A citation-based method for searching scientific literature

Ed S Lein, Michael J Hawrylycz, Nancy Ao, Mikael Ayres, Amy Bensinger, Amy Bernard, Andrew F Boe, Mark S Boguski, Kevin S Brockway, Emi J Byrnes, Lin Chen, Li Chen, Tsuey-Ming Chen, Mei Chi Chin, Jimmy Chong, Brian E Crook, Aneta Czaplinska, Chinh N Dang, Suvro Datta, Nick R Dee, Aimee L Desaki, Tsega Desta, Ellen Diep, Tim A Dolbeare, Matthew J Donelan, Hong-Wei Dong, Jennifer G Dougherty, Ben J Duncan, Amanda J Ebbert, Gregor Eichele, Lili K Estin, Casey Faber, Benjamin A Facer, Rick Fields, Shanna R Fischer, Tim P Fliss, Cliff Frensley, Sabrina N Gates, Katie J Glattfelder, Kevin R Halverson, Matthew R Hart, John G Hohmann, Maureen P Howell, Darren P Jeung, Rebecca A Johnson, Patrick T Karr, Reena Kawal, Jolene M Kidney, Rachel H Knapik, Chihchau L Kuan, James H Lake, Annabel R Laramee, Kirk D Larsen, Christopher Lau, Tracy A Lemon, Agnes J Liang, Ying Liu, Lon T Luong, Jesse Michaels, Judith J Morgan, Rebecca J Morgan, Marty T Mortrud, Nerick F Mosqueda, Lydia L Ng, Randy Ng, Geralyn J Orta, Caroline C Overly, Tu H Pak, Sheana E Parry, Sayan D Pathak, Owen C Pearson, Ralph B Puchalski, Zackery L Riley, Hannah R Rockett, Stephen A Rowland, Joshua J Royall, Marcos J Ruiz, Nadia R Sarno, Katherine Schaffnit, Nadiya V Shapovalova, Taz Sivisay, Clifford R Slaughterbeck, Simon C Smith, Kimberly A Smith, Bryan I Smith, Andy J Sodt, Nick N Stewart, Kenda-Ruth Stumpf, Susan M Sunkin, Madhavi Sutram, Angelene Tam, Carey D Teemer, Christina Thaller, Carol L Thompson, Lee R Varnam, Axel Visel, Ray M Whitlock, Paul E Wohnoutka, Crissa K Wolkey, Victoria Y Wong, Matthew Wood, Murat B Yaylaoglu, Rob C Young, Brian L Youngstrom, Xu Feng Yuan, Bin Zhang, Theresa A Zwingman, Allan R Jones. Nature 2007
Times Cited: 3288







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



Times Cited
  Times     Co-cited
Similarity


Shared and distinct transcriptomic cell types across neocortical areas.
Bosiljka Tasic, Zizhen Yao, Lucas T Graybuck, Kimberly A Smith, Thuc Nghi Nguyen, Darren Bertagnolli, Jeff Goldy, Emma Garren, Michael N Economo, Sarada Viswanathan,[...]. Nature 2018
506
10

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
9

Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain.
Arpiar Saunders, Evan Z Macosko, Alec Wysoker, Melissa Goldman, Fenna M Krienen, Heather de Rivera, Elizabeth Bien, Matthew Baum, Laura Bortolin, Shuyu Wang,[...]. Cell 2018
504
9

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
9

The Allen Mouse Brain Common Coordinate Framework: A 3D Reference Atlas.
Quanxin Wang, Song-Lin Ding, Yang Li, Josh Royall, David Feng, Phil Lesnar, Nile Graddis, Maitham Naeemi, Benjamin Facer, Anh Ho,[...]. Cell 2020
151
6

An anatomically comprehensive atlas of the adult human brain transcriptome.
Michael J Hawrylycz, Ed S Lein, Angela L Guillozet-Bongaarts, Elaine H Shen, Lydia Ng, Jeremy A Miller, Louie N van de Lagemaat, Kimberly A Smith, Amanda Ebbert, Zackery L Riley,[...]. Nature 2012
6

An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex.
Ye Zhang, Kenian Chen, Steven A Sloan, Mariko L Bennett, Anja R Scholze, Sean O'Keeffe, Hemali P Phatnani, Paolo Guarnieri, Christine Caneda, Nadine Ruderisch,[...]. J Neurosci 2014
6

Adult mouse cortical cell taxonomy revealed by single cell transcriptomics.
Bosiljka Tasic, Vilas Menon, Thuc Nghi Nguyen, Tae Kyung Kim, Tim Jarsky, Zizhen Yao, Boaz Levi, Lucas T Gray, Staci A Sorensen, Tim Dolbeare,[...]. Nat Neurosci 2016
781
6

Comprehensive Integration of Single-Cell Data.
Tim Stuart, Andrew Butler, Paul Hoffman, Christoph Hafemeister, Efthymia Papalexi, William M Mauck, Yuhan Hao, Marlon Stoeckius, Peter Smibert, Rahul Satija. Cell 2019
6

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
5

Molecular Architecture of the Mouse Nervous System.
Amit Zeisel, Hannah Hochgerner, Peter Lönnerberg, Anna Johnsson, Fatima Memic, Job van der Zwan, Martin Häring, Emelie Braun, Lars E Borm, Gioele La Manno,[...]. Cell 2018
841
4


