RiboFlow, RiboR and RiboPy: an ecosystem for analyzing ribosome profiling data at read length resolution

per Ozadam, Hakan, Geng, Michael, Cenik, Can
Publicat a Bioinformatics (2020)

ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq

per Kucukural, Alper, Özadam, Hakan, Singh, Guramrit, Moore, Melissa J., Cenik, Can
Publicat 2013

An optimized kit-free method for making strand-specific deep sequencing libraries from RNA fragments

per Heyer, Erin E., Ozadam, Hakan, Ricci, Emiliano P., Cenik, Can, Moore, Melissa J.
Publicat a Nucleic Acids Res (2015)

Loss of coordinated expression between ribosomal and mitochondrial genes revealed by comprehensive characterization of a large family with a rare Mendelian disorder

per Panici, Brendan, Nakajima, Hosei, Carlston, Colleen M., Ozadam, Hakan, Cenik, Can, Cenik, Elif Sarinay
Publicat a Genomics (2021)

A chromosome folding intermediate at the condensin-to-cohesin transition during telophase

per Abramo, Kristin, Valton, Anne-Laure, Venev, Sergey V., Ozadam, Hakan, Fox, A. Nicole, Dekker, Job
Publicat a Nat Cell Biol (2019)

Transcriptome-wide interrogation of the functional intronome by spliceosome profiling

per Chen, Weijun, Moore, Jill, Ozadam, Hakan, Shulha, Hennady P., Rhind, Nicholas, Weng, Zhiping, Moore, Melissa J.
Publicat a Cell (2018)

Genes with 5′ terminal oligopyrimidine tracts preferentially escape global suppression of translation by the SARS-CoV-2 Nsp1 protein

per Rao, Shilpa, Hoskins, Ian, Tonn, Tori, Garcia, P. Daniela, Ozadam, Hakan, Cenik, Elif Sarinay, Cenik, Can
Publicat a bioRxiv (2021)

Higher-Order Organization Principles of Pre-translational mRNPs

per Metkar, Mihir, Ozadam, Hakan, Lajoie, Bryan R., Imakaev, Maxim, Mirny, Leonid A., Dekker, Job, Moore, Melissa J.
Publicat a Mol Cell (2018)

Transcriptional silencers in Drosophila serve a dual role as transcriptional enhancers in alternate cellular contexts

per Gisselbrecht, Stephen S., Palagi, Alexandre, Kurland, Jesse V., Rogers, Julia M., Ozadam, Hakan, Zhan, Ye, Dekker, Job, Bulyk, Martha L.
Publicat a Mol Cell (2019)

Large domains of heterochromatin direct the formation of short mitotic chromosome loops

per Fitz-James, Maximilian H, Tong, Pin, Pidoux, Alison L, Ozadam, Hakan, Yang, Liyan, White, Sharon A, Dekker, Job, Allshire, Robin C
Publicat a eLife (2020)

The HoxD cluster is a dynamic and resilient TAD boundary controlling the segregation of antagonistic regulatory landscapes

per Rodríguez-Carballo, Eddie, Lopez-Delisle, Lucille, Zhan, Ye, Fabre, Pierre J., Beccari, Leonardo, El-Idrissi, Imane, Huynh, Thi Hanh Nguyen, Ozadam, Hakan, Dekker, Job, Duboule, Denis
Publicat a Genes Dev (2017)

The non-canonical SMC protein SmcHD1 antagonises TAD formation and compartmentalisation on the inactive X chromosome

per Gdula, Michal R., Nesterova, Tatyana B., Pintacuda, Greta, Godwin, Jonathan, Zhan, Ye, Ozadam, Hakan, McClellan, Michael, Moralli, Daniella, Krueger, Felix, Green, Catherine M., Reik, Wolf, Kriaucionis, Skirmantas, Heard, Edith, Dekker, Job, Brockdorff, Neil
Publicat a Nat Commun (2019)

Measuring the reproducibility and quality of Hi-C data

per 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.
Publicat a Genome Biol (2019)

Integrative Detection and Analysis of Structural Variation in Cancer Genomes

per Dixon, Jesse R., Xu, Jie, Dileep, Vishnu, Zhan, Ye, Song, Fan, Le, Victoria T., Gürkan Yardımcı, Galip, 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, Stafford Noble, William, Dekker, Job, Gilbert, David M., Yue, Feng
Publicat a Nat Genet (2018)