, Mustafa, Boz, Cavit, Kotan, Dilcan, İdrisoğlu, Halil, Soysal, Aysun, Uzun Adatepe, Nurten, Akalın, Mehmet Ali, Koç, Filiz, Tan, Ersin, Oflazer, Piraye, Deymeer, Feza, Taştan, Öznur, Çiçek, A. Ercüment, Kavak, Erşen, Parman, Yeşim, Başak, A. Nazlı
Published in Human mutation (01.08.2020)
Published in Human mutation (01.08.2020)
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Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Firtina, Can, Bar-Joseph, Ziv, Alkan, Can, Cicek, A Ercument
Published in Nucleic acids research (30.11.2018)
Published in Nucleic acids research (30.11.2018)
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Machine learning assisted intraoperative assessment of brain tumor margins using HRMAS NMR spectroscopy
Cakmakci, Doruk, Karakaslar, Emin Onur, Ruhland, Elisa, Chenard, Marie-Pierre, Proust, Francois, Piotto, Martial, Namer, Izzie Jacques, Cicek, A Ercument
Published in PLoS computational biology (11.11.2020)
Published in PLoS computational biology (11.11.2020)
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Metabolomic Profile of Aggressive Meningiomas by Using High-Resolution Magic Angle Spinning Nuclear Magnetic Resonance
Bender, Laura, Somme, François, Ruhland, Elisa, Cicek, A. Ercüment, Bund, Caroline, Namer, Izzie Jacques
Published in Journal of proteome research (03.01.2020)
Published in Journal of proteome research (03.01.2020)
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Detailed modeling of positive selection improves detection of cancer driver genes
Zhao, Siming, Liu, Jun, Nanga, Pranav, Liu, Yuwen, Cicek, A. Ercument, Knoblauch, Nicholas, He, Chuan, Stephens, Matthew, He, Xin
Published in Nature communications (30.07.2019)
Published in Nature communications (30.07.2019)
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Uncovering complementary sets of variants for predicting quantitative phenotypes
Yilmaz, Serhan, Fakhouri, Mohamad, Koyutürk, Mehmet, Çiçek, A Ercüment, Tastan, Oznur
Published in Bioinformatics (27.01.2022)
Published in Bioinformatics (27.01.2022)
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ECOLE: Learning to call copy number variants on whole exome sequencing data
Mandiracioglu, Berk, Ozden, Furkan, Kaynar, Gun, Yilmaz, Mehmet Alper, Alkan, Can, Cicek, A. Ercument
Published in Nature communications (02.01.2024)
Published in Nature communications (02.01.2024)
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AMULET: a novel read count-based method for effective multiplet detection from single nucleus ATAC-seq data
Thibodeau, Asa, Eroglu, Alper, McGinnis, Christopher S, Lawlor, Nathan, Nehar-Belaid, Djamel, Kursawe, Romy, Marches, Radu, Conrad, Daniel N, Kuchel, George A, Gartner, Zev J, Banchereau, Jacques, Stitzel, Michael L, Cicek, A Ercument, Ucar, Duygu
Published in Genome Biology (01.09.2021)
Published in Genome Biology (01.09.2021)
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Whole-Genome and RNA Sequencing Reveal Variation and Transcriptomic Coordination in the Developing Human Prefrontal Cortex
Werling, Donna M., Pochareddy, Sirisha, Choi, Jinmyung, An, Joon-Yong, Sheppard, Brooke, Peng, Minshi, Li, Zhen, Dastmalchi, Claudia, Santpere, Gabriel, Sousa, André M.M., Tebbenkamp, Andrew T.N., Kaur, Navjot, Gulden, Forrest O., Breen, Michael S., Liang, Lindsay, Gilson, Michael C., Zhao, Xuefang, Dong, Shan, Klei, Lambertus, Cicek, A. Ercument, Buxbaum, Joseph D., Adle-Biassette, Homa, Thomas, Jean-Leon, Aldinger, Kimberly A., O’Day, Diana R., Glass, Ian A., Zaitlen, Noah A., Talkowski, Michael E., Roeder, Kathryn, State, Matthew W., Devlin, Bernie, Sanders, Stephan J., Sestan, Nenad
Published in Cell reports (Cambridge) (07.04.2020)
Published in Cell reports (Cambridge) (07.04.2020)
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Predicting Carbon Spectrum in Heteronuclear Single Quantum Coherence Spectroscopy for Online Feedback During Surgery
Karakaslar, E. Onur, Coskun, Baris, Outilaft, Hassiba, Namer, Izzie Jacques, Cicek, A. Ercument
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.03.2020)
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.03.2020)
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Matrix Metalloproteinase-11 Promotes Early Mouse Mammary Gland Tumor Growth through Metabolic Reprogramming and Increased IGF1/AKT/FoxO1 Signaling Pathway, Enhanced ER Stress and Alteration in Mitochondrial UPR
Tan, Bing, Jaulin, Amélie, Bund, Caroline, Outilaft, Hassiba, Wendling, Corinne, Chenard, Marie-Pierrette, Alpy, Fabien, Cicek, A. Ercüment, Namer, Izzie J., Tomasetto, Catherine, Dali-Youcef, Nassim
Published in Cancers (01.09.2020)
Published in Cancers (01.09.2020)
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Metabolome Profiling by HRMAS NMR Spectroscopy of Pheochromocytomas and Paragangliomas Detects SDH Deficiency: Clinical and Pathophysiological Implications
Imperiale, Alessio, Moussallieh, François-Marie, Roche, Philippe, Battini, Stéphanie, Cicek, A. Ercument, Sebag, Frédéric, Brunaud, Laurent, Barlier, Anne, Elbayed, Karim, Loundou, Anderson, Bachellier, Philippe, Goichot, Bernard, Stratakis, Constantine A, Pacak, Karel, Namer, Izzie-Jacques, Taïeb, David
Published in Journal of mammary gland biology and neoplasia (01.01.2015)
Published in Journal of mammary gland biology and neoplasia (01.01.2015)
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Revisiting the complex architecture of ALS in Turkey: Expanding genotypes, shared phenotypes, molecular networks, and a public variant database
Tunca, Ceren, Şeker, Tuncay, Akçimen, Fulya, Coşkun, Cemre, Bayraktar, Elif, Palvadeau, Robin, Zor, Seyit, Koçoğlu, Cemile, Kartal, Ece, Şen, Nesli Ece, Hamzeiy, Hamid, Özoğuz Erimiş, Aslıhan, Norman, Utku, Karakahya, Oğuzhan, Olgun, Gülden, Akgün, Tahsin, Durmuş, Hacer, Şahin, Erdi, Çakar, Arman, Başar Gürsoy, Esra, Babacan Yıldız, Gülsen, İşak, Barış, Uluç, Kayıhan, Hanağası, Haşmet, Bilgiç, Başar, Turgut, Nilda, Aysal, Fikret, Ertaş, Mustafa, Boz, Cavit, Kotan, Dilcan, İdrisoğlu, Halil, Soysal, Aysun, Uzun Adatepe, Nurten, Akalın, Mehmet Ali, Koç, Filiz, Tan, Ersin, Oflazer, Piraye, Deymeer, Feza, Taştan, Öznur, Çiçek, A. Ercüment, Kavak, Erşen, Parman, Yeşim, Başak, A. Nazlı
Published in Human mutation (01.08.2020)
Published in Human mutation (01.08.2020)
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