A citation-based method for searching scientific literature

Takahiko Matsuda, Constance L Cepko. Proc Natl Acad Sci U S A 2004
Times Cited: 712







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



Times Cited
  Times     Co-cited
Similarity


Controlled expression of transgenes introduced by in vivo electroporation.
Takahiko Matsuda, Constance L Cepko. Proc Natl Acad Sci U S A 2007
408
14

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
10

NIH Image to ImageJ: 25 years of image analysis.
Caroline A Schneider, Wayne S Rasband, Kevin W Eliceiri. Nat Methods 2012
7

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
7


Cell fate determination in the vertebrate retina.
C L Cepko, C P Austin, X Yang, M Alexiades, D Ezzeddine. Proc Natl Acad Sci U S A 1996
747
6

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
Paul D Adams, Pavel V Afonine, Gábor Bunkóczi, Vincent B Chen, Ian W Davis, Nathaniel Echols, Jeffrey J Headd, Li-Wei Hung, Gary J Kapral, Ralf W Grosse-Kunstleve,[...]. Acta Crystallogr D Biol Crystallogr 2010
6


High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy.
Shaoxia Chen, Greg McMullan, Abdul R Faruqi, Garib N Murshudov, Judith M Short, Sjors H W Scheres, Richard Henderson. Ultramicroscopy 2013
468
6

Structure of the yeast mitochondrial large ribosomal subunit.
Alexey Amunts, Alan Brown, Xiao-Chen Bai, Jose L Llácer, Tanweer Hussain, Paul Emsley, Fei Long, Garib Murshudov, Sjors H W Scheres, V Ramakrishnan. Science 2014
366
6


MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy.
Shawn Q Zheng, Eugene Palovcak, Jean-Paul Armache, Kliment A Verba, Yifan Cheng, David A Agard. Nat Methods 2017
6



Otx2 and Onecut1 promote the fates of cone photoreceptors and horizontal cells and repress rod photoreceptors.
Mark M Emerson, Natalia Surzenko, Jillian J Goetz, Jeffrey Trimarchi, Constance L Cepko. Dev Cell 2013
64
9

Otx2 homeobox gene controls retinal photoreceptor cell fate and pineal gland development.
Akihiro Nishida, Akiko Furukawa, Chieko Koike, Yasuo Tano, Shinichi Aizawa, Isao Matsuo, Takahisa Furukawa. Nat Neurosci 2003
398
6

Cone photoreceptor types in zebrafish are generated by symmetric terminal divisions of dedicated precursors.
Sachihiro C Suzuki, Adam Bleckert, Philip R Williams, Masaki Takechi, Shoji Kawamura, Rachel O L Wong. Proc Natl Acad Sci U S A 2013
108
6

Cell fate determination in the vertebrate retina.
Erin A Bassett, Valerie A Wallace. Trends Neurosci 2012
157
5


UCSF Chimera--a visualization system for exploratory research and analysis.
Eric F Pettersen, Thomas D Goddard, Conrad C Huang, Gregory S Couch, Daniel M Greenblatt, Elaine C Meng, Thomas E Ferrin. J Comput Chem 2004
5

Analysis of thyroid response element activity during retinal development.
Nathan A Billings, Mark M Emerson, Constance L Cepko. PLoS One 2010
21
23



Transcription factor Olig2 defines subpopulations of retinal progenitor cells biased toward specific cell fates.
Brian P Hafler, Natalia Surzenko, Kevin T Beier, Claudio Punzo, Jeffrey M Trimarchi, Jennifer H Kong, Constance L Cepko. Proc Natl Acad Sci U S A 2012
77
6

Functional roles of Otx2 transcription factor in postnatal mouse retinal development.
Chieko Koike, Akihiro Nishida, Shinji Ueno, Hiromitsu Saito, Rikako Sanuki, Shigeru Sato, Akiko Furukawa, Shinichi Aizawa, Isao Matsuo, Noboru Suzuki,[...]. Mol Cell Biol 2007
125
5

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics.
Karthik Shekhar, Sylvain W Lapan, Irene E Whitney, Nicholas M Tran, Evan Z Macosko, Monika Kowalczyk, Xian Adiconis, Joshua Z Levin, James Nemesh, Melissa Goldman,[...]. Cell 2016
448
5


Genome engineering using the CRISPR-Cas9 system.
F Ann Ran, Patrick D Hsu, Jason Wright, Vineeta Agarwala, David A Scott, Feng Zhang. Nat Protoc 2013
4

