A citation-based method for searching scientific literature

Shuo Han, Boxuan Simen Zhao, Samuel A Myers, Steven A Carr, Chuan He, Alice Y Ting. Proc Natl Acad Sci U S A 2020
Times Cited: 38







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



Times Cited
  Times     Co-cited
Similarity


Atlas of Subcellular RNA Localization Revealed by APEX-Seq.
Furqan M Fazal, Shuo Han, Kevin R Parker, Pornchai Kaewsapsak, Jin Xu, Alistair N Boettiger, Howard Y Chang, Alice Y Ting. Cell 2019
182
44

CRISPR-assisted detection of RNA-protein interactions in living cells.
Wenkai Yi, Jingyu Li, Xiaoxuan Zhu, Xi Wang, Ligang Fan, Wenju Sun, Linbu Liao, Jilin Zhang, Xiaoyu Li, Jing Ye,[...]. Nat Methods 2020
36
44

RNA-protein interaction detection in living cells.
Muthukumar Ramanathan, Karim Majzoub, Deepti S Rao, Poornima H Neela, Brian J Zarnegar, Smarajit Mondal, Julien G Roth, Hui Gai, Joanna R Kovalski, Zurab Siprashvili,[...]. Nat Methods 2018
126
36

RNA targeting with CRISPR-Cas13.
Omar O Abudayyeh, Jonathan S Gootenberg, Patrick Essletzbichler, Shuo Han, Julia Joung, Joseph J Belanto, Vanessa Verdine, David B T Cox, Max J Kellner, Aviv Regev,[...]. Nature 2017
718
34

Directed evolution of APEX2 for electron microscopy and proximity labeling.
Stephanie S Lam, Jeffrey D Martell, Kimberli J Kamer, Thomas J Deerinck, Mark H Ellisman, Vamsi K Mootha, Alice Y Ting. Nat Methods 2015
533
34

β-Actin mRNA interactome mapping by proximity biotinylation.
Joyita Mukherjee, Orit Hermesh, Carolina Eliscovich, Nicolas Nalpas, Mirita Franz-Wachtel, Boris Maček, Ralf-Peter Jansen. Proc Natl Acad Sci U S A 2019
32
37

RNA editing with CRISPR-Cas13.
David B T Cox, Jonathan S Gootenberg, Omar O Abudayyeh, Brian Franklin, Max J Kellner, Julia Joung, Feng Zhang. Science 2017
652
31

Capturing RNA-protein interaction via CRUIS.
Ziheng Zhang, Weiping Sun, Tiezhu Shi, Pengfei Lu, Min Zhuang, Ji-Long Liu. Nucleic Acids Res 2020
21
57


Transcriptome Engineering with RNA-Targeting Type VI-D CRISPR Effectors.
Silvana Konermann, Peter Lotfy, Nicholas J Brideau, Jennifer Oki, Maxim N Shokhirev, Patrick D Hsu. Cell 2018
367
28

Directed Evolution of Split APEX2 Peroxidase.
Yisu Han, Tess Caroline Branon, Jeffrey D Martell, Daniela Boassa, David Shechner, Mark H Ellisman, Alice Ting. ACS Chem Biol 2019
59
28

Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging.
Hyun-Woo Rhee, Peng Zou, Namrata D Udeshi, Jeffrey D Martell, Vamsi K Mootha, Steven A Carr, Alice Y Ting. Science 2013
644
28

Efficient proximity labeling in living cells and organisms with TurboID.
Tess C Branon, Justin A Bosch, Ariana D Sanchez, Namrata D Udeshi, Tanya Svinkina, Steven A Carr, Jessica L Feldman, Norbert Perrimon, Alice Y Ting. Nat Biotechnol 2018
382
28

An improved smaller biotin ligase for BioID proximity labeling.
Dae In Kim, Samuel C Jensen, Kyle A Noble, Birendra Kc, Kenneth H Roux, Khatereh Motamedchaboki, Kyle J Roux. Mol Biol Cell 2016
295
28

Split-TurboID enables contact-dependent proximity labeling in cells.
Kelvin F Cho, Tess C Branon, Sanjana Rajeev, Tanya Svinkina, Namrata D Udeshi, Themis Thoudam, Chulhwan Kwak, Hyun-Woo Rhee, In-Kyu Lee, Steven A Carr,[...]. Proc Natl Acad Sci U S A 2020
75
26

C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector.
Omar O Abudayyeh, Jonathan S Gootenberg, Silvana Konermann, Julia Joung, Ian M Slaymaker, David B T Cox, Sergey Shmakov, Kira S Makarova, Ekaterina Semenova, Leonid Minakhin,[...]. Science 2016
842
26

