A citation-based method for searching scientific literature

Suyang Zhang, Shintaro Aibara, Seychelle M Vos, Dmitry E Agafonov, Reinhard Lührmann, Patrick Cramer. Science 2021
Times Cited: 34







List of co-cited articles
453 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation.
Daisuke Kaida, Michael G Berg, Ihab Younis, Mumtaz Kasim, Larry N Singh, Lili Wan, Gideon Dreyfuss. Nature 2010
424
26

Structure of paused transcription complex Pol II-DSIF-NELF.
Seychelle M Vos, Lucas Farnung, Henning Urlaub, Patrick Cramer. Nature 2018
158
23

Prespliceosome structure provides insights into spliceosome assembly and regulation.
Clemens Plaschka, Pei-Chun Lin, Clément Charenton, Kiyoshi Nagai. Nature 2018
74
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
126
20

The spliceosome: design principles of a dynamic RNP machine.
Markus C Wahl, Cindy L Will, Reinhard Lührmann. Cell 2009
20

Splicing Kinetics and Coordination Revealed by Direct Nascent RNA Sequencing through Nanopores.
Heather L Drexler, Karine Choquet, L Stirling Churchman. Mol Cell 2020
81
20

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
172
20

Structure of activated transcription complex Pol II-DSIF-PAF-SPT6.
Seychelle M Vos, Lucas Farnung, Marc Boehning, Christoph Wigge, Andreas Linden, Henning Urlaub, Patrick Cramer. Nature 2018
185
20

Structure of a transcribing RNA polymerase II-DSIF complex reveals a multidentate DNA-RNA clamp.
Carrie Bernecky, Jürgen M Plitzko, Patrick Cramer. Nat Struct Mol Biol 2017
83
20

Exon recognition in vertebrate splicing.
S M Berget. J Biol Chem 1995
857
20

Roles and mechanisms of alternative splicing in cancer - implications for care.
Sophie C Bonnal, Irene López-Oreja, Juan Valcárcel. Nat Rev Clin Oncol 2020
222
17

U1 snRNP determines mRNA length and regulates isoform expression.
Michael G Berg, Larry N Singh, Ihab Younis, Qiang Liu, Anna Maria Pinto, Daisuke Kaida, Zhenxi Zhang, Sungchan Cho, Scott Sherrill-Mix, Lili Wan,[...]. Cell 2012
303
17

Promoter directionality is controlled by U1 snRNP and polyadenylation signals.
Albert E Almada, Xuebing Wu, Andrea J Kriz, Christopher B Burge, Phillip A Sharp. Nature 2013
280
17

Spliceosome structure and function.
Cindy L Will, Reinhard Lührmann. Cold Spring Harb Perspect Biol 2011
966
17


RNA Splicing by the Spliceosome.
Max E Wilkinson, Clément Charenton, Kiyoshi Nagai. Annu Rev Biochem 2020
180
14

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
14

Pick one, but be quick: 5' splice sites and the problems of too many choices.
Xavier Roca, Adrian R Krainer, Ian C Eperon. Genes Dev 2013
140
14

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
14

Integrator is a genome-wide attenuator of non-productive transcription.
Søren Lykke-Andersen, Kristina Žumer, Ewa Šmidová Molska, Jérôme O Rouvière, Guifen Wu, Carina Demel, Björn Schwalb, Manfred Schmid, Patrick Cramer, Torben Heick Jensen. Mol Cell 2021
34
14

A unified mechanism for intron and exon definition and back-splicing.
Xueni Li, Shiheng Liu, Lingdi Zhang, Aaron Issaian, Ryan C Hill, Sara Espinosa, Shasha Shi, Yanxiang Cui, Kalli Kappel, Rhiju Das,[...]. Nature 2019
74
14


Alternative RNA structures formed during transcription depend on elongation rate and modify RNA processing.
Tassa Saldi, Kent Riemondy, Benjamin Erickson, David L Bentley. Mol Cell 2021
25
20

Exon and intron definition in pre-mRNA splicing.
Laura De Conti, Marco Baralle, Emanuele Buratti. Wiley Interdiscip Rev RNA 2013
193
14

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
325
14


Structural Basis of Nuclear pre-mRNA Splicing: Lessons from Yeast.
Clemens Plaschka, Andrew J Newman, Kiyoshi Nagai. Cold Spring Harb Perspect Biol 2019
42
14

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
90
14

POINT technology illuminates the processing of polymerase-associated intact nascent transcripts.
Rui Sousa-Luís, Gwendal Dujardin, Inna Zukher, Hiroshi Kimura, Carika Weldon, Maria Carmo-Fonseca, Nick J Proudfoot, Takayuki Nojima. Mol Cell 2021
22
22

