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Breadcrumb Jernej Ule Ule lab RNA Networks Laboratory : Publications Lab contentLab contentIn this section Overview Areas of interest Publications Members Vacancies Genes in the brain are very long and can be transcribed into diverse RNAs. Toggle to view hero caption PublicationsYear published (-)2018 (13) Facet Year publishedResearch topicsBiochemistry & Proteomics (13)Computational & Systems Biology (13)Gene Expression (13)Genetics & Genomics (13)Neurosciences (13)Stem Cells (13)Tumour Biology (4)Cell Biology (1) Facet Research topicsPublication typeJournal article (13)Primary research (7)Review (4)Commentary (1)Method (1) Facet Publication typeJournalEMBO Journal (2)Molecular Cell (2)Annual Review of Biomedical Data Science (1)Cell (1)Cold Spring Harbor Perspectives in Biology (1)eLife (1)EMBO Reports (1)Nature (1)Nature Communications (1)RNA Biology (1)Wellcome Open Research (1) Facet Journal Publications Displaying 1 - 13 of 13Last updated : 16 April 2024 02:05 The key protein of endosomal mRNP transport Rrm4 binds translational landmark sites of cargo mRNAs Authors (9) Lilli Olgeiser Carl Haag Susan BoernerJernej Ule Anke Busch Janine Koepke Julian König Michael Feldbrügge Kathi Zarnack EMBO Reports Published 1 January 2019 Crick labsJernej UleFull details Exon junction complex shapes the transcriptome by repressing recursive splicing Authors (11)Lorea Blazquez-Garcia Warren EmmettRupert Faraway Jose Mario Bello Pineda Simon Bajew Andre Gohr Nejc Haberman Christopher R Sibley Robert K Bradley Manuel IrimiaJernej Ule Molecular Cell Published 1 November 2018 Crick labs/ facilitiesJernej UleCell ServicesAdvanced SequencingFull details Heteromeric RNP assembly at LINEs controls lineage-specific RNA processing Authors (11)Jan Attig Federico Agostini Clare GoodingAnob Chakrabarti Aarti Singh Nejc HabermanJulian Zagalak Warren Emmett Christopher WJ SmithNicholas LuscombeJernej Ule Cell Published 2 August 2018 Crick labsJernej UleNicholas LuscombeFull details The future of cross-lnking and imunoprecipitation (CLIP) Authors (3)Jernej Ule Hun-Way Hwang Robert B Darnell Cold Spring Harbor Perspectives in Biology Published 1 August 2018 Crick labsJernej UleFull details Data science issues in studying protein–RNA interactions with CLIP technologies Authors (5) Anob M Chakrabarti Nejc Haberman Arne PraznikNicholas LuscombeJernej Ule Annual Review of Biomedical Data Science Published 1 July 2018 Crick labsJernej UleNicholas LuscombeFull details Read-through marking' reveals differential nucleotide composition of read-through and truncated cDNAs in iCLIP Authors (3) Ina Huppertz Nejc HabermanJernej Ule Wellcome Open Research Published 22 June 2018 Crick labsJernej UleFull details Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS Authors (13) Raphaelle LuisierGiulia Tyzack Claire E HallJamie MitchellHelen DevineDoaa Taha[...] Linda Greensmith Jia NewcombeJernej UleNicholas LuscombeRickie Patani Nature Communications Published 22 May 2018 Crick labsJernej UleRickie PataniNicholas LuscombeFull details Mice with endogenous TDP-43 mutations exhibit gain of splicing function and characteristics of amyotrophic lateral sclerosis Authors (42) Pietro Fratta Prasanth Sivakumar Jack Humphrey Kitty Lo Thomas Ricketts Hugo Oliveira[...] Linda Greensmith Emanuele Buratti Vincent Plagnol Elizabeth MC Fisher Abraham Acevedo-Arozena EMBO Journal Published 1 June 2018 Crick labsJernej UleFull details Positioning Europe for the EPITRANSCRIPTOMICS challenge Authors (60) Michael F Jantsch Alessandro Quattrone Mary O'Connell Mark Helm Michaela Frye Manuel Macias-Gonzales[...] Alberto Davalos Ester Ballana Donal O'CarrollJernej Ule Rupert Fray RNA Biology Published 9 May 2018 Crick labsJernej UleFull details SRSF3 promotes pluripotency through Nanog mRNA export and coordination of the pluripotency gene expression program Authors (9) Madara Ratnadiwakara Stuart K Archer Craig I DentIgor Ruiz De Los Mozos Traude H Beilharz Anja S Knaupp Christian M Nefzger Jose M Polo Minna-Liisa Anko eLife Published 9 May 2018 Crick labsJernej UleFull details No way out: when RNA elements promote nuclear retention Authors (3) Federico AgostiniJernej UleJulian Zagalak EMBO Journal Published 15 March 2018 Crick labsJernej UleNicholas LuscombeFull details The SMAD2/3 interactome reveals that TGFβ controls m6A mRNA methylation in pluripotency Authors (18) Alessandro Bertero Stephanie Brown Pedro Madrigal Anna Osnato Daniel Ortmann Loukia Yiangou[...] Edward FarnellJernej Ule Hendrik G Stunnenberg Sasha Mendjan Ludovic Vallier Nature Published 8 March 2018 Crick labsJernej UleFull details Advances in CLIP technologies for studies of protein-RNA interactions Authors (2) Flora CY LeeJernej Ule Molecular Cell Published 1 February 2018 Crick labsJernej UleFull details Share the page Share on Twitter Share on Facebook Share on LinkedIn Share on Email