Dynamic Imaging of RNA in Living Cells by CRISPR-Cas13 Systems.
Liang-Zhong Yang, Yang Wang, Si-Qi Li, Run-Wen Yao, Peng-Fei Luan, Huang Wu, Gordon G Carmichael, Ling-Ling Chen. Mol Cell 2019
100
26

Split-BioID a conditional proteomics approach to monitor the composition of spatiotemporally defined protein complexes.
Isabel Myriam Schopp, Cinthia Claudia Amaya Ramirez, Jerneja Debeljak, Elisa Kreibich, Merle Skribbe, Klemens Wild, Julien Béthune. Nat Commun 2017
95
26

Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy.
Jeffrey D Martell, Thomas J Deerinck, Yasemin Sancak, Thomas L Poulos, Vamsi K Mootha, Gina E Sosinsky, Mark H Ellisman, Alice Y Ting. Nat Biotechnol 2012
387
26


Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking.
Pornchai Kaewsapsak, David Michael Shechner, William Mallard, John L Rinn, Alice Y Ting. Elife 2017
88
26

Systematic discovery of Xist RNA binding proteins.
Ci Chu, Qiangfeng Cliff Zhang, Simão Teixeira da Rocha, Ryan A Flynn, Maheetha Bharadwaj, J Mauro Calabrese, Terry Magnuson, Edith Heard, Howard Y Chang. Cell 2015
611
23

Discovery of proteins associated with a predefined genomic locus via dCas9-APEX-mediated proximity labeling.
Samuel A Myers, Jason Wright, Ryan Peckner, Brian T Kalish, Feng Zhang, Steven A Carr. Nat Methods 2018
85
23

Split-BioID: a proximity biotinylation assay for dimerization-dependent protein interactions.
Sofie De Munter, Janina Görnemann, Rita Derua, Bart Lesage, Junbin Qian, Ewald Heroes, Etienne Waelkens, Aleyde Van Eynde, Monique Beullens, Mathieu Bollen. FEBS Lett 2017
55
21

Cas13d Is a Compact RNA-Targeting Type VI CRISPR Effector Positively Modulated by a WYL-Domain-Containing Accessory Protein.
Winston X Yan, Shaorong Chong, Huaibin Zhang, Kira S Makarova, Eugene V Koonin, David R Cheng, David A Scott. Mol Cell 2018
183
21

Probing nuclear pore complex architecture with proximity-dependent biotinylation.
Dae In Kim, K C Birendra, Wenhong Zhu, Khatereh Motamedchaboki, Valérie Doye, Kyle J Roux. Proc Natl Acad Sci U S A 2014
275
21

Expanding APEX2 Substrates for Proximity-Dependent Labeling of Nucleic Acids and Proteins in Living Cells.
Ying Zhou, Gang Wang, Pengchong Wang, Zeyao Li, Tieqiang Yue, Jianbin Wang, Peng Zou. Angew Chem Int Ed Engl 2019
23
34

C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2.
Xin D Gao, Li-Chun Tu, Aamir Mir, Tomás Rodriguez, Yuehe Ding, John Leszyk, Job Dekker, Scott A Shaffer, Lihua Julie Zhu, Scot A Wolfe,[...]. Nat Methods 2018
61
21

A proximity-tagging system to identify membrane protein-protein interactions.
Qiang Liu, Jun Zheng, Weiping Sun, Yinbo Huo, Liye Zhang, Piliang Hao, Haopeng Wang, Min Zhuang. Nat Methods 2018
68
21

Contact-ID, a tool for profiling organelle contact sites, reveals regulatory proteins of mitochondrial-associated membrane formation.
Chulhwan Kwak, Sanghee Shin, Jong-Seok Park, Minkyo Jung, Truong Thi My Nhung, Myeong-Gyun Kang, Chaiheon Lee, Tae-Hyuk Kwon, Sang Ki Park, Ji Young Mun,[...]. Proc Natl Acad Sci U S A 2020
50
21

Proximity-CLIP provides a snapshot of protein-occupied RNA elements in subcellular compartments.
Daniel Benhalevy, Dimitrios G Anastasakis, Markus Hafner. Nat Methods 2018
42
21


The long noncoding RNAs NEAT1 and MALAT1 bind active chromatin sites.
Jason A West, Christopher P Davis, Hongjae Sunwoo, Matthew D Simon, Ruslan I Sadreyev, Peggy I Wang, Michael Y Tolstorukov, Robert E Kingston. Mol Cell 2014
389
18

The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3.
Colleen A McHugh, Chun-Kan Chen, Amy Chow, Christine F Surka, Christina Tran, Patrick McDonel, Amy Pandya-Jones, Mario Blanco, Christina Burghard, Annie Moradian,[...]. Nature 2015
669
18

