A citation-based method for searching scientific literature

Kwanghun Chung, Jenelle Wallace, Sung-Yon Kim, Sandhiya Kalyanasundaram, Aaron S Andalman, Thomas J Davidson, Julie J Mirzabekov, Kelly A Zalocusky, Joanna Mattis, Aleksandra K Denisin, Sally Pak, Hannah Bernstein, Charu Ramakrishnan, Logan Grosenick, Viviana Gradinaru, Karl Deisseroth. Nature 2013
Times Cited: 1043







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



Times Cited
  Times     Co-cited
Similarity


iDISCO: a simple, rapid method to immunolabel large tissue samples for volume imaging.
Nicolas Renier, Zhuhao Wu, David J Simon, Jing Yang, Pablo Ariel, Marc Tessier-Lavigne. Cell 2014
610
44

Single-cell phenotyping within transparent intact tissue through whole-body clearing.
Bin Yang, Jennifer B Treweek, Rajan P Kulkarni, Benjamin E Deverman, Chun-Kan Chen, Eric Lubeck, Sheel Shah, Long Cai, Viviana Gradinaru. Cell 2014
506
38

Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis.
Etsuo A Susaki, Kazuki Tainaka, Dimitri Perrin, Fumiaki Kishino, Takehiro Tawara, Tomonobu M Watanabe, Chihiro Yokoyama, Hirotaka Onoe, Megumi Eguchi, Shun Yamaguchi,[...]. Cell 2014
611
38

Ultramicroscopy: three-dimensional visualization of neuronal networks in the whole mouse brain.
Hans-Ulrich Dodt, Ulrich Leischner, Anja Schierloh, Nina Jährling, Christoph Peter Mauch, Katrin Deininger, Jan Michael Deussing, Matthias Eder, Walter Zieglgänsberger, Klaus Becker. Nat Methods 2007
666
34

Three-dimensional imaging of solvent-cleared organs using 3DISCO.
Ali Ertürk, Klaus Becker, Nina Jährling, Christoph P Mauch, Caroline D Hojer, Jackson G Egen, Farida Hellal, Frank Bradke, Morgan Sheng, Hans-Ulrich Dodt. Nat Protoc 2012
495
34


Scale: a chemical approach for fluorescence imaging and reconstruction of transparent mouse brain.
Hiroshi Hama, Hiroshi Kurokawa, Hiroyuki Kawano, Ryoko Ando, Tomomi Shimogori, Hisayori Noda, Kiyoko Fukami, Asako Sakaue-Sawano, Atsushi Miyawaki. Nat Neurosci 2011
705
29

Clarifying Tissue Clearing.
Douglas S Richardson, Jeff W Lichtman. Cell 2015
520
29

Shrinkage-mediated imaging of entire organs and organisms using uDISCO.
Chenchen Pan, Ruiyao Cai, Francesca Paola Quacquarelli, Alireza Ghasemigharagoz, Athanasios Lourbopoulos, Paweł Matryba, Nikolaus Plesnila, Martin Dichgans, Farida Hellal, Ali Ertürk. Nat Methods 2016
251
29

Simple, Scalable Proteomic Imaging for High-Dimensional Profiling of Intact Systems.
Evan Murray, Jae Hun Cho, Daniel Goodwin, Taeyun Ku, Justin Swaney, Sung-Yon Kim, Heejin Choi, Young-Gyun Park, Jeong-Yoon Park, Austin Hubbert,[...]. Cell 2015
192
27

Advanced CLARITY for rapid and high-resolution imaging of intact tissues.
Raju Tomer, Li Ye, Brian Hsueh, Karl Deisseroth. Nat Protoc 2014
443
26

Mapping of Brain Activity by Automated Volume Analysis of Immediate Early Genes.
Nicolas Renier, Eliza L Adams, Christoph Kirst, Zhuhao Wu, Ricardo Azevedo, Johannes Kohl, Anita E Autry, Lolahon Kadiri, Kannan Umadevi Venkataraju, Yu Zhou,[...]. Cell 2016
275
25

