A citation-based method for searching scientific literature

Joshua T Vogelstein, Adam M Packer, Timothy A Machado, Tanya Sippy, Baktash Babadi, Rafael Yuste, Liam Paninski. J Neurophysiol 2010
Times Cited: 202







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



Times Cited
  Times     Co-cited
Similarity


Ultrasensitive fluorescent proteins for imaging neuronal activity.
Tsai-Wen Chen, Trevor J Wardill, Yi Sun, Stefan R Pulver, Sabine L Renninger, Amy Baohan, Eric R Schreiter, Rex A Kerr, Michael B Orger, Vivek Jayaraman,[...]. Nature 2013
57

Simultaneous Denoising, Deconvolution, and Demixing of Calcium Imaging Data.
Eftychios A Pnevmatikakis, Daniel Soudry, Yuanjun Gao, Timothy A Machado, Josh Merel, David Pfau, Thomas Reardon, Yu Mu, Clay Lacefield, Weijian Yang,[...]. Neuron 2016
298
47

Benchmarking Spike Rate Inference in Population Calcium Imaging.
Lucas Theis, Philipp Berens, Emmanouil Froudarakis, Jacob Reimer, Miroslav Román Rosón, Tom Baden, Thomas Euler, Andreas S Tolias, Matthias Bethge. Neuron 2016
76
36

Accurate spike estimation from noisy calcium signals for ultrafast three-dimensional imaging of large neuronal populations in vivo.
Thomas Deneux, Attila Kaszas, Gergely Szalay, Gergely Katona, Tamás Lakner, Amiram Grinvald, Balázs Rózsa, Ivo Vanzetta. Nat Commun 2016
64
42

Fast online deconvolution of calcium imaging data.
Johannes Friedrich, Pengcheng Zhou, Liam Paninski. PLoS Comput Biol 2017
89
29

Spike inference from calcium imaging using sequential Monte Carlo methods.
Joshua T Vogelstein, Brendon O Watson, Adam M Packer, Rafael Yuste, Bruno Jedynak, Liam Paninski. Biophys J 2009
108
24

Automated analysis of cellular signals from large-scale calcium imaging data.
Eran A Mukamel, Axel Nimmerjahn, Mark J Schnitzer. Neuron 2009
322
19


High-speed in vivo calcium imaging reveals neuronal network activity with near-millisecond precision.
Benjamin F Grewe, Dominik Langer, Hansjörg Kasper, Björn M Kampa, Fritjof Helmchen. Nat Methods 2010
267
16

Robustness of Spike Deconvolution for Neuronal Calcium Imaging.
Marius Pachitariu, Carsen Stringer, Kenneth D Harris. J Neurosci 2018
40
40

CaImAn an open source tool for scalable calcium imaging data analysis.
Andrea Giovannucci, Johannes Friedrich, Pat Gunn, Jérémie Kalfon, Brandon L Brown, Sue Ann Koay, Jiannis Taxidis, Farzaneh Najafi, Jeffrey L Gauthier, Pengcheng Zhou,[...]. Elife 2019
96
16

Community-based benchmarking improves spike rate inference from two-photon calcium imaging data.
Philipp Berens, Jeremy Freeman, Thomas Deneux, Nikolay Chenkov, Thomas McColgan, Artur Speiser, Jakob H Macke, Srinivas C Turaga, Patrick Mineault, Peter Rupprecht,[...]. PLoS Comput Biol 2018
32
46

Whole-brain functional imaging at cellular resolution using light-sheet microscopy.
Misha B Ahrens, Michael B Orger, Drew N Robson, Jennifer M Li, Philipp J Keller. Nat Methods 2013
588
14

Efficient and accurate extraction of in vivo calcium signals from microendoscopic video data.
Pengcheng Zhou, Shanna L Resendez, Jose Rodriguez-Romaguera, Jessica C Jimenez, Shay Q Neufeld, Andrea Giovannucci, Johannes Friedrich, Eftychios A Pnevmatikakis, Garret D Stuber, Rene Hen,[...]. Elife 2018
127
14


