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: 10







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



Times Cited
  Times     Co-cited
Similarity


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
18
60

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
102
60

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
33
40

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
8
50

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
85
40

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
40
40

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
72
40

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
63
40

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
44
30

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
729
30

CLIP identifies Nova-regulated RNA networks in the brain.
Jernej Ule, Kirk B Jensen, Matteo Ruggiu, Aldo Mele, Aljaz Ule, Robert B Darnell. Science 2003
698
30

RNA Granules Hitchhike on Lysosomes for Long-Distance Transport, Using Annexin A11 as a Molecular Tether.
Ya-Cheng Liao, Michael S Fernandopulle, Guozhen Wang, Heejun Choi, Ling Hao, Catherine M Drerup, Rajan Patel, Seema Qamar, Jonathon Nixon-Abell, Yi Shen,[...]. Cell 2019
86
30

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
67
30

Multidimensional Tracking of GPCR Signaling via Peroxidase-Catalyzed Proximity Labeling.
Jaeho Paek, Marian Kalocsay, Dean P Staus, Laura Wingler, Roberta Pascolutti, Joao A Paulo, Steven P Gygi, Andrew C Kruse. Cell 2017
86
30

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
220
30

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
419
30

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
533
30

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
130
30

Capturing RNA-protein interaction via CRUIS.
Ziheng Zhang, Weiping Sun, Tiezhu Shi, Pengfei Lu, Min Zhuang, Ji-Long Liu. Nucleic Acids Res 2020
9
33

Mechanism of adrenergic CaV1.2 stimulation revealed by proximity proteomics.
Guoxia Liu, Arianne Papa, Alexander N Katchman, Sergey I Zakharov, Daniel Roybal, Jessica A Hennessey, Jared Kushner, Lin Yang, Bi-Xing Chen, Alexander Kushnir,[...]. Nature 2020
41
30

Capturing the Asc1p/Receptor for Activated C Kinase 1 (RACK1) Microenvironment at the Head Region of the 40S Ribosome with Quantitative BioID in Yeast.
Nadine Opitz, Kerstin Schmitt, Verena Hofer-Pretz, Bettina Neumann, Heike Krebber, Gerhard H Braus, Oliver Valerius. Mol Cell Proteomics 2017
33
30

Identification of an elaborate complex mediating postsynaptic inhibition.
Akiyoshi Uezu, Daniel J Kanak, Tyler W A Bradshaw, Erik J Soderblom, Christina M Catavero, Alain C Burette, Richard J Weinberg, Scott H Soderling. Science 2016
106
30

Proximity labeling of protein complexes and cell-type-specific organellar proteomes in Arabidopsis enabled by TurboID.
Andrea Mair, Shou-Ling Xu, Tess C Branon, Alice Y Ting, Dominique C Bergmann. Elife 2019
28
30

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
337
30

TurboID-based proximity labeling reveals that UBR7 is a regulator of N NLR immune receptor-mediated immunity.
Yongliang Zhang, Gaoyuan Song, Neeraj K Lal, Ugrappa Nagalakshmi, Yuanyuan Li, Wenjie Zheng, Pin-Jui Huang, Tess C Branon, Alice Y Ting, Justin W Walley,[...]. Nat Commun 2019
40
30

In planta proximity dependent biotin identification (BioID).
Madiha Khan, Ji-Young Youn, Anne-Claude Gingras, Rajagopal Subramaniam, Darrell Desveaux. Sci Rep 2018
29
30

BioID-based Identification of Skp Cullin F-box (SCF)β-TrCP1/2 E3 Ligase Substrates.
Etienne Coyaud, Monika Mis, Estelle M N Laurent, Wade H Dunham, Amber L Couzens, Melanie Robitaille, Anne-Claude Gingras, Stephane Angers, Brian Raught. Mol Cell Proteomics 2015
86
30

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
20
30

Methods to study RNA-protein interactions.
Muthukumar Ramanathan, Douglas F Porter, Paul A Khavari. Nat Methods 2019
57
30

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
220
30



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
140
30

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
220
30

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
4
50

Current approaches for RNA-labelling to identify RNA-binding proteins.
Darren Gemmill, Simmone D'souza, Vanessa Meier-Stephenson, Trushar R Patel. Biochem Cell Biol 2020
6
33

The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest.
Jakob Trendel, Thomas Schwarzl, Rastislav Horos, Ananth Prakash, Alex Bateman, Matthias W Hentze, Jeroen Krijgsveld. Cell 2019
98
20

The Xist lncRNA exploits three-dimensional genome architecture to spread across the X chromosome.
Jesse M Engreitz, Amy Pandya-Jones, Patrick McDonel, Alexander Shishkin, Klara Sirokman, Christine Surka, Sabah Kadri, Jeffrey Xing, Alon Goren, Eric S Lander,[...]. Science 2013
553
20

Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds.
Jesse G Zalatan, Michael E Lee, Ricardo Almeida, Luke A Gilbert, Evan H Whitehead, Marie La Russa, Jordan C Tsai, Jonathan S Weissman, John E Dueber, Lei S Qi,[...]. Cell 2015
483
20

Comprehensive identification of RNA-protein interactions in any organism using orthogonal organic phase separation (OOPS).
Rayner M L Queiroz, Tom Smith, Eneko Villanueva, Maria Marti-Solano, Mie Monti, Mariavittoria Pizzinga, Dan-Mircea Mirea, Manasa Ramakrishna, Robert F Harvey, Veronica Dezi,[...]. Nat Biotechnol 2019
82
20

Insights into RNA biology from an atlas of mammalian mRNA-binding proteins.
Alfredo Castello, Bernd Fischer, Katrin Eichelbaum, Rastislav Horos, Benedikt M Beckmann, Claudia Strein, Norman E Davey, David T Humphreys, Thomas Preiss, Lars M Steinmetz,[...]. Cell 2012
20

Comparison of Cas9 activators in multiple species.
Alejandro Chavez, Marcelle Tuttle, Benjamin W Pruitt, Ben Ewen-Campen, Raj Chari, Dmitry Ter-Ovanesyan, Sabina J Haque, Ryan J Cecchi, Emma J K Kowal, Joanna Buchthal,[...]. Nat Methods 2016
216
20

Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture.
Joel I Perez-Perri, Birgit Rogell, Thomas Schwarzl, Frank Stein, Yang Zhou, Mandy Rettel, Annika Brosig, Matthias W Hentze. Nat Commun 2018
40
20

Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex.
Silvana Konermann, Mark D Brigham, Alexandro E Trevino, Julia Joung, Omar O Abudayyeh, Clea Barcena, Patrick D Hsu, Naomi Habib, Jonathan S Gootenberg, Hiroshi Nishimasu,[...]. Nature 2015
20

A brave new world of RNA-binding proteins.
Matthias W Hentze, Alfredo Castello, Thomas Schwarzl, Thomas Preiss. Nat Rev Mol Cell Biol 2018
360
20

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
545
20

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
498
20


Late Endosomes Act as mRNA Translation Platforms and Sustain Mitochondria in Axons.
Jean-Michel Cioni, Julie Qiaojin Lin, Anne V Holtermann, Max Koppers, Maximilian A H Jakobs, Afnan Azizi, Benita Turner-Bridger, Toshiaki Shigeoka, Kristian Franze, William A Harris,[...]. Cell 2019
93
20

Metabolic Enzymes Enjoying New Partnerships as RNA-Binding Proteins.
Alfredo Castello, Matthias W Hentze, Thomas Preiss. Trends Endocrinol Metab 2015
108
20


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.