Karla M Neugebauer. Cold Spring Harb Perspect Biol 2019
Times Cited: 39
Times Cited: 39
Times Cited
Times Co-cited
Similarity
Splicing Kinetics and Coordination Revealed by Direct Nascent RNA Sequencing through Nanopores.
Heather L Drexler, Karine Choquet, L Stirling Churchman. Mol Cell 2020
Heather L Drexler, Karine Choquet, L Stirling Churchman. Mol Cell 2020
33
25
Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate.
Nova Fong, Hyunmin Kim, Yu Zhou, Xiong Ji, Jinsong Qiu, Tassa Saldi, Katrina Diener, Ken Jones, Xiang-Dong Fu, David L Bentley. Genes Dev 2014
Nova Fong, Hyunmin Kim, Yu Zhou, Xiong Ji, Jinsong Qiu, Tassa Saldi, Katrina Diener, Ken Jones, Xiang-Dong Fu, David L Bentley. Genes Dev 2014
23
Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons.
Iris Jonkers, Hojoong Kwak, John T Lis. Elife 2014
Iris Jonkers, Hojoong Kwak, John T Lis. Elife 2014
23
Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing.
Takayuki Nojima, Tomás Gomes, Ana Rita Fialho Grosso, Hiroshi Kimura, Michael J Dye, Somdutta Dhir, Maria Carmo-Fonseca, Nicholas J Proudfoot. Cell 2015
Takayuki Nojima, Tomás Gomes, Ana Rita Fialho Grosso, Hiroshi Kimura, Michael J Dye, Somdutta Dhir, Maria Carmo-Fonseca, Nicholas J Proudfoot. Cell 2015
23
Transcription rate strongly affects splicing fidelity and cotranscriptionality in budding yeast.
Vahid Aslanzadeh, Yuanhua Huang, Guido Sanguinetti, Jean D Beggs. Genome Res 2018
Vahid Aslanzadeh, Yuanhua Huang, Guido Sanguinetti, Jean D Beggs. Genome Res 2018
20
Splicing of Nascent RNA Coincides with Intron Exit from RNA Polymerase II.
Fernando Carrillo Oesterreich, Lydia Herzel, Korinna Straube, Katja Hujer, Jonathon Howard, Karla M Neugebauer. Cell 2016
Fernando Carrillo Oesterreich, Lydia Herzel, Korinna Straube, Katja Hujer, Jonathon Howard, Karla M Neugebauer. Cell 2016
20
A slow RNA polymerase II affects alternative splicing in vivo.
Manuel de la Mata, Claudio R Alonso, Sebastián Kadener, Juan P Fededa, Matías Blaustein, Federico Pelisch, Paula Cramer, David Bentley, Alberto R Kornblihtt. Mol Cell 2003
Manuel de la Mata, Claudio R Alonso, Sebastián Kadener, Juan P Fededa, Matías Blaustein, Federico Pelisch, Paula Cramer, David Bentley, Alberto R Kornblihtt. Mol Cell 2003
20
STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
20
Native elongating transcript sequencing reveals human transcriptional activity at nucleotide resolution.
Andreas Mayer, Julia di Iulio, Seth Maleri, Umut Eser, Jeff Vierstra, Alex Reynolds, Richard Sandstrom, John A Stamatoyannopoulos, L Stirling Churchman. Cell 2015
Andreas Mayer, Julia di Iulio, Seth Maleri, Umut Eser, Jeff Vierstra, Alex Reynolds, Richard Sandstrom, John A Stamatoyannopoulos, L Stirling Churchman. Cell 2015
17
Coupling of RNA Polymerase II Transcription Elongation with Pre-mRNA Splicing.
Tassa Saldi, Michael A Cortazar, Ryan M Sheridan, David L Bentley. J Mol Biol 2016
Tassa Saldi, Michael A Cortazar, Ryan M Sheridan, David L Bentley. J Mol Biol 2016
17
TT-seq maps the human transient transcriptome.
Björn Schwalb, Margaux Michel, Benedikt Zacher, Katja Frühauf, Carina Demel, Achim Tresch, Julien Gagneur, Patrick Cramer. Science 2016
Björn Schwalb, Margaux Michel, Benedikt Zacher, Katja Frühauf, Carina Demel, Achim Tresch, Julien Gagneur, Patrick Cramer. Science 2016
17
Splicing and transcription touch base: co-transcriptional spliceosome assembly and function.