Advanced CUBIC protocols for whole-brain and whole-body clearing and imaging.
Etsuo A Susaki, Kazuki Tainaka, Dimitri Perrin, Hiroko Yukinaga, Akihiro Kuno, Hiroki R Ueda. Nat Protoc 2015
274
24

Tissue clearing and its applications in neuroscience.
Hiroki R Ueda, Ali Ertürk, Kwanghun Chung, Viviana Gradinaru, Alain Chédotal, Pavel Tomancak, Philipp J Keller. Nat Rev Neurosci 2020
88
25

Whole-body imaging with single-cell resolution by tissue decolorization.
Kazuki Tainaka, Shimpei I Kubota, Takeru Q Suyama, Etsuo A Susaki, Dimitri Perrin, Maki Ukai-Tadenuma, Hideki Ukai, Hiroki R Ueda. Cell 2014
241
21

A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing.
Tatsuya C Murakami, Tomoyuki Mano, Shu Saikawa, Shuhei A Horiguchi, Daichi Shigeta, Kousuke Baba, Hiroshi Sekiya, Yoshihiro Shimizu, Kenji F Tanaka, Hiroshi Kiyonari,[...]. Nat Neurosci 2018
96
20

ScaleS: an optical clearing palette for biological imaging.
Hiroshi Hama, Hiroyuki Hioki, Kana Namiki, Tetsushi Hoshida, Hiroshi Kurokawa, Fumiyoshi Ishidate, Takeshi Kaneko, Takumi Akagi, Takashi Saito, Takaomi Saido,[...]. Nat Neurosci 2015
280
20

ClearT: a detergent- and solvent-free clearing method for neuronal and non-neuronal tissue.
Takaaki Kuwajima, Austen A Sitko, Punita Bhansali, Chris Jurgens, William Guido, Carol Mason. Development 2013
270
20

Chemical Landscape for Tissue Clearing Based on Hydrophilic Reagents.
Kazuki Tainaka, Tatsuya C Murakami, Etsuo A Susaki, Chika Shimizu, Rie Saito, Kei Takahashi, Akiko Hayashi-Takagi, Hiroshi Sekiya, Yasunobu Arima, Satoshi Nojima,[...]. Cell Rep 2018
77
25

Protection of tissue physicochemical properties using polyfunctional crosslinkers.
Young-Gyun Park, Chang Ho Sohn, Ritchie Chen, Margaret McCue, Dae Hee Yun, Gabrielle T Drummond, Taeyun Ku, Nicholas B Evans, Hayeon Caitlyn Oak, Wendy Trieu,[...]. Nat Biotechnol 2018
64
29

Cellular and Molecular Probing of Intact Human Organs.
Shan Zhao, Mihail Ivilinov Todorov, Ruiyao Cai, Rami Ai -Maskari, Hanno Steinke, Elisabeth Kemter, Hongcheng Mai, Zhouyi Rong, Martin Warmer, Karen Stanic,[...]. Cell 2020
52
34

Chemical Principles in Tissue Clearing and Staining Protocols for Whole-Body Cell Profiling.
Kazuki Tainaka, Akihiro Kuno, Shimpei I Kubota, Tatzya Murakami, Hiroki R Ueda. Annu Rev Cell Dev Biol 2016
127
17

Stochastic electrotransport selectively enhances the transport of highly electromobile molecules.
Sung-Yon Kim, Jae Hun Cho, Evan Murray, Naveed Bakh, Heejin Choi, Kimberly Ohn, Luzdary Ruelas, Austin Hubbert, Meg McCue, Sara L Vassallo,[...]. Proc Natl Acad Sci U S A 2015
92
18

Panoptic imaging of transparent mice reveals whole-body neuronal projections and skull-meninges connections.
Ruiyao Cai, Chenchen Pan, Alireza Ghasemigharagoz, Mihail Ivilinov Todorov, Benjamin Förstera, Shan Zhao, Harsharan S Bhatia, Arnaldo Parra-Damas, Leander Mrowka, Delphine Theodorou,[...]. Nat Neurosci 2019
101
16

