A citation-based method for searching scientific literature

Wenqing Qiu, Zhijiao Xu, Min Zhang, Dandan Zhang, Hui Fan, Taotao Li, Qianfeng Wang, Peiru Liu, Zaihua Zhu, Duo Du, Minjia Tan, Bo Wen, Yun Liu. Nucleic Acids Res 2019
Times Cited: 19







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



Times Cited
  Times     Co-cited
Similarity


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
50
78

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
74
68


Determination of local chromatin composition by CasID.
Elisabeth Schmidtmann, Tobias Anton, Pascaline Rombaut, Franz Herzog, Heinrich Leonhardt. Nucleus 2016
30
47

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
458
42

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
147
42

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
575
42

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
280
36


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
355
36

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
281
36

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
128
36

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
98
31

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
72
31

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
48
31

In Situ Capture of Chromatin Interactions by Biotinylated dCas9.
Xin Liu, Yuannyu Zhang, Yong Chen, Mushan Li, Feng Zhou, Kailong Li, Hui Cao, Min Ni, Yuxuan Liu, Zhimin Gu,[...]. Cell 2017
134
31

Purification of proteins associated with specific genomic Loci.
Jérôme Déjardin, Robert E Kingston. Cell 2009
342
31

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
17
35

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
100
31

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
240
31

Proximity-CLIP provides a snapshot of protein-occupied RNA elements in subcellular compartments.
Daniel Benhalevy, Dimitrios G Anastasakis, Markus Hafner. Nat Methods 2018
33
26

Promiscuous protein biotinylation by Escherichia coli biotin protein ligase.
Eunjoo Choi-Rhee, Howard Schulman, John E Cronan. Protein Sci 2004
115
26

A Proximity Labeling Strategy Provides Insights into the Composition and Dynamics of Lipid Droplet Proteomes.
Kirill Bersuker, Clark W H Peterson, Milton To, Steffen J Sahl, Victoria Savikhin, Elizabeth A Grossman, Daniel K Nomura, James A Olzmann. Dev Cell 2018
109
26

Proteomics of Primary Cilia by Proximity Labeling.
David U Mick, Rachel B Rodrigues, Ryan D Leib, Christopher M Adams, Allis S Chien, Steven P Gygi, Maxence V Nachury. Dev Cell 2015
189
26

Proteomic mapping of the human mitochondrial intermembrane space in live cells via ratiometric APEX tagging.
Victoria Hung, Peng Zou, Hyun-Woo Rhee, Namrata D Udeshi, Valentin Cracan, Tanya Svinkina, Steven A Carr, Vamsi K Mootha, Alice Y Ting. Mol Cell 2014
245
26

Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells.
Shuo Han, Namrata D Udeshi, Thomas J Deerinck, Tanya Svinkina, Mark H Ellisman, Steven A Carr, Alice Y Ting. Cell Chem Biol 2017
55
26

Spatially resolved proteomic mapping in living cells with the engineered peroxidase APEX2.
Victoria Hung, Namrata D Udeshi, Stephanie S Lam, Ken H Loh, Kurt J Cox, Kayvon Pedram, Steven A Carr, Alice Y Ting. Nat Protoc 2016
155
26


Proteomic mapping of cytosol-facing outer mitochondrial and ER membranes in living human cells by proximity biotinylation.
Victoria Hung, Stephanie S Lam, Namrata D Udeshi, Tanya Svinkina, Gaelen Guzman, Vamsi K Mootha, Steven A Carr, Alice Y Ting. Elife 2017
140
26

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
240
26

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
74
26

High-Density Proximity Mapping Reveals the Subcellular Organization of mRNA-Associated Granules and Bodies.
Ji-Young Youn, Wade H Dunham, Seo Jung Hong, James D R Knight, Mikhail Bashkurov, Ginny I Chen, Halil Bagci, Bhavisha Rathod, Graham MacLeod, Simon W M Eng,[...]. Mol Cell 2018
224
26

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
47
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
78
26

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
26
26

Proximity labeling reveals novel interactomes in live Drosophila tissue.
Katelynn M Mannix, Rebecca M Starble, Ronit S Kaufman, Lynn Cooley. Development 2019
12
33


Identification of telomere-associated molecules by engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP).
Toshitsugu Fujita, Yoshinori Asano, Junko Ohtsuka, Yoko Takada, Kazunobu Saito, Rieko Ohki, Hodaka Fujii. Sci Rep 2013
53
21


New insights into the DT40 B cell receptor cluster using a proteomic proximity labeling assay.
Xue-Wen Li, Johanna S Rees, Peng Xue, Hong Zhang, Samir W Hamaia, Bailey Sanderson, Phillip E Funk, Richard W Farndale, Kathryn S Lilley, Sarah Perrett,[...]. J Biol Chem 2014
62
21

Optimizing the fragment complementation of APEX2 for detection of specific protein-protein interactions in live cells.
Miaomiao Xue, Junjie Hou, Linlin Wang, Dongwan Cheng, Jingze Lu, Li Zheng, Tao Xu. Sci Rep 2017
21
21

ChromID identifies the protein interactome at chromatin marks.
Rodrigo Villaseñor, Ramon Pfaendler, Christina Ambrosi, Stefan Butz, Sara Giuliani, Elana Bryan, Thomas W Sheahan, Annika L Gable, Nina Schmolka, Massimiliano Manzo,[...]. Nat Biotechnol 2020
19
21

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
78
21

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
44
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
52
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
31
21

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
154
21

APEX Fingerprinting Reveals the Subcellular Localization of Proteins of Interest.
Song-Yi Lee, Myeong-Gyun Kang, Jong-Seok Park, Geunsik Lee, Alice Y Ting, Hyun-Woo Rhee. Cell Rep 2016
79
15

Antibodies to biotin enable large-scale detection of biotinylation sites on proteins.
Namrata D Udeshi, Kayvon Pedram, Tanya Svinkina, Shaunt Fereshetian, Samuel A Myers, Ozan Aygun, Karsten Krug, Karl Clauser, Dominic Ryan, Tslil Ast,[...]. Nat Methods 2017
49
15

Proteomic mapping in live Drosophila tissues using an engineered ascorbate peroxidase.
Chiao-Lin Chen, Yanhui Hu, Namrata D Udeshi, Thomas Y Lau, Frederik Wirtz-Peitz, Li He, Alice Y Ting, Steven A Carr, Norbert Perrimon. Proc Natl Acad Sci U S A 2015
77
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.