Jernej Ule (Ule Jernej)

ResearcherID Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2015-2024
Publications (10 Years): 53

Top Venues

Science translational medicine

Wellcome open research

Nature communications

Molecular systems biology

Francis Crick Institute

Rockefeller University (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Francis Crick Institute Aug 11 2016

United Kingdom

Group leader

University College London Apr 01 2013

United Kingdom

Professor :: Department of Neuromuscular Diseases

National Institute of Chemistry Jan 01 2020 - Dec 31 2024

Slovenia

Group leader :: Department of Molecular Biology and Nanobiotechnology

Education History

Rockefeller University Oct 01 2000 - Dec 21 2004

United States

PHD

University of Ljubljana Oct 01 1996 - Dec 22 1999

Slovenia

BSC :: Molecular Biology

Publications

Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Anna-Leigh Brown, Oscar G Wilkins, Matthew J Keuss, Sarah E Kargbo-Hill, Matteo Zanovello, Weaverly Colleen Lee, Alexander Bampton, Flora C Y Lee, Laura Masino, Yue A Qi, Sam Bryce-Smith, Ariana Gatt, Martina Hallegger, Delphine Fagegaltier, Hemali Phatnani, null null, Jia Newcombe, Emil Karl Gustavsson, Sahba Seddighi, Joel F Reyes, Steven L Coon, Daniel Ramos, Giampietro Schiavo, Elizabeth M C Fisher, Towfique Raj, Maria Secrier, Tammaryn Lashley, Jernej Ule, Emanuele Buratti, Jack Humphrey, Michael Emmerson Ward, Pietro Fratta
Author Correction: TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A. Nature (2024)
Mie Monti, Reyme Herman, Leonardo Mancini, Charlotte Capitanchik, Karen Davey, Charlotte S Dawson, Jernej Ule, Gavin H Thomas, Anne E Willis, Kathryn S Lilley, Eneko Villanueva
Interrogation of RNA-protein interaction dynamics in bacterial growth. Molecular systems biology 20 (5) (2024)
Mie Monti, Reyme Herman, Leonardo Mancini, Charlotte Capitanchik, Karen Davey, Charlotte S Dawson, Jernej Ule, Gavin H Thomas, Anne E Willis, Kathryn S Lilley, Eneko Villanueva
Interrogation of RNA-protein interaction dynamics in bacterial growth. Molecular systems biology (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Miha Modic, Klara Kuret, Sebastian Steinhauser, Rupert Faraway, Emiel van Genderen, Ruiz De Los Mozos Igor, Jona Novljan, Žiga Vičič, Flora C Y Lee, Derk Ten Berge, Nicholas M Luscombe, Jernej Ule
Poised PABP-RNA hubs implement signal-dependent mRNA decay in development. Nature structural & molecular biology (2024)
Mie Monti, Reyme Herman, Leonardo Mancini, Charlotte Capitanchik, Karen Davey, Charlotte S Dawson, Jernej Ule, Gavin H Thomas, Anne E Willis, Kathryn S Lilley, Eneko Villanueva
Interrogation of RNA-protein interaction dynamics in bacterial growth. Molecular systems biology 20 (5) (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Mie Monti, Reyme Herman, Leonardo Mancini, Charlotte Capitanchik, Karen Davey, Charlotte S Dawson, Jernej Ule, Gavin H Thomas, Anne E Willis, Kathryn S Lilley, Eneko Villanueva
Interrogation of RNA-protein interaction dynamics in bacterial growth. Molecular systems biology 20 (5) (2024)