The key protein of endosomal mRNP transport Rrm4 binds translational landmark sites of cargo mRNAs Authors (9) Lilli Olgeiser Carl Haag Susan BoernerJernej Ule Anke Busch Janine Koepke Julian König Michael Feldbrügge Kathi Zarnack EMBO Reports Published 1 January 2019 Crick labsJernej UleFull details
Exon junction complex shapes the transcriptome by repressing recursive splicing Authors (11)Lorea Blazquez-Garcia Warren EmmettRupert Faraway Jose Mario Bello Pineda Simon Bajew Andre Gohr Nejc Haberman Christopher R Sibley Robert K Bradley Manuel IrimiaJernej Ule Molecular Cell Published 1 November 2018 Crick labs/ facilitiesJernej UleCell ServicesAdvanced SequencingFull details
Heteromeric RNP assembly at LINEs controls lineage-specific RNA processing Authors (11)Jan Attig Federico Agostini Clare GoodingAnob Chakrabarti Aarti Singh Nejc HabermanJulian Zagalak Warren Emmett Christopher WJ SmithNicholas LuscombeJernej Ule Cell Published 2 August 2018 Crick labsJernej UleNicholas LuscombeFull details
The future of cross-lnking and imunoprecipitation (CLIP) Authors (3)Jernej Ule Hun-Way Hwang Robert B Darnell Cold Spring Harbor Perspectives in Biology Published 1 August 2018 Crick labsJernej UleFull details
Data science issues in studying protein–RNA interactions with CLIP technologies Authors (5) Anob M Chakrabarti Nejc Haberman Arne PraznikNicholas LuscombeJernej Ule Annual Review of Biomedical Data Science Published 1 July 2018 Crick labsJernej UleNicholas LuscombeFull details
Read-through marking' reveals differential nucleotide composition of read-through and truncated cDNAs in iCLIP Authors (3) Ina Huppertz Nejc HabermanJernej Ule Wellcome Open Research Published 22 June 2018 Crick labsJernej UleFull details
Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS Authors (13) Raphaelle LuisierGiulia Tyzack Claire E HallJamie MitchellHelen DevineDoaa Taha[...] Linda Greensmith Jia NewcombeJernej UleNicholas LuscombeRickie Patani Nature Communications Published 22 May 2018 Crick labsJernej UleRickie PataniNicholas LuscombeFull details
Mice with endogenous TDP-43 mutations exhibit gain of splicing function and characteristics of amyotrophic lateral sclerosis Authors (42) Pietro Fratta Prasanth Sivakumar Jack Humphrey Kitty Lo Thomas Ricketts Hugo Oliveira[...] Linda Greensmith Emanuele Buratti Vincent Plagnol Elizabeth MC Fisher Abraham Acevedo-Arozena EMBO Journal Published 1 June 2018 Crick labsJernej UleFull details
Positioning Europe for the EPITRANSCRIPTOMICS challenge Authors (60) Michael F Jantsch Alessandro Quattrone Mary O'Connell Mark Helm Michaela Frye Manuel Macias-Gonzales[...] Alberto Davalos Ester Ballana Donal O'CarrollJernej Ule Rupert Fray RNA Biology Published 9 May 2018 Crick labsJernej UleFull details
SRSF3 promotes pluripotency through Nanog mRNA export and coordination of the pluripotency gene expression program Authors (9) Madara Ratnadiwakara Stuart K Archer Craig I DentIgor Ruiz De Los Mozos Traude H Beilharz Anja S Knaupp Christian M Nefzger Jose M Polo Minna-Liisa Anko eLife Published 9 May 2018 Crick labsJernej UleFull details
No way out: when RNA elements promote nuclear retention Authors (3) Federico AgostiniJernej UleJulian Zagalak EMBO Journal Published 15 March 2018 Crick labsJernej UleNicholas LuscombeFull details
The SMAD2/3 interactome reveals that TGFβ controls m6A mRNA methylation in pluripotency Authors (18) Alessandro Bertero Stephanie Brown Pedro Madrigal Anna Osnato Daniel Ortmann Loukia Yiangou[...] Edward FarnellJernej Ule Hendrik G Stunnenberg Sasha Mendjan Ludovic Vallier Nature Published 8 March 2018 Crick labsJernej UleFull details
Advances in CLIP technologies for studies of protein-RNA interactions Authors (2) Flora CY LeeJernej Ule Molecular Cell Published 1 February 2018 Crick labsJernej UleFull details
