Now showing items 1-4 of 4

    • Hercules: a profile HMM-based hybrid error correction algorithm for long reads 

      Fırtına, Can; Bar-Joseph, Z.; Alkan, Can; Çicek, A. Ercüment (Oxford University Press, 2018)
      Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy and read length. Several types of studies require long and accurate reads. In such cases researchers often ...
    • Large-scale exome sequencing study implicates both developmental and functional changes in the neurobiology of autism 

      Satterstrom, F. K.; Kosmicki, J. A.; Wang, J.; Breen, M. S.; De Rubeis, S.; An, J. - Y.; Peng, M.; Collins, R.; Grove, J.; Klei, L.; Stevens, C.; Reichert, J.; Mulhern, M. S.; Artomov, M.; Gerges, S.; Sheppard, B.; Xu, X.; Bhaduri, A.; Norman, Utku; Brand, H.; Schwartz, G.; Nguyen, R.; Guerrero, E. E.; Dias, C.; Autism Sequencing Consortium; iPSYCH-Broad Consortium; Betancur, C; Cook, E; Gallagher, L; Gill, M; Sutcliffe, J; Thurm, A; Zwick, M; State, M; Çicek, A. Ercüment; Talkowski, M; Cutler, D; Devlin, B.; Sanders, S; Roeder, K.; Daly, M; Buxbaum, J. (Elsevier, 2020-02-06)
      We present the largest exome sequencing study ofautism spectrum disorder (ASD) to date (n = 35,584total samples, 11,986 with ASD). Using an enhancedanalytical framework to integratedenovoand case-control rare variation, ...
    • Machine learning assisted intraoperative assessment of brain tumor margins using HRMAS NMR spectroscopy 

      Çakmakçı, Doruk; Karakaşlar, Emin Onur; Ruhland, E.; Chenard, M.-P.; Proust, F.; Piotto, M.; Namer, I. J.; Çicek, A. Ercüment (Public Library of Science, 2020)
      Complete resection of the tumor is important for survival in glioma patients. Even if the gross total resection was achieved, left-over micro-scale tissue in the excision cavity risks recurrence. High Resolution Magic Angle ...
    • Re-identification of individuals in genomic data-sharing beacons via allele inference 

      Von Thenen, Nora; Ayday, Erman; Çicek, A. Ercüment (Oxford University Press, 2019)
      Motivation: Genomic data-sharing beacons aim to provide a secure, easy to implement and standardized interface for data-sharing by only allowing yes/no queries on the presence of specific alleles in the dataset. Previously ...