Integrative genomics viewer.
James T Robinson, Helga Thorvaldsdóttir, Wendy Winckler, Mitchell Guttman, Eric S Lander, Gad Getz, Jill P Mesirov. Nat Biotechnol 2011
4

Dynein recruitment to nuclear pores activates apical nuclear migration and mitotic entry in brain progenitor cells.
Daniel Jun-Kit Hu, Alexandre Dominique Baffet, Tania Nayak, Anna Akhmanova, Valérie Doye, Richard Bert Vallee. Cell 2013
95
4

Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2.
Dari Kimanius, Björn O Forsberg, Sjors Hw Scheres, Erik Lindahl. Elife 2016
600
4

Structure of the Nav1.4-β1 Complex from Electric Eel.
Zhen Yan, Qiang Zhou, Lin Wang, Jianping Wu, Yanyu Zhao, Gaoxingyu Huang, Wei Peng, Huaizong Shen, Jianlin Lei, Nieng Yan. Cell 2017
165
4

Features and development of Coot.
P Emsley, B Lohkamp, W G Scott, K Cowtan. Acta Crystallogr D Biol Crystallogr 2010
4


Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
Evan Z Macosko, Anindita Basu, Rahul Satija, James Nemesh, Karthik Shekhar, Melissa Goldman, Itay Tirosh, Allison R Bialas, Nolan Kamitaki, Emily M Martersteck,[...]. Cell 2015
4

Dkk3-Cre BAC transgenic mouse line: a tool for highly efficient gene deletion in retinal progenitor cells.
Shigeru Sato, Tatsuya Inoue, Koji Terada, Isao Matsuo, Shinichi Aizawa, Yasuo Tano, Takashi Fujikado, Takahisa Furukawa. Genesis 2007
65
6

Identification and characterization of early photoreceptor cis-regulatory elements and their relation to Onecut1.
Nathalie Jean-Charles, Diego F Buenaventura, Mark M Emerson. Neural Dev 2018
8
50

Lineage tracing analysis of cone photoreceptor associated cis-regulatory elements in the developing chicken retina.
Estie Schick, Sean D McCaffery, Erin E Keblish, Cassandra Thakurdin, Mark M Emerson. Sci Rep 2019
8
50

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
4

Neuronal subtype specification in the cerebral cortex.
Bradley J Molyneaux, Paola Arlotta, Joao R L Menezes, Jeffrey D Macklis. Nat Rev Neurosci 2007
4

Role for Wnt Signaling in Retinal Neuropil Development: Analysis via RNA-Seq and In Vivo Somatic CRISPR Mutagenesis.
Sumeet Sarin, Elizabeth Zuniga-Sanchez, Yerbol Z Kurmangaliyev, Henry Cousins, Mili Patel, Jeanette Hernandez, Kelvin X Zhang, Melanie A Samuel, Marta Morey, Joshua R Sanes,[...]. Neuron 2018
29
13

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination.
Ali Punjani, John L Rubinstein, David J Fleet, Marcus A Brubaker. Nat Methods 2017
4


Conserved microRNA pathway regulates developmental timing of retinal neurogenesis.
Anna La Torre, Sean Georgi, Thomas A Reh. Proc Natl Acad Sci U S A 2013
135
3

Lrit1, a Retinal Transmembrane Protein, Regulates Selective Synapse Formation in Cone Photoreceptor Cells and Visual Acuity.
Akiko Ueno, Yoshihiro Omori, Yuko Sugita, Satoshi Watanabe, Taro Chaya, Takashi Kozuka, Tetsuo Kon, Satoyo Yoshida, Kenji Matsushita, Ryusuke Kuwahara,[...]. Cell Rep 2018
19
15

Neuronal subtype-specific genes that control corticospinal motor neuron development in vivo.
Paola Arlotta, Bradley J Molyneaux, Jinhui Chen, Jun Inoue, Ryo Kominami, Jeffrey D Macklis. Neuron 2005
724
3

A robust and high-throughput Cre reporting and characterization system for the whole mouse brain.
Linda Madisen, Theresa A Zwingman, Susan M Sunkin, Seung Wook Oh, Hatim A Zariwala, Hong Gu, Lydia L Ng, Richard D Palmiter, Michael J Hawrylycz, Allan R Jones,[...]. Nat Neurosci 2010
3

ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks.
Gabriela Bindea, Bernhard Mlecnik, Hubert Hackl, Pornpimol Charoentong, Marie Tosolini, Amos Kirilovsky, Wolf-Herman Fridman, Franck Pagès, Zlatko Trajanoski, Jérôme Galon. Bioinformatics 2009
3

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
3

Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
3


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.