Miha Modic, Klara Kuret, Sebastian Steinhauser, Rupert Faraway, Emiel van Genderen, Ruiz De Los Mozos Igor, Jona Novljan, Žiga Vičič, Flora C Y Lee, Derk Ten Berge, Nicholas M Luscombe, Jernej Ule
Poised PABP-RNA hubs implement signal-dependent mRNA decay in development. Nature structural & molecular biology (2024)
Ira Alexandra Iosub, Oscar G Wilkins, Jernej Ule
Riboseq-flow: A streamlined, reliable pipeline for ribosome profiling data analysis and quality control. Wellcome open research 9 (2024)
Mie Monti, Reyme Herman, Leonardo Mancini, Charlotte Capitanchik, Karen Davey, Charlotte S Dawson, Jernej Ule, Gavin H Thomas, Anne E Willis, Kathryn S Lilley, Eneko Villanueva
Interrogation of RNA-protein interaction dynamics in bacterial growth. Molecular systems biology 20 (5) (2024)
Ira Alexandra Iosub, Oscar G Wilkins, Jernej Ule
Riboseq-flow: A streamlined, reliable pipeline for ribosome profiling data analysis and quality control. Wellcome open research 9 (2024)
Sahba Seddighi, Yue A Qi, Anna-Leigh Brown, Oscar G Wilkins, Colleen C Bereda, Cedric Belair, Yong-Jie Zhang, Mercedes Prudencio, Matthew J Keuss, Aditya Khandeshi, Sarah R Pickles, Sarah E Kargbo-Hill, James Hawrot, Daniel M Ramos, Hebao Yuan, Jessica Roberts, Erika Kelmer Sacramento, Syed I Shah, Mike A Nalls, Jennifer M Colón-Mercado, Joel F Reyes, Veronica H Ryan, Matthew P Nelson, Casey N Cook, Ziyi Li, Laurel A Screven, Justin Y Kwan, Puja R Mehta, Matteo Zanovello, Martina Hallegger, Anantharaman Shantaraman, Lingyan Ping, Yuka Koike, Björn E Oskarsson, Nathan P Staff, Duc M Duong, Aisha Ahmed, Maria Secrier, Jernej Ule, Steven Jacobson, Daniel S Reich, Jonathan Daniel Rohrer, Andrea Malaspina, Gourisankar Ghosh, Jonathan D Glass, Alessandro Ori, Nicholas T Seyfried, Manolis Maragkakis, Leonard Petrucelli, Pietro Fratta, Michael Emmerson Ward
Mis-spliced transcripts generate de novo proteins in TDP-43-related ALS/FTD. Science translational medicine 16 (734) (2024)
Charlotte West, Charlotte Capitanchik, Chris Cheshire, Nicholas M Luscombe, Anob M Chakrabarti, Jernej Ule
nf-core/clipseq - a robust Nextflow pipeline for comprehensive CLIP data analysis. Wellcome open research 8 (2023)
Rubika Balendra, Ruiz De Los Mozos Igor, Hana M Odeh, Idoia Glaria, Carmelo Milioto, Katherine M Wilson, Agnieszka M Ule, Martina Hallegger, Laura Masino, Stephen Martin, Rickie Patani, James Shorter, Jernej Ule, Adrian M Isaacs
Transcriptome-wide RNA binding analysis of C9orf72 poly(PR) dipeptides. Life science alliance 6 (9) (2023)
Julie Qiaojin Lin, Deepak Khuperkar, Sofia Pavlou, Stanislaw Makarchuk, Nikolaos Patikas, Flora C Y Lee, Julia M Zbiegly, Jianning Kang, Sarah F Field, David Md Bailey, Joshua L Freeman, Jernej Ule, Emmanouil Metzakopian, Marc-David Ruepp, Giovanna R Mallucci
HNRNPH1 regulates the neuroprotective cold-shock protein RBM3 expression through poison exon exclusion. The EMBO journal (2023)
Aina Maria Mas, Enrique Goñi, Ruiz De Los Mozos Igor, Aida Arcas, Luisa Statello, Jovanna González, Lorea Blázquez, Wei Ting Chelsea Lee, Dipika Gupta, Álvaro Sejas, Shoko Hoshina, Alexandros Armaos, Gian Gaetano Tartaglia, Shou Waga, Jernej Ule, Eli Rothenberg, María Gómez, Maite Huarte
