Quantitative profiling of pseudouridylation dynamics in native RNAs with nanopore sequencing
Begik, Oguzhan, Lucas, Morghan C., Pryszcz, Leszek P., Ramirez, Jose Miguel, Medina, Rebeca, Milenkovic, Ivan, Cruciani, Sonia, Liu, Huanle, Vieira, Helaine Graziele Santos, Sas-Chen, Aldema, Mattick, John S., Schwartz, Schraga, Novoa, Eva Maria
Published in Nature biotechnology (01.10.2021)
Published in Nature biotechnology (01.10.2021)
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Journal Article
Accurate detection of m6A RNA modifications in native RNA sequences
Liu, Huanle, Begik, Oguzhan, Lucas, Morghan C., Ramirez, Jose Miguel, Mason, Christopher E., Wiener, David, Schwartz, Schraga, Mattick, John S., Smith, Martin A., Novoa, Eva Maria
Published in Nature communications (09.09.2019)
Published in Nature communications (09.09.2019)
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Journal Article
Molecular barcoding of native RNAs using nanopore sequencing and deep learning
Smith, Martin A, Ersavas, Tansel, Ferguson, James M, Liu, Huanle, Lucas, Morghan C, Begik, Oguzhan, Bojarski, Lilly, Barton, Kirston, Novoa, Eva Maria
Published in Genome research (01.09.2020)
Published in Genome research (01.09.2020)
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Journal Article
Nano3P-seq: transcriptome-wide analysis of gene expression and tail dynamics using end-capture nanopore cDNA sequencing
Begik, Oguzhan, Diensthuber, Gregor, Liu, Huanle, Delgado-Tejedor, Anna, Kontur, Cassandra, Niazi, Adnan Muhammad, Valen, Eivind, Giraldez, Antonio J., Beaudoin, Jean-Denis, Mattick, John S., Novoa, Eva Maria
Published in Nature methods (01.01.2023)
Published in Nature methods (01.01.2023)
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Journal Article
Enhanced detection of RNA modifications and read mapping with high-accuracy nanopore RNA basecalling models
Diensthuber, Gregor, Pryszcz, Leszek P, Llovera, Laia, Lucas, Morghan C, Delgado-Tejedor, Anna, Cruciani, Sonia, Roignant, Jean-Yves, Begik, Oguzhan, Novoa, Eva Maria
Published in Genome research (13.09.2024)
Published in Genome research (13.09.2024)
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Journal Article
N6-methyladenosine modification is not a general trait of viral RNA genomes
Baquero-Pérez, Belinda, Yonchev, Ivaylo D., Delgado-Tejedor, Anna, Medina, Rebeca, Puig-Torrents, Mireia, Sudbery, Ian, Begik, Oguzhan, Wilson, Stuart A., Novoa, Eva Maria, Díez, Juana
Published in Nature communications (11.03.2024)
Published in Nature communications (11.03.2024)
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Journal Article
Abstract 2360: Deregulated APA and cancer specific APA isoforms
Begik, Oguzhan, Ercan, Melda, Cingoz, Harun, Can, Tolga, Oyken, Merve, Erson-Bensan, Ayse Elif
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
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Journal Article
N 6 -methyladenosine modification is not a general trait of viral RNA genomes
Baquero-Pérez, Belinda, Yonchev, Ivaylo D, Delgado-Tejedor, Anna, Medina, Rebeca, Puig-Torrents, Mireia, Sudbery, Ian, Begik, Oguzhan, Wilson, Stuart A, Novoa, Eva Maria, Díez, Juana
Published in Nature communications (11.03.2024)
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Published in Nature communications (11.03.2024)
Journal Article
N 6-methyladenosine modification is not a general trait of viral RNA genomes
Belinda Baquero-Pérez, Ivaylo D. Yonchev, Anna Delgado-Tejedor, Rebeca Medina, Mireia Puig-Torrents, Ian Sudbery, Oguzhan Begik, Stuart A. Wilson, Eva Maria Novoa, Juana Díez
Published in Nature communications (01.03.2024)
Published in Nature communications (01.03.2024)
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Journal Article
Hydrogen-Bonded Multilayers With Controllable pH-Induced Disintegration Kinetics for Controlled Release Applications From Surfaces
Bag, Esra, Begik, Oguzhan, Yusan, Pelin, Erel-Goktepe, Irem
Published in Journal of macromolecular science. Part A, Pure and applied chemistry (03.04.2015)
Published in Journal of macromolecular science. Part A, Pure and applied chemistry (03.04.2015)
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Journal Article
Accurate detection of m 6 A RNA modifications in native RNA sequences
Liu, Huanle, Begik, Oguzhan, Lucas, Morghan C, Ramirez, Jose Miguel, Mason, Christopher E, Wiener, David, Schwartz, Schraga, Mattick, John S, Smith, Martin A, Novoa, Eva Maria
Published in Nature communications (09.09.2019)
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Published in Nature communications (09.09.2019)
Journal Article
m6A Modification and Implications for microRNAs
Erson-Bensan, Ayse Elif, Begik, Oguzhan
Published in MicroRNA (Shariqah, United Arab Emirates) (2017)
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Published in MicroRNA (Shariqah, United Arab Emirates) (2017)
Journal Article
Quantitative profiling of native RNA modifications and their dynamics using nanopore sequencing
Begik, Oguzhan, Lucas, Morghan C, Pryszcz, Leszek P, Jose Miguel Ramirez, Medina, Rebeca, Milenkovic, Ivan, Cruciani, Sonia, Liu, Huanle, Helaine Graziele Santos Vieira, Sas-Chen, Aldema, Mattick, John S, Schwartz, Schraga, Novoa, Eva Maria
Published in bioRxiv (05.01.2021)
Published in bioRxiv (05.01.2021)
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Paper
Barcoding and demultiplexing Oxford Nanopore native RNA sequencing reads with deep residual learning
Smith, Martin A, Tansel Ersavas, Ferguson, James M, Liu, Huanle, Lucas, Morghan C, Begik, Oguzhan, Bojarski, Lilly, Barton, Kirston, Novoa, Eva Maria
Published in bioRxiv (05.12.2019)
Published in bioRxiv (05.12.2019)
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Paper