I-ATAC: interactive pipeline for the management and pre-processing of ATAC-seq samples

Por Ahmed, Zeeshan, Ucar, Duygu
Publicado no PeerJ (2017)

Amplification of the bromodomain-containing protein 4 gene in ovarian high-grade serous carcinoma is associated with worse prognosis and survival

Por UCAR, DUYGU, LIN, DOUGLAS I.
Publicado no Mol Clin Oncol (2015)

A spatio-temporal mining approach towards summarizing and analyzing protein folding trajectories

Por Yang, Hui, Parthasarathy, Srinivasan, Ucar, Duygu
Publicado em 2007

Combinatorial chromatin modification patterns in the human genome revealed by subspace clustering

Por Ucar, Duygu, Hu, Qingyang, Tan, Kai
Publicado em 2011

Discover regulatory DNA elements using chromatin signatures and artificial neural network

Por Firpi, Hiram A., Ucar, Duygu, Tan, Kai
Publicado em 2010

Predicting functionality of protein–DNA interactions by integrating diverse evidence

Por Ucar, Duygu, Beyer, Andreas, Parthasarathy, Srinivasan, Workman, Christopher T.
Publicado em 2009

Developmental enhancers are marked independently of zygotic Nodal signals in Xenopus

Por Gupta, Rakhi, Wills, Andrea, Ucar, Duygu, Baker, Julie
Publicado no Dev Biol (2014)

Transcriptional Regulation of the Pancreatic Islet: Implications for Islet Function

Por Stitzel, Michael L., Kycia, Ina, Kursawe, Romy, Ucar, Duygu
Publicado no Curr Diab Rep (2015)

Genomics of Islet (Dys)function and Type 2 Diabetes

Por Lawlor, Nathan, Khetan, Shubham, Ucar, Duygu, Stitzel, Michael L.
Publicado no Trends Genet (2017)

V-SVA: an R Shiny application for detecting and annotating hidden sources of variation in single-cell RNA-seq data

Por Lawlor, Nathan, Marquez, Eladio J, Lee, Donghyung, Ucar, Duygu
Publicado no Bioinformatics (2020)

Computational inference of H3K4me3 and H3K27ac domain length

Por Zubek, Julian, Stitzel, Michael L., Ucar, Duygu, Plewczynski, Dariusz M.
Publicado no PeerJ (2016)

Detection of correlated hidden factors from single cell transcriptomes using Iteratively Adjusted-SVA (IA-SVA)

Por Lee, Donghyung, Cheng, Anthony, Lawlor, Nathan, Bolisetty, Mohan, Ucar, Duygu
Publicado no Sci Rep (2018)

Computational inference of a genomic pluripotency signature in human and mouse stem cells

Por Kurum, Esra, Benayoun, Bérénice A., Malhotra, Ankit, George, Joshy, Ucar, Duygu
Publicado no Biol Direct (2016)

Alpha TC1 and Beta-TC-6 genomic profiling uncovers both shared and distinct transcriptional regulatory features with their primary islet counterparts

Por Lawlor, Nathan, Youn, Ahrim, Kursawe, Romy, Ucar, Duygu, Stitzel, Michael L.
Publicado no Sci Rep (2017)

A neural network based model effectively predicts enhancers from clinical ATAC-seq samples

Por Thibodeau, Asa, Uyar, Asli, Khetan, Shubham, Stitzel, Michael L., Ucar, Duygu
Publicado no Sci Rep (2018)

BiFET: sequencing Bias-free transcription factor Footprint Enrichment Test

Por Youn, Ahrim, Marquez, Eladio J, Lawlor, Nathan, Stitzel, Michael L, Ucar, Duygu
Publicado no Nucleic Acids Res (2019)

The lethal sex gap: COVID-19

Por Márquez, Eladio J., Trowbridge, Jennifer, Kuchel, George A., Banchereau, Jacques, Ucar, Duygu
Publicado no Immun Ageing (2020)

Chromatin interaction networks revealed unique connectivity patterns of broad H3K4me3 domains and super enhancers in 3D chromatin

Por Thibodeau, Asa, Márquez, Eladio J., Shin, Dong-Guk, Vera-Licona, Paola, Ucar, Duygu
Publicado no Sci Rep (2017)

Leukaemia cell of origin identified by chromatin landscape of bulk tumour cells

Por George, Joshy, Uyar, Asli, Young, Kira, Kuffler, Lauren, Waldron-Francis, Kaiden, Marquez, Eladio, Ucar, Duygu, Trowbridge, Jennifer J.
Publicado no Nat Commun (2016)

Type 2 Diabetes–Associated Genetic Variants Regulate Chromatin Accessibility in Human Islets

Por Khetan, Shubham, Kursawe, Romy, Youn, Ahrim, Lawlor, Nathan, Jillette, Alexandria, Marquez, Eladio J., Ucar, Duygu, Stitzel, Michael L.
Publicado no Diabetes (2018)