Lydia Herzel, Diana S M Ottoz, Tara Alpert, Karla M Neugebauer. Nat Rev Mol Cell Biol 2017
Lydia Herzel, Diana S M Ottoz, Tara Alpert, Karla M Neugebauer. Nat Rev Mol Cell Biol 2017
17
Co-transcriptional splicing and the CTD code.
Noélia Custódio, Maria Carmo-Fonseca. Crit Rev Biochem Mol Biol 2016
Noélia Custódio, Maria Carmo-Fonseca. Crit Rev Biochem Mol Biol 2016
22
Linking transcription, RNA polymerase II elongation and alternative splicing.
Luciana E Giono, Alberto R Kornblihtt. Biochem J 2020
Luciana E Giono, Alberto R Kornblihtt. Biochem J 2020
53
How slow RNA polymerase II elongation favors alternative exon skipping.
Gwendal Dujardin, Celina Lafaille, Manuel de la Mata, Luciano E Marasco, Manuel J Muñoz, Catherine Le Jossic-Corcos, Laurent Corcos, Alberto R Kornblihtt. Mol Cell 2014
Gwendal Dujardin, Celina Lafaille, Manuel de la Mata, Luciano E Marasco, Manuel J Muñoz, Catherine Le Jossic-Corcos, Laurent Corcos, Alberto R Kornblihtt. Mol Cell 2014
15
Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation.
Joanna Y Ip, Dominic Schmidt, Qun Pan, Arun K Ramani, Andrew G Fraser, Duncan T Odom, Benjamin J Blencowe. Genome Res 2011
Joanna Y Ip, Dominic Schmidt, Qun Pan, Arun K Ramani, Andrew G Fraser, Duncan T Odom, Benjamin J Blencowe. Genome Res 2011
15
The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
15
Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation.
Leighton Core, Karen Adelman. Genes Dev 2019
Leighton Core, Karen Adelman. Genes Dev 2019
15
Recursive splicing in long vertebrate genes.
Christopher R Sibley, Warren Emmett, Lorea Blazquez, Ana Faro, Nejc Haberman, Michael Briese, Daniah Trabzuni, Mina Ryten, Michael E Weale, John Hardy,[...]. Nature 2015
Christopher R Sibley, Warren Emmett, Lorea Blazquez, Ana Faro, Nejc Haberman, Michael Briese, Daniah Trabzuni, Mina Ryten, Michael E Weale, John Hardy,[...]. Nature 2015
15
Transcription and splicing: A two-way street.
Michael Tellier, Isabella Maudlin, Shona Murphy. Wiley Interdiscip Rev RNA 2020
Michael Tellier, Isabella Maudlin, Shona Murphy. Wiley Interdiscip Rev RNA 2020
19
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
15
Spliceosome structure and function.
Cindy L Will, Reinhard Lührmann. Cold Spring Harb Perspect Biol 2011
Cindy L Will, Reinhard Lührmann. Cold Spring Harb Perspect Biol 2011
12
Global donor and acceptor splicing site kinetics in human cells.
Leonhard Wachutka, Livia Caizzi, Julien Gagneur, Patrick Cramer. Elife 2019
Leonhard Wachutka, Livia Caizzi, Julien Gagneur, Patrick Cramer. Elife 2019
19
Nascent-seq indicates widespread cotranscriptional pre-mRNA splicing in Drosophila.
Yevgenia L Khodor, Joseph Rodriguez, Katharine C Abruzzi, Chih-Hang Anthony Tang, Michael T Marr, Michael Rosbash. Genes Dev 2011
Yevgenia L Khodor, Joseph Rodriguez, Katharine C Abruzzi, Chih-Hang Anthony Tang, Michael T Marr, Michael Rosbash. Genes Dev 2011
12
Total RNA sequencing reveals nascent transcription and widespread co-transcriptional splicing in the human brain.
Adam Ameur, Ammar Zaghlool, Jonatan Halvardson, Anna Wetterbom, Ulf Gyllensten, Lucia Cavelier, Lars Feuk. Nat Struct Mol Biol 2011
Adam Ameur, Ammar Zaghlool, Jonatan Halvardson, Anna Wetterbom, Ulf Gyllensten, Lucia Cavelier, Lars Feuk. Nat Struct Mol Biol 2011
12
Nascent transcript sequencing visualizes transcription at nucleotide resolution.