Biochemical visualization of cell surface molecular clustering in living cells.
Norihiro Kotani, Jianguo Gu, Tomoya Isaji, Keiko Udaka, Naoyuki Taniguchi, Koichi Honke. Proc Natl Acad Sci U S A 2008
86
18

Context-Dependent and Disease-Specific Diversity in Protein Interactions within Stress Granules.
Sebastian Markmiller, Sahar Soltanieh, Kari L Server, Raymond Mak, Wenhao Jin, Mark Y Fang, En-Ching Luo, Florian Krach, Dejun Yang, Anindya Sen,[...]. Cell 2018
344
18

Proximity labeling in mammalian cells with TurboID and split-TurboID.
Kelvin F Cho, Tess C Branon, Namrata D Udeshi, Samuel A Myers, Steven A Carr, Alice Y Ting. Nat Protoc 2020
37
16

Massively parallel Cas13 screens reveal principles for guide RNA design.
Hans-Hermann Wessels, Alejandro Méndez-Mancilla, Xinyi Guo, Mateusz Legut, Zharko Daniloski, Neville E Sanjana. Nat Biotechnol 2020
69
15

Photoactivatable RNA N6 -Methyladenosine Editing with CRISPR-Cas13.
Jie Zhao, Bing Li, Jianxiong Ma, Weilin Jin, Xinlong Ma. Small 2020
25
24

Diversity and evolution of class 2 CRISPR-Cas systems.
Sergey Shmakov, Aaron Smargon, David Scott, David Cox, Neena Pyzocha, Winston Yan, Omar O Abudayyeh, Jonathan S Gootenberg, Kira S Makarova, Yuri I Wolf,[...]. Nat Rev Microbiol 2017
420
15

Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions.
Ci Chu, Kun Qu, Franklin L Zhong, Steven E Artandi, Howard Y Chang. Mol Cell 2011
827
15

Multiplex genome engineering using CRISPR/Cas systems.
Le Cong, F Ann Ran, David Cox, Shuailiang Lin, Robert Barretto, Naomi Habib, Patrick D Hsu, Xuebing Wu, Wenyan Jiang, Luciano A Marraffini,[...]. Science 2013
15

Development of CRISPR as an Antiviral Strategy to Combat SARS-CoV-2 and Influenza.
Timothy R Abbott, Girija Dhamdhere, Yanxia Liu, Xueqiu Lin, Laine Goudy, Leiping Zeng, Augustine Chemparathy, Stephen Chmura, Nicholas S Heaton, Robert Debs,[...]. Cell 2020
183
15

CRISPR-mediated live imaging of genome editing and transcription.
Haifeng Wang, Muneaki Nakamura, Timothy R Abbott, Dehua Zhao, Kaiwen Luo, Cordelia Yu, Cindy M Nguyen, Albert Lo, Timothy P Daley, Marie La Russa,[...]. Science 2019
88
15

An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells.
Braden T Lobingier, Ruth Hüttenhain, Kelsie Eichel, Kenneth B Miller, Alice Y Ting, Mark von Zastrow, Nevan J Krogan. Cell 2017
174
15

A split horseradish peroxidase for the detection of intercellular protein-protein interactions and sensitive visualization of synapses.
Jeffrey D Martell, Masahito Yamagata, Thomas J Deerinck, Sébastien Phan, Carolyn G Kwa, Mark H Ellisman, Joshua R Sanes, Alice Y Ting. Nat Biotechnol 2016
84
15

Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts.
Ken H Loh, Philipp S Stawski, Austin S Draycott, Namrata D Udeshi, Emily K Lehrman, Daniel K Wilton, Tanya Svinkina, Thomas J Deerinck, Mark H Ellisman, Beth Stevens,[...]. Cell 2016
171
15

Deciphering molecular interactions by proximity labeling.
Wei Qin, Kelvin F Cho, Peter E Cavanagh, Alice Y Ting. Nat Methods 2021
36
16

Structure-based design of gRNA for Cas13.
Srinivas Bandaru, Mika Higashide Tsuji, Yurika Shimizu, Kaya Usami, Suni Lee, Naoko Kumagai Takei, Kei Yoshitome, Yasumitsu Nishimura, Takemi Otsuki, Tatsuo Ito. Sci Rep 2020
11
54

Cas13b Is a Type VI-B CRISPR-Associated RNA-Guided RNase Differentially Regulated by Accessory Proteins Csx27 and Csx28.
Aaron A Smargon, David B T Cox, Neena K Pyzocha, Kaijie Zheng, Ian M Slaymaker, Jonathan S Gootenberg, Omar A Abudayyeh, Patrick Essletzbichler, Sergey Shmakov, Kira S Makarova,[...]. Mol Cell 2017
245
15


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.