Tissue clearing of both hard and soft tissue organs with the PEGASOS method.
Dian Jing, Shiwen Zhang, Wenjing Luo, Xiaofei Gao, Yi Men, Chi Ma, Xiaohua Liu, Yating Yi, Abhijit Bugde, Bo O Zhou,[...]. Cell Res 2018
98
16

FDISCO: Advanced solvent-based clearing method for imaging whole organs.
Yisong Qi, Tingting Yu, Jianyi Xu, Peng Wan, Yilin Ma, Jingtan Zhu, Yusha Li, Hui Gong, Qingming Luo, Dan Zhu. Sci Adv 2019
58
27

ACT-PRESTO: Rapid and consistent tissue clearing and labeling method for 3-dimensional (3D) imaging.
Eunsoo Lee, Jungyoon Choi, Youhwa Jo, Joo Yeon Kim, Yu Jin Jang, Hye Myeong Lee, So Yeun Kim, Ho-Jae Lee, Keunchang Cho, Neoncheol Jung,[...]. Sci Rep 2016
114
16

Whole-Body Profiling of Cancer Metastasis with Single-Cell Resolution.
Shimpei I Kubota, Kei Takahashi, Jun Nishida, Yasuyuki Morishita, Shogo Ehata, Kazuki Tainaka, Kohei Miyazono, Hiroki R Ueda. Cell Rep 2017
109
15

Three-Dimensional Study of Alzheimer's Disease Hallmarks Using the iDISCO Clearing Method.
Thomas Liebmann, Nicolas Renier, Karima Bettayeb, Paul Greengard, Marc Tessier-Lavigne, Marc Flajolet. Cell Rep 2016
79
17

Fully Automated Evaluation of Total Glomerular Number and Capillary Tuft Size in Nephritic Kidneys Using Lightsheet Microscopy.
Anika Klingberg, Anja Hasenberg, Isis Ludwig-Portugall, Anna Medyukhina, Linda Männ, Alexandra Brenzel, Daniel R Engel, Marc Thilo Figge, Christian Kurts, Matthias Gunzer. J Am Soc Nephrol 2017
132
14

Micro-optical sectioning tomography to obtain a high-resolution atlas of the mouse brain.
Anan Li, Hui Gong, Bin Zhang, Qingdi Wang, Cheng Yan, Jingpeng Wu, Qian Liu, Shaoqun Zeng, Qingming Luo. Science 2010
222
14

Three-dimensional imaging of the unsectioned adult spinal cord to assess axon regeneration and glial responses after injury.
Ali Ertürk, Christoph P Mauch, Farida Hellal, Friedrich Förstner, Tara Keck, Klaus Becker, Nina Jährling, Heinz Steffens, Melanie Richter, Mark Hübener,[...]. Nat Med 2011
207
13

A mesoscale connectome of the mouse brain.
Seung Wook Oh, Julie A Harris, Lydia Ng, Brent Winslow, Nicholas Cain, Stefan Mihalas, Quanxin Wang, Chris Lau, Leonard Kuan, Alex M Henry,[...]. Nature 2014
13

Scalable and DiI-compatible optical clearance of the mammalian brain.
Bing Hou, Dan Zhang, Shan Zhao, Mengping Wei, Zaifu Yang, Shaoxia Wang, Jiarui Wang, Xin Zhang, Bing Liu, Lingzhong Fan,[...]. Front Neuroanat 2015
100
12

Advanced CUBIC tissue clearing for whole-organ cell profiling.
Katsuhiko Matsumoto, Tomoki T Mitani, Shuhei A Horiguchi, Junichi Kaneshiro, Tatsuya C Murakami, Tomoyuki Mano, Hiroshi Fujishima, Ayumu Konno, Tomonobu M Watanabe, Hirokazu Hirai,[...]. Nat Protoc 2019
26
46

Deep Learning Reveals Cancer Metastasis and Therapeutic Antibody Targeting in the Entire Body.
Chenchen Pan, Oliver Schoppe, Arnaldo Parra-Damas, Ruiyao Cai, Mihail Ivilinov Todorov, Gabor Gondi, Bettina von Neubeck, Nuray Böğürcü-Seidel, Sascha Seidel, Katia Sleiman,[...]. Cell 2019
52
23

Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping.
Jennifer B Treweek, Ken Y Chan, Nicholas C Flytzanis, Bin Yang, Benjamin E Deverman, Alon Greenbaum, Antti Lignell, Cheng Xiao, Long Cai, Mark S Ladinsky,[...]. Nat Protoc 2015
141
12

Fiji: an open-source platform for biological-image analysis.
Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid,[...]. Nat Methods 2012
11

Machine learning analysis of whole mouse brain vasculature.
Mihail Ivilinov Todorov, Johannes Christian Paetzold, Oliver Schoppe, Giles Tetteh, Suprosanna Shit, Velizar Efremov, Katalin Todorov-Völgyi, Marco Düring, Martin Dichgans, Marie Piraud,[...]. Nat Methods 2020
45
24

Optical imaging. Expansion microscopy.
Fei Chen, Paul W Tillberg, Edward S Boyden. Science 2015
462
11

MACS: Rapid Aqueous Clearing System for 3D Mapping of Intact Organs.
Jingtan Zhu, Tingting Yu, Yusha Li, Jianyi Xu, Yisong Qi, Yingtao Yao, Yilin Ma, Peng Wan, Zhilong Chen, Xiangning Li,[...]. Adv Sci (Weinh) 2020
19
57

CUBIC pathology: three-dimensional imaging for pathological diagnosis.
Satoshi Nojima, Etsuo A Susaki, Kyotaro Yoshida, Hiroyoshi Takemoto, Naoto Tsujimura, Shohei Iijima, Ko Takachi, Yujiro Nakahara, Shinichiro Tahara, Kenji Ohshima,[...]. Sci Rep 2017
49
22

CLARITY for mapping the nervous system.
Kwanghun Chung, Karl Deisseroth. Nat Methods 2013
385
11

A versatile clearing agent for multi-modal brain imaging.
Irene Costantini, Jean-Pierre Ghobril, Antonino Paolo Di Giovanna, Anna Letizia Allegra Mascaro, Ludovico Silvestri, Marie Caroline Müllenbroich, Leonardo Onofri, Valerio Conti, Francesco Vanzi, Leonardo Sacconi,[...]. Sci Rep 2015
122
10


Tridimensional Visualization and Analysis of Early Human Development.
Morgane Belle, David Godefroy, Gérard Couly, Samuel A Malone, Francis Collier, Paolo Giacobini, Alain Chédotal. Cell 2017
117
10

Super-Resolution Mapping of Neuronal Circuitry With an Index-Optimized Clearing Agent.
Meng-Tsen Ke, Yasuhiro Nakai, Satoshi Fujimoto, Rie Takayama, Shuhei Yoshida, Tomoya S Kitajima, Makoto Sato, Takeshi Imai. Cell Rep 2016
125
10

Bone CLARITY: Clearing, imaging, and computational analysis of osteoprogenitors within intact bone marrow.
Alon Greenbaum, Ken Y Chan, Tatyana Dobreva, David Brown, Deepak H Balani, Rogely Boyce, Henry M Kronenberg, Helen J McBride, Viviana Gradinaru. Sci Transl Med 2017
91
10

Multiplexed and scalable super-resolution imaging of three-dimensional protein localization in size-adjustable tissues.
Taeyun Ku, Justin Swaney, Jeong-Yoon Park, Alexandre Albanese, Evan Murray, Jae Hun Cho, Young-Gyun Park, Vamsi Mangena, Jiapei Chen, Kwanghun Chung. Nat Biotechnol 2016
140
10

Versatile whole-organ/body staining and imaging based on electrolyte-gel properties of biological tissues.
Etsuo A Susaki, Chika Shimizu, Akihiro Kuno, Kazuki Tainaka, Xiang Li, Kengo Nishi, Ken Morishima, Hiroaki Ono, Koji L Ode, Yuki Saeki,[...]. Nat Commun 2020
28
35


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.