Imaging large-scale neural activity with cellular resolution in awake, mobile mice.
Daniel A Dombeck, Anton N Khabbaz, Forrest Collman, Thomas L Adelman, David W Tank. Neuron 2007
601
12

NoRMCorre: An online algorithm for piecewise rigid motion correction of calcium imaging data.
Eftychios A Pnevmatikakis, Andrea Giovannucci. J Neurosci Methods 2017
141
12

Multiple dynamic representations in the motor cortex during sensorimotor learning.
D Huber, D A Gutnisky, S Peron, D H O'Connor, J S Wiegert, L Tian, T G Oertner, L L Looger, K Svoboda. Nature 2012
281
11

Long-term dynamics of CA1 hippocampal place codes.
Yaniv Ziv, Laurie D Burns, Eric D Cocker, Elizabeth O Hamel, Kunal K Ghosh, Lacey J Kitch, Abbas El Gamal, Mark J Schnitzer. Nat Neurosci 2013
413
11

Choice-specific sequences in parietal cortex during a virtual-navigation decision task.
Christopher D Harvey, Philip Coen, David W Tank. Nature 2012
457
11

Functional imaging with cellular resolution reveals precise micro-architecture in visual cortex.
Kenichi Ohki, Sooyoung Chung, Yeang H Ch'ng, Prakash Kara, R Clay Reid. Nature 2005
700
11

Imaging calcium in neurons.
Christine Grienberger, Arthur Konnerth. Neuron 2012
554
11

Fast and accurate detection of action potentials from somatic calcium fluctuations.
Takuya Sasaki, Naoya Takahashi, Norio Matsuki, Yuji Ikegaya. J Neurophysiol 2008
85
12

Optimization of a GCaMP calcium indicator for neural activity imaging.
Jasper Akerboom, Tsai-Wen Chen, Trevor J Wardill, Lin Tian, Jonathan S Marvin, Sevinç Mutlu, Nicole Carreras Calderón, Federico Esposti, Bart G Borghuis, Xiaonan Richard Sun,[...]. J Neurosci 2012
698
11

A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging.
Nicholas James Sofroniew, Daniel Flickinger, Jonathan King, Karel Svoboda. Elife 2016
203
10

Functional specificity of local synaptic connections in neocortical networks.
Ho Ko, Sonja B Hofer, Bruno Pichler, Katherine A Buchanan, P Jesper Sjöström, Thomas D Mrsic-Flogel. Nature 2011
438
10

Thy1-GCaMP6 transgenic mice for neuronal population imaging in vivo.
Hod Dana, Tsai-Wen Chen, Amy Hu, Brenda C Shields, Caiying Guo, Loren L Looger, Douglas S Kim, Karel Svoboda. PLoS One 2014
204
10

Simultaneous all-optical manipulation and recording of neural circuit activity with cellular resolution in vivo.
Adam M Packer, Lloyd E Russell, Henry W P Dalgleish, Michael Häusser. Nat Methods 2015
246
10

Population imaging of ongoing neuronal activity in the visual cortex of awake rats.
David S Greenberg, Arthur R Houweling, Jason N D Kerr. Nat Neurosci 2008
267
10

Functional imaging of hippocampal place cells at cellular resolution during virtual navigation.
Daniel A Dombeck, Christopher D Harvey, Lin Tian, Loren L Looger, David W Tank. Nat Neurosci 2010
391
10

Transgenic mice for intersectional targeting of neural sensors and effectors with high specificity and performance.
Linda Madisen, Aleena R Garner, Daisuke Shimaoka, Amy S Chuong, Nathan C Klapoetke, Lu Li, Alexander van der Bourg, Yusuke Niino, Ladan Egolf, Claudio Monetti,[...]. Neuron 2015
457
9

In vivo two-photon calcium imaging of neuronal networks.
Christoph Stosiek, Olga Garaschuk, Knut Holthoff, Arthur Konnerth. Proc Natl Acad Sci U S A 2003
801
9