L Stirling Churchman, Jonathan S Weissman. Nature 2011
L Stirling Churchman, Jonathan S Weissman. Nature 2011
12
Expansion of the eukaryotic proteome by alternative splicing.
Timothy W Nilsen, Brenton R Graveley. Nature 2010
Timothy W Nilsen, Brenton R Graveley. Nature 2010
12
RNA splicing. The human splicing code reveals new insights into the genetic determinants of disease.
Hui Y Xiong, Babak Alipanahi, Leo J Lee, Hannes Bretschneider, Daniele Merico, Ryan K C Yuen, Yimin Hua, Serge Gueroussov, Hamed S Najafabadi, Timothy R Hughes,[...]. Science 2015
Hui Y Xiong, Babak Alipanahi, Leo J Lee, Hannes Bretschneider, Daniele Merico, Ryan K C Yuen, Yimin Hua, Serge Gueroussov, Hamed S Najafabadi, Timothy R Hughes,[...]. Science 2015
12
Alternative splicing as a regulator of development and tissue identity.
Francisco E Baralle, Jimena Giudice. Nat Rev Mol Cell Biol 2017
Francisco E Baralle, Jimena Giudice. Nat Rev Mol Cell Biol 2017
12
Context-dependent control of alternative splicing by RNA-binding proteins.
Xiang-Dong Fu, Manuel Ares. Nat Rev Genet 2014
Xiang-Dong Fu, Manuel Ares. Nat Rev Genet 2014
12
Pol II phosphorylation regulates a switch between transcriptional and splicing condensates.
Yang Eric Guo, John C Manteiga, Jonathan E Henninger, Benjamin R Sabari, Alessandra Dall'Agnese, Nancy M Hannett, Jan-Hendrik Spille, Lena K Afeyan, Alicia V Zamudio, Krishna Shrinivas,[...]. Nature 2019
Yang Eric Guo, John C Manteiga, Jonathan E Henninger, Benjamin R Sabari, Alessandra Dall'Agnese, Nancy M Hannett, Jan-Hendrik Spille, Lena K Afeyan, Alicia V Zamudio, Krishna Shrinivas,[...]. Nature 2019
12
Exon-Mediated Activation of Transcription Starts.
Ana Fiszbein, Keegan S Krick, Bridget E Begg, Christopher B Burge. Cell 2019
Ana Fiszbein, Keegan S Krick, Bridget E Begg, Christopher B Burge. Cell 2019
12
A splicing-dependent transcriptional checkpoint associated with prespliceosome formation.
Keerthi T Chathoth, J David Barrass, Shaun Webb, Jean D Beggs. Mol Cell 2014
Keerthi T Chathoth, J David Barrass, Shaun Webb, Jean D Beggs. Mol Cell 2014
12
12
The spliceosome: design principles of a dynamic RNP machine.
Markus C Wahl, Cindy L Will, Reinhard Lührmann. Cell 2009
Markus C Wahl, Cindy L Will, Reinhard Lührmann. Cell 2009
12
RNA Polymerase II Phosphorylated on CTD Serine 5 Interacts with the Spliceosome during Co-transcriptional Splicing.
Takayuki Nojima, Kenny Rebelo, Tomás Gomes, Ana Rita Grosso, Nicholas J Proudfoot, Maria Carmo-Fonseca. Mol Cell 2018
Takayuki Nojima, Kenny Rebelo, Tomás Gomes, Ana Rita Grosso, Nicholas J Proudfoot, Maria Carmo-Fonseca. Mol Cell 2018
12
RNA Splicing by the Spliceosome.
Max E Wilkinson, Clément Charenton, Kiyoshi Nagai. Annu Rev Biochem 2020
Max E Wilkinson, Clément Charenton, Kiyoshi Nagai. Annu Rev Biochem 2020
12
Splice site selection, rate of splicing, and alternative splicing on nascent transcripts.
A L Beyer, Y N Osheim. Genes Dev 1988
A L Beyer, Y N Osheim. Genes Dev 1988
12
Alternative isoform regulation in human tissue transcriptomes.