ORC1 binds to cis-transcribed RNAs for efficient activation of replication origins. Nature communications 14 (1) (2023)
Anob M Chakrabarti, Charlotte Capitanchik, Jernej Ule, Nicholas M Luscombe
clipplotr - a comparative visualisation and analysis tool for CLIP data. RNA (New York, N.Y.) (2023)
Chiara Pederiva, Davide M Trevisan, Dimitra Peirasmaki, Shan Chen, Sharon A Savage, Ola Larsson, Jernej Ule, Laura Baranello, Federico Agostini, Marianne Farnebo
Control of protein synthesis through mRNA pseudouridylation by dyskerin. Science advances 9 (30) (2023)
Anob M Chakrabarti, Ira Alexandra Iosub, Flora C Y Lee, Jernej Ule, Nicholas M Luscombe
A computationally-enhanced hiCLIP atlas reveals Staufen1-RNA binding features and links 3' UTR structure to RNA metabolism. Nucleic acids research (2023)
Muhammad S Azman, Emilie L Alard, Martin Dodel, Federica Capraro, Rupert Faraway, Maria Dermit, Wanling Fan, Alina Chakraborty, Jernej Ule, Faraz K Mardakheh
An ERK1/2-driven RNA-binding switch in nucleolin drives ribosome biogenesis and pancreatic tumorigenesis downstream of RAS oncogene. The EMBO journal (2023)
Anna-Leigh Brown, Oscar G Wilkins, Matthew J Keuss, Sarah E Kargbo-Hill, Matteo Zanovello, Weaverly Colleen Lee, Alexander Bampton, Flora C Y Lee, Laura Masino, Yue A Qi, Sam Bryce-Smith, Ariana Gatt, Martina Hallegger, Delphine Fagegaltier, Hemali Phatnani, null null, Jia Newcombe, Emil K Gustavsson, Sahba Seddighi, Joel F Reyes, Steven L Coon, Daniel Ramos, Giampietro Schiavo, Elizabeth M C Fisher, Towfique Raj, Maria Secrier, Tammaryn Lashley, Jernej Ule, Emanuele Buratti, Jack Humphrey, Michael E Ward, Pietro Fratta
TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A. Nature 603 (7899) (2022)
Radhika A Varier, Theodora Sideri, Charlotte Capitanchik, Zornitsa Manova, Enrica Calvani, Alice Rossi, Raghu R Edupuganti, Imke Ensinck, Vincent W C Chan, Harshil Patel, Joanna Kirkpatrick, Peter Faull, Ambrosius P Snijders, Michiel Vermeulen, Markus Ralser, Jernej Ule, Nicholas M Luscombe, Folkert Jacobus van Werven
N6 -methyladenosine (m6A) reader Pho92 is recruited co-transcriptionally and couples translation to mRNA decay to promote meiotic fitness in yeast. eLife 11 (2022)
Klara Kuret, Aram Gustav Amalietti, D Marc Jones, Charlotte Capitanchik, Jernej Ule
Positional motif analysis reveals the extent of specificity of protein-RNA interactions observed by CLIP. Genome biology 23 (1) (2022)
Oscar G Wilkins, Charlotte Capitanchik, Nicholas M Luscombe, Jernej Ule
Ultraplex: A rapid, flexible, all-in-one fastq demultiplexer. Wellcome open research 6 (2021)
Silvia Martini, Khalil Davis, Rupert Faraway, Lisa Elze, Nicola Lockwood, Andrew Jones, Xiao Xie, Neil Q McDonald, David J Mann, Alan Armstrong, Jernej Ule, Peter J Parker
A genetically-encoded crosslinker screen identifies SERBP1 as a PKCε substrate influencing translation and cell division. Nature communications 12 (1) (2021)