Stem-loop 4 of U1 snRNA is essential for splicing and interacts with the U2 snRNP-specific SF3A1 protein during spliceosome assembly.
Shalini Sharma, Somsakul Pop Wongpalee, Ajay Vashisht, James A Wohlschlegel, Douglas L Black. Genes Dev 2014
33
12

Crystal structure of human spliceosomal U1 snRNP at 5.5 A resolution.
Daniel A Pomeranz Krummel, Chris Oubridge, Adelaine K W Leung, Jade Li, Kiyoshi Nagai. Nature 2009
238
11

U1 snRNP telescripting regulates a size-function-stratified human genome.
Jung-Min Oh, Chao Di, Christopher C Venters, Jiannan Guo, Chie Arai, Byung Ran So, Anna Maria Pinto, Zhenxi Zhang, Lili Wan, Ihab Younis,[...]. Nat Struct Mol Biol 2017
63
11

CryoEM structure of Saccharomyces cerevisiae U1 snRNP offers insight into alternative splicing.
Xueni Li, Shiheng Liu, Jiansen Jiang, Lingdi Zhang, Sara Espinosa, Ryan C Hill, Kirk C Hansen, Z Hong Zhou, Rui Zhao. Nat Commun 2017
34
11

Structural basis of a small molecule targeting RNA for a specific splicing correction.
Sébastien Campagne, Sarah Boigner, Simon Rüdisser, Ahmed Moursy, Laurent Gillioz, Anna Knörlein, Jonathan Hall, Hasane Ratni, Antoine Cléry, Frédéric H-T Allain. Nat Chem Biol 2019
53
11

Recognition of atypical 5' splice sites by shifted base-pairing to U1 snRNA.
Xavier Roca, Adrian R Krainer. Nat Struct Mol Biol 2009
62
11

Nuclear speckles: molecular organization, biological function and role in disease.
Lukasz Galganski, Martyna O Urbanek, Wlodzimierz J Krzyzosiak. Nucleic Acids Res 2017
217
11


Post-transcriptional spliceosomes are retained in nuclear speckles until splicing completion.
Cyrille Girard, Cindy L Will, Jianhe Peng, Evgeny M Makarov, Berthold Kastner, Ira Lemm, Henning Urlaub, Klaus Hartmuth, Reinhard Lührmann. Nat Commun 2012
158
11

A Complex of U1 snRNP with Cleavage and Polyadenylation Factors Controls Telescripting, Regulating mRNA Transcription in Human Cells.
Byung Ran So, Chao Di, Zhiqiang Cai, Christopher C Venters, Jiannan Guo, Jung-Min Oh, Chie Arai, Gideon Dreyfuss. Mol Cell 2019
42
11

A Two-Layered Targeting Mechanism Underlies Nuclear RNA Sorting by the Human Exosome.
Guifen Wu, Manfred Schmid, Leonor Rib, Patrik Polak, Nicola Meola, Albin Sandelin, Torben Heick Jensen. Cell Rep 2020
24
16

Identification of a Nuclear Exosome Decay Pathway for Processed Transcripts.
Nicola Meola, Michal Domanski, Evdoxia Karadoulama, Yun Chen, Coline Gentil, Dennis Pultz, Kristoffer Vitting-Seerup, Søren Lykke-Andersen, Jens S Andersen, Albin Sandelin,[...]. Mol Cell 2016
145
11

Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II.
David Baillat, Mohamed-Ali Hakimi, Anders M Näär, Ali Shilatifard, Neil Cooch, Ramin Shiekhattar. Cell 2005
336
11

Molecular Basis of Transcription-Coupled Pre-mRNA Capping.
Fuensanta W Martinez-Rucobo, Rebecca Kohler, Michiel van de Waterbeemd, Albert J R Heck, Matthias Hemann, Franz Herzog, Holger Stark, Patrick Cramer. Mol Cell 2015
74
11

Deciphering the splicing code.
Yoseph Barash, John A Calarco, Weijun Gao, Qun Pan, Xinchen Wang, Ofer Shai, Benjamin J Blencowe, Brendan J Frey. Nature 2010
557
11


Widespread intra-dependencies in the removal of introns from human transcripts.
Seong Won Kim, Allison J Taggart, Claire Heintzelman, Kamil J Cygan, Caitlin G Hull, Jing Wang, Barsha Shrestha, William G Fairbrother. Nucleic Acids Res 2017
27
14


Transcription regulation by the Mediator complex.
Julie Soutourina. Nat Rev Mol Cell Biol 2018
254
11

Structure of complete Pol II-DSIF-PAF-SPT6 transcription complex reveals RTF1 allosteric activation.
Seychelle M Vos, Lucas Farnung, Andreas Linden, Henning Urlaub, Patrick Cramer. Nat Struct Mol Biol 2020
45
11


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.