Eric T Wang, Rickard Sandberg, Shujun Luo, Irina Khrebtukova, Lu Zhang, Christine Mayr, Stephen F Kingsmore, Gary P Schroth, Christopher B Burge. Nature 2008
Eric T Wang, Rickard Sandberg, Shujun Luo, Irina Khrebtukova, Lu Zhang, Christine Mayr, Stephen F Kingsmore, Gary P Schroth, Christopher B Burge. Nature 2008
12
Structural Insights into Nuclear pre-mRNA Splicing in Higher Eukaryotes.
Berthold Kastner, Cindy L Will, Holger Stark, Reinhard Lührmann. Cold Spring Harb Perspect Biol 2019
Berthold Kastner, Cindy L Will, Holger Stark, Reinhard Lührmann. Cold Spring Harb Perspect Biol 2019
12
Long-read sequencing of nascent RNA reveals coupling among RNA processing events.
Lydia Herzel, Korinna Straube, Karla M Neugebauer. Genome Res 2018
Lydia Herzel, Korinna Straube, Karla M Neugebauer. Genome Res 2018
12
CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing.
Sanjeev Shukla, Ersen Kavak, Melissa Gregory, Masahiko Imashimizu, Bojan Shutinoski, Mikhail Kashlev, Philipp Oberdoerffer, Rickard Sandberg, Shalini Oberdoerffer. Nature 2011
Sanjeev Shukla, Ersen Kavak, Melissa Gregory, Masahiko Imashimizu, Bojan Shutinoski, Mikhail Kashlev, Philipp Oberdoerffer, Rickard Sandberg, Shalini Oberdoerffer. Nature 2011
12
Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals.
Gene Yeo, Christopher B Burge. J Comput Biol 2004
Gene Yeo, Christopher B Burge. J Comput Biol 2004
12
Widespread intron retention in mammals functionally tunes transcriptomes.
Ulrich Braunschweig, Nuno L Barbosa-Morais, Qun Pan, Emil N Nachman, Babak Alipanahi, Thomas Gonatopoulos-Pournatzis, Brendan Frey, Manuel Irimia, Benjamin J Blencowe. Genome Res 2014
Ulrich Braunschweig, Nuno L Barbosa-Morais, Qun Pan, Emil N Nachman, Babak Alipanahi, Thomas Gonatopoulos-Pournatzis, Brendan Frey, Manuel Irimia, Benjamin J Blencowe. Genome Res 2014
12
Transient N-6-Methyladenosine Transcriptome Sequencing Reveals a Regulatory Role of m6A in Splicing Efficiency.
Annita Louloupi, Evgenia Ntini, Thomas Conrad, Ulf Andersson Vang Ørom. Cell Rep 2018
Annita Louloupi, Evgenia Ntini, Thomas Conrad, Ulf Andersson Vang Ørom. Cell Rep 2018
10
Thiol-linked alkylation of RNA to assess expression dynamics.
Veronika A Herzog, Brian Reichholf, Tobias Neumann, Philipp Rescheneder, Pooja Bhat, Thomas R Burkard, Wiebke Wlotzka, Arndt von Haeseler, Johannes Zuber, Stefan L Ameres. Nat Methods 2017
Veronika A Herzog, Brian Reichholf, Tobias Neumann, Philipp Rescheneder, Pooja Bhat, Thomas R Burkard, Wiebke Wlotzka, Arndt von Haeseler, Johannes Zuber, Stefan L Ameres. Nat Methods 2017
10
Nuclear m6A reader YTHDC1 regulates alternative polyadenylation and splicing during mouse oocyte development.
Seth D Kasowitz, Jun Ma, Stephen J Anderson, N Adrian Leu, Yang Xu, Brian D Gregory, Richard M Schultz, P Jeremy Wang. PLoS Genet 2018
Seth D Kasowitz, Jun Ma, Stephen J Anderson, N Adrian Leu, Yang Xu, Brian D Gregory, Richard M Schultz, P Jeremy Wang. PLoS Genet 2018
10
Splicing-dependent RNA polymerase pausing in yeast.
Ross D Alexander, Steven A Innocente, J David Barrass, Jean D Beggs. Mol Cell 2010
Ross D Alexander, Steven A Innocente, J David Barrass, Jean D Beggs. Mol Cell 2010
10
Prespliceosome structure provides insights into spliceosome assembly and regulation.
Clemens Plaschka, Pei-Chun Lin, Clément Charenton, Kiyoshi Nagai. Nature 2018
Clemens Plaschka, Pei-Chun Lin, Clément Charenton, Kiyoshi Nagai. Nature 2018
10
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.