Software tools for visualizing Hi-C data von Yardımcı, Galip Gürkan, Noble, William Stafford

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Integrative detection and analysis of structural variation in cancer genomes von Dixon, Jesse R., Xu, Jie, Dileep, Vishnu, Zhan, Ye, Song, Fan, Le, Victoria T., Yardımcı, Galip Gürkan, Chakraborty, Abhijit, Bann, Darrin V., Wang, Yanli, Clark, Royden, Zhang, Lijun, Yang, Hongbo, Liu, Tingting, Iyyanki, Sriranga, An, Lin, Pool, Christopher, Sasaki, Takayo, Rivera-Mulia, Juan Carlos, Ozadam, Hakan, Lajoie, Bryan R., Kaul, Rajinder, Buckley, Michael, Lee, Kristen, Diegel, Morgan, Pezic, Dubravka, Ernst, Christina, Hadjur, Suzana, Odom, Duncan T., Stamatoyannopoulos, John A., Broach, James R., Hardison, Ross C., Ay, Ferhat, Noble, William Stafford, Dekker, Job, Gilbert, David M., Yue, Feng

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HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient von Yang, Tao, Zhang, Feipeng, Yardımcı, Galip Gürkan, Song, Fan, Hardison, Ross C, Noble, William Stafford, Yue, Feng, Li, Qunhua

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Predicting cell-type-specific gene expression from regions of open chromatin von Natarajan, Anirudh, Yardimci, Galip Gürkan, Sheffield, Nathan C, Crawford, Gregory E, Ohler, Uwe

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Unsupervised embedding of single-cell Hi-C data von Liu, Jie, Lin, Dejun, Yardımcı, Galip Gürkan, Noble, William Stafford

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Statistical evaluation of the Rodin-Ohno hypothesis: sense/antisense coding of ancestral class I and II aminoacyl-tRNA synthetases von Chandrasekaran, Srinivas Niranj, Yardimci, Galip Gürkan, Erdogan, Ozgün, Roach, Jeffrey, Carter, Jr, Charles W

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HiC-spector: a matrix library for spectral and reproducibility analysis of Hi-C contact maps von Yan, Koon-Kiu, Yardimci, Galip Gürkan, Yan, Chengfei, Noble, William S, Gerstein, Mark

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GoPeaks: histone modification peak calling for CUT&Tag von Yashar, William M, Kong, Garth, VanCampen, Jake, Curtiss, Brittany M, Coleman, Daniel J, Carbone, Lucia, Yardimci, Galip Gürkan, Maxson, Julia E, Braun, Theodore P

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Measuring the reproducibility and quality of Hi-C data von Yardımcı, Galip Gürkan, Ozadam, Hakan, Sauria, Michael E G, Ursu, Oana, Yan, Koon-Kiu, Yang, Tao, Chakraborty, Abhijit, Kaul, Arya, Lajoie, Bryan R, Song, Fan, Zhan, Ye, Ay, Ferhat, Gerstein, Mark, Kundaje, Anshul, Li, Qunhua, Taylor, James, Yue, Feng, Dekker, Job, Noble, William S

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Computational methods for analyzing and modeling genome structure and organization von Lin, Dejun, Bonora, Giancarlo, Yardımcı, Galip Gürkan, Noble, William S.

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Demographic Characteristics of Sexually Transmitted Infections: Retrospective 5-year Outpatient Clinic Evaluation von Yardimci, Gurkan, Serdaroglu, Server

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Transcriptional control of tissue formation throughout root development von Moreno-Risueno, Miguel A., Sozzani, Rosangela, Yardımcı, Galip Gürkan, Petricka, Jalean J., Vernoux, Teva, Blilou, Ikram, Alonso, Jose, Winter, Cara M., Ohler, Uwe, Scheres, Ben, Benfey, Philip N.

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Micelle-Formulated Juglone Effectively Targets Pancreatic Cancer and Remodels the Tumor Microenvironment von Shah, Vidhi M, Rizvi, Syed, Smith, Alexander, Tsuda, Motoyuki, Krieger, Madeline, Pelz, Carl, MacPherson, Kevin, Eng, Jenny, Chin, Koei, Munks, Michael W, Daniel, Colin J, Al-Fatease, Adel, Yardimci, Galip Gürkan, Langer, Ellen M, Brody, Jonathan R, Sheppard, Brett C, Alani, Adam Wg, Sears, Rosalie C

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GenomeDISCO: a concordance score for chromosome conformation capture experiments using random walks on contact map graphs von Ursu, Oana, Boley, Nathan, Taranova, Maryna, Wang, Y X Rachel, Yardimci, Galip Gurkan, Stafford Noble, William, Kundaje, Anshul

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Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data von Kim, Hyeon-Jin, Yardimci, Galip Gürkan, Bonora, Giancarlo, Ramani, Vijay, Liu, Jie, Qiu, Ruolan, Lee, Choli, Hesson, Jennifer, Ware, Carol B, Shendure, Jay, Duan, Zhijun, Noble, William Stafford

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Acral Manifestations of Fungal Infections von Kutlubay, Zekayi, MD, Yardımcı, Gürkan, MD, Kantarcıoğlu, A. Serda, PhD, Serdaroğlu, Server, MD

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Comparison of Effectiveness of Electrocautery and Cryotherapy in Partial Matrixectomy After Partial Nail Extraction in the Treatment of Ingrown Nails von Küçüktaş, Murat, Kutlubay, Zekayi, Yardimci, Gürkan, Khatib, Rashid, Tüzün, Yalçın

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Evaluation of body composition parameters in patients with psoriasis von Engin, Burhan, Kutlubay, Zekayi, Yardımcı, Gürkan, Vehid, Hayriye Ertem, Ambarcıoğlu, Pınar, Serdaroğlu, Server, Tüzün, Yalçın

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Predictive model of 3D domain formation via CTCF-mediated extrusion von Yardımcı, Galip Gürkan, Noble, William Stafford

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Accessible high-throughput single-cell whole-genome sequencing with paired chromatin accessibility von Queitsch, Konstantin, Moore, Travis W, O'Connell, Brendan L, Nichols, Ruth V, Muschler, John L, Keith, Dove, Lopez, Charles, Sears, Rosalie C, Mills, Gordon B, Yardımcı, Galip Gürkan, Adey, Andrew C

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