Roberto Simone, Faiza Javad, Warren Emmett, Oscar G Wilkins, Filipa Lourenço Almeida, Natalia Barahona-Torres, Justyna Zareba-Paslawska, Mazdak Ehteramyan, Paola Zuccotti, Angelika Modelska, Kavitha Siva, Gurvir S Virdi, Jamie S Mitchell, Jasmine Harley, Victoria A Kay, Geshanthi Hondhamuni, Daniah Trabzuni, Mina Ryten, Selina Wray, Elisavet Preza, Demis A Kia, Alan M Pittman, Raffaele Ferrari, Claudia Manzoni, Andrew Lees, John A Hardy, Michela A Denti, Alessandro Quattrone, Rickie Patani, Per Svenningsson, Thomas Treharne Warner, Vincent Plagnol, Jernej Ule, Rohan de Silva
MIR-NATs repress MAPT translation and aid proteostasis in neurodegeneration. Nature 594 (7861) (2021)
Mahmoud-Reza Rafiee, Julian A Zagalak, Sviatoslav Sidorov, Sebastian Steinhauser, Karen Davey, Jernej Ule, Nicholas M Luscombe
Chromatin-contact atlas reveals disorder-mediated protein interactions and moonlighting chromatin-associated RBPs. Nucleic acids research (2021)
Guifeng Wei, Mafalda Almeida, Greta Pintacuda, Heather Coker, Joseph S Bowness, Jernej Ule, Neil Brockdorff
Acute depletion of METTL3 implicates N 6-methyladenosine in alternative intron/exon inclusion in the nascent transcriptome. Genome research 31 (8) (2021)
Adrien Leger, Paulo P Amaral, Luca Pandolfini, Charlotte Capitanchik, Federica Capraro, Valentina Miano, Valentina Migliori, Patrick Toolan-Kerr, Theodora Sideri, Anton J Enright, Konstantinos Tzelepis, Folkert Jacobus van Werven, Nicholas M Luscombe, Isaia Barbieri, Jernej Ule, Tomas W Fitzgerald, Ewan Birney, Tommaso Leonardi, Tony Kouzarides
RNA modifications detection by comparative Nanopore direct RNA sequencing. Nature communications 12 (1) (2021)
Lisa M Strittmatter, Charlotte Capitanchik, Andrew J Newman, Martina Hallegger, Christine M Norman, Sebastian M Fica, Chris Oubridge, Nicholas M Luscombe, Jernej Ule, Kiyoshi Nagai
psiCLIP reveals dynamic RNA binding by DEAH-box helicases before and after exon ligation. Nature communications 12 (1) (2021)
Pavla Gajdušková, Ruiz De Los Mozos Igor, Michal Rájecký, Milan Hluchý, Jernej Ule, Dalibor Blazek
CDK11 is required for transcription of replication-dependent histone genes. Nature structural & molecular biology 27 (5) (2020)
Helene Rundqivst, Pedro Veliça, Laura Barbieri, Paulo A Gameiro, David Bargiela, Milos Gojkovic, Sara Mijwel, Stefan Markus Reitzner, David Wullimann, Emil Ahlstedt, Jernej Ule, Arne Östman, Randall S Johnson
Cytotoxic T-cells mediate exercise-induced reductions in tumor growth. eLife 9 (2020)
Michael Briese, Nejc Haberman, Christopher R Sibley, Rupert Faraway, Andrea S Elser, Anob M Chakrabarti, Zhen Wang, Julian König, David Perera, Vihandha O Wickramasinghe, Ashok R Venkitaraman, Nicholas M Luscombe, Luciano Saieva, Livio Pellizzoni, Christopher W J Smith, Tomaz Curk, Jernej Ule
A systems view of spliceosomal assembly and branchpoints with iCLIP. Nature structural & molecular biology 26 (10) (2019)
Ina Huppertz, Nejc Haberman, Jernej Ule
'Read-through marking' reveals differential nucleotide composition of read-through and truncated cDNAs in iCLIP. Wellcome open research 3 (2018)
Federico Agostini, Jernej Ule, Julian A Zagalak