Efficient subpixel image registration algorithms.
Manuel Guizar-Sicairos, Samuel T Thurman, James R Fienup. Opt Lett 2008
558
9

SIMA: Python software for analysis of dynamic fluorescence imaging data.
Patrick Kaifosh, Jeffrey D Zaremba, Nathan B Danielson, Attila Losonczy. Front Neuroinform 2014
72
12

ScanImage: flexible software for operating laser scanning microscopes.
Thomas A Pologruto, Bernardo L Sabatini, Karel Svoboda. Biomed Eng Online 2003
673
9

Detecting cells using non-negative matrix factorization on calcium imaging data.
Ryuichi Maruyama, Kazuma Maeda, Hajime Moroda, Ichiro Kato, Masashi Inoue, Hiroyoshi Miyakawa, Toru Aonishi. Neural Netw 2014
41
21

Broadly tuned response properties of diverse inhibitory neuron subtypes in mouse visual cortex.
Aaron M Kerlin, Mark L Andermann, Vladimir K Berezovskii, R Clay Reid. Neuron 2010
340
9

Inference of neuronal network spike dynamics and topology from calcium imaging data.
Henry Lütcke, Felipe Gerhard, Friedemann Zenke, Wulfram Gerstner, Fritjof Helmchen. Front Neural Circuits 2013
44
20

EXACT SPIKE TRAIN INFERENCE VIA ℓ0 OPTIMIZATION.
Sean Jewell, Daniela Witten. Ann Appl Stat 2018
13
69

Dimensionality reduction for large-scale neural recordings.
John P Cunningham, Byron M Yu. Nat Neurosci 2014
315
8

Measuring and interpreting neuronal correlations.
Marlene R Cohen, Adam Kohn. Nat Neurosci 2011
505
8


A Cellular Resolution Map of Barrel Cortex Activity during Tactile Behavior.
Simon P Peron, Jeremy Freeman, Vijay Iyer, Caiying Guo, Karel Svoboda. Neuron 2015
138
8

Diverse coupling of neurons to populations in sensory cortex.
Michael Okun, Nicholas Steinmetz, Lee Cossell, M Florencia Iacaruso, Ho Ko, Péter Barthó, Tirin Moore, Sonja B Hofer, Thomas D Mrsic-Flogel, Matteo Carandini,[...]. Nature 2015
179
8

Miniaturized integration of a fluorescence microscope.
Kunal K Ghosh, Laurie D Burns, Eric D Cocker, Axel Nimmerjahn, Yaniv Ziv, Abbas El Gamal, Mark J Schnitzer. Nat Methods 2011
432
8

Emergence of reproducible spatiotemporal activity during motor learning.
Andrew J Peters, Simon X Chen, Takaki Komiyama. Nature 2014
206
8

Photon shot noise limits on optical detection of neuronal spikes and estimation of spike timing.
Brian A Wilt, James E Fitzgerald, Mark J Schnitzer. Biophys J 2013
67
11

Sensitive red protein calcium indicators for imaging neural activity.
Hod Dana, Boaz Mohar, Yi Sun, Sujatha Narayan, Andrew Gordus, Jeremy P Hasseman, Getahun Tsegaye, Graham T Holt, Amy Hu, Deepika Walpita,[...]. Elife 2016
352
8

Rational design of a high-affinity, fast, red calcium indicator R-CaMP2.
Masatoshi Inoue, Atsuya Takeuchi, Shin-ichiro Horigane, Masamichi Ohkura, Keiko Gengyo-Ando, Hajime Fujii, Satoshi Kamijo, Sayaka Takemoto-Kimura, Masanobu Kano, Junichi Nakai,[...]. Nat Methods 2015
141
7

Comprehensive imaging of cortical networks.
Simon Peron, Tsai-Wen Chen, Karel Svoboda. Curr Opin Neurobiol 2015
49
14


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.