No way out: when RNA elements promote nuclear retention. The EMBO journal 37 (6) (2018)
Lilli Olgeiser, Carl Haag, Susan Boerner, Jernej Ule, Anke Busch, Janine Koepke, Julian König, Michael Feldbrügge, Kathi Zarnack
The key protein of endosomal mRNP transport Rrm4 binds translational landmark sites of cargo mRNAs. EMBO reports 20 (1) (2018)
Dang Vinh Do, Bernhard Strauss, Engin Cukuroglu, Iain Macaulay, Keng Boon Wee, Tim Xiaoming Hu, Ruiz De Los Mozos Igor, Caroline Lee, Andrew Harrison, Richard Butler, Sabine Dietmann, Jernej Ule, John Marioni, Christopher W J Smith, Jonathan Goke, M Azim Surani
SRSF3 maintains transcriptome integrity in oocytes by regulation of alternative splicing and transposable elements. Cell discovery 4 (2018)
Tejaswini Sharangdhar, Yoichiro Sugimoto, Jacqueline Heraud-Farlow, Sandra M Fernández-Moya, Janina Ehses, Ruiz De Los Mozos Igor, Jernej Ule, Michael A Kiebler
A retained intron in the 3'-UTR of Calm3 mRNA mediates its Staufen2- and activity-dependent localization to neuronal dendrites. EMBO reports 18 (10) (2017)
Nejc Haberman, Ina Huppertz, Jan Attig, Julian König, Zhen Wang, Christian Hauer, Matthias W Hentze, Andreas E Kulozik, Hervé Le Hir, Tomaž Curk, Christopher R Sibley, Kathi Zarnack, Jernej Ule
Insights into the design and interpretation of iCLIP experiments. Genome biology 18 (1) (2017)
Franziska Ottens, Volker Boehm, Christopher R Sibley, Jernej Ule, Niels H Gehring
Transcript-specific characteristics determine the contribution of endo- and exonucleolytic decay pathways during the degradation of nonsense-mediated decay substrates. RNA (New York, N.Y.) 23 (8) (2017)
Yoichiro Sugimoto, Anob M Chakrabarti, Nicholas M Luscombe, Jernej Ule
Using hiCLIP to identify RNA duplexes that interact with a specific RNA-binding protein. Nature protocols 12 (3) (2017)
Manuel D Diaz-Muñoz, Vladimir Yu Kiselev, Nicolas Le Novère, Tomaz Curk, Jernej Ule, Martin Turner
Tia1 dependent regulation of mRNA subcellular location and translation controls p53 expression in B cells. Nature communications 8 (1) (2017)
Jan Attig, Ruiz De Los Mozos Igor, Nejc Haberman, Zhen Wang, Warren Emmett, Kathi Zarnack, Julian König, Jernej Ule
Splicing repression allows the gradual emergence of new Alu-exons in primate evolution. eLife 5 (2016)
Manuel Beltran, Christopher M Yates, Lenka Skalska, Marcus Dawson, Filipa P Reis, Keijo Viiri, Cynthia L Fisher, Christopher R Sibley, Benjamin M Foster, Till Bartke, Jernej Ule, Richard G Jenner
The interaction of PRC2 with RNA or chromatin is mutually antagonistic. Genome research 26 (7) (2016)
Manuel D Diaz-Muñoz, Sarah E Bell, Kirsten Fairfax, Elisa Monzon-Casanova, Adam F Cunningham, Mar Gonzalez-Porta, Simon R Andrews, Victoria I Bunik, Kathi Zarnack, Tomaž Curk, Ward A Heggermont, Stephane Heymans, Gary E Gibson, Dimitris L Kontoyiannis, Jernej Ule, Martin Turner
The RNA-binding protein HuR is essential for the B cell antibody response. Nature immunology 16 (4) (2015)

Jernej Ule.css-eqlu8i{font-size:small;padding-left:4px;} (Ule Jernej)

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Jernej Ule (Ule Jernej)