A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain.
Carol L Thompson, Lydia Ng, Vilas Menon, Salvador Martinez, Chang-Kyu Lee, Katie Glattfelder, Susan M Sunkin, Alex Henry, Christopher Lau, Chinh Dang,[...]. Neuron 2014
142
4


Transcriptional landscape of the prenatal human brain.
Jeremy A Miller, Song-Lin Ding, Susan M Sunkin, Kimberly A Smith, Lydia Ng, Aaron Szafer, Amanda Ebbert, Zackery L Riley, Joshua J Royall, Kaylynn Aiona,[...]. Nature 2014
667
4

Predicting human resting-state functional connectivity from structural connectivity.
C J Honey, O Sporns, L Cammoun, X Gigandet, J P Thiran, R Meuli, P Hagmann. Proc Natl Acad Sci U S A 2009
4


Common functional networks in the mouse brain revealed by multi-centre resting-state fMRI analysis.
Joanes Grandjean, Carola Canella, Cynthia Anckaerts, Gülebru Ayrancı, Salma Bougacha, Thomas Bienert, David Buehlmann, Ludovico Coletta, Daniel Gallino, Natalia Gass,[...]. Neuroimage 2020
61
6

An interactive framework for whole-brain maps at cellular resolution.
Daniel Fürth, Thomas Vaissière, Ourania Tzortzi, Yang Xuan, Antje Märtin, Iakovos Lazaridis, Giada Spigolon, Gilberto Fisone, Raju Tomer, Karl Deisseroth,[...]. Nat Neurosci 2018
81
4

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
Patrik L Ståhl, Fredrik Salmén, Sanja Vickovic, Anna Lundmark, José Fernández Navarro, Jens Magnusson, Stefania Giacomello, Michaela Asp, Jakub O Westholm, Mikael Huss,[...]. Science 2016
722
4

Divergence of rodent and primate medial frontal cortex functional connectivity.
David J Schaeffer, Yuki Hori, Kyle M Gilbert, Joseph S Gati, Ravi S Menon, Stefan Everling. Proc Natl Acad Sci U S A 2020
21
14

Where is Cingulate Cortex? A Cross-Species View.
Sabrina van Heukelum, Rogier B Mars, Martin Guthrie, Jan K Buitelaar, Christian F Beckmann, Paul H E Tiesinga, Brent A Vogt, Jeffrey C Glennon, Martha N Havenith. Trends Neurosci 2020
53
5

DeepLabCut: markerless pose estimation of user-defined body parts with deep learning.
Alexander Mathis, Pranav Mamidanna, Kevin M Cury, Taiga Abe, Venkatesh N Murthy, Mackenzie Weygandt Mathis, Matthias Bethge. Nat Neurosci 2018
628
3

Petilla terminology: nomenclature of features of GABAergic interneurons of the cerebral cortex.
Giorgio A Ascoli, Lidia Alonso-Nanclares, Stewart A Anderson, German Barrionuevo, Ruth Benavides-Piccione, Andreas Burkhalter, György Buzsáki, Bruno Cauli, Javier Defelipe, Alfonso Fairén,[...]. Nat Rev Neurosci 2008
951
3

Reconstruction of 1,000 Projection Neurons Reveals New Cell Types and Organization of Long-Range Connectivity in the Mouse Brain.
Johan Winnubst, Erhan Bas, Tiago A Ferreira, Zhuhao Wu, Michael N Economo, Patrick Edson, Ben J Arthur, Christopher Bruns, Konrad Rokicki, David Schauder,[...]. Cell 2019
129
3

Enhanced and unified anatomical labeling for a common mouse brain atlas.
Uree Chon, Daniel J Vanselow, Keith C Cheng, Yongsoo Kim. Nat Commun 2019
34
8

Integration of gene expression and brain-wide connectivity reveals the multiscale organization of mouse hippocampal networks.
Michael S Bienkowski, Ian Bowman, Monica Y Song, Lin Gou, Tyler Ard, Kaelan Cotter, Muye Zhu, Nora L Benavidez, Seita Yamashita, Jaspar Abu-Jaber,[...]. Nat Neurosci 2018
78
3

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update.
Maxim V Kuleshov, Matthew R Jones, Andrew D Rouillard, Nicolas F Fernandez, Qiaonan Duan, Zichen Wang, Simon Koplev, Sherry L Jenkins, Kathleen M Jagodnik, Alexander Lachmann,[...]. Nucleic Acids Res 2016
3

A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation.
Zizhen Yao, Cindy T J van Velthoven, Thuc Nghi Nguyen, Jeff Goldy, Adriana E Sedeno-Cortes, Fahimeh Baftizadeh, Darren Bertagnolli, Tamara Casper, Megan Chiang, Kirsten Crichton,[...]. Cell 2021
71
4

Animal Functional Magnetic Resonance Imaging: Trends and Path Toward Standardization.
Francesca Mandino, Domenic H Cerri, Clement M Garin, Milou Straathof, Geralda A F van Tilborg, M Mallar Chakravarty, Marc Dhenain, Rick M Dijkhuizen, Alessandro Gozzi, Andreas Hess,[...]. Front Neuroinform 2020
26
11

The human brain is intrinsically organized into dynamic, anticorrelated functional networks.
Michael D Fox, Abraham Z Snyder, Justin L Vincent, Maurizio Corbetta, David C Van Essen, Marcus E Raichle. Proc Natl Acad Sci U S A 2005
3

The WU-Minn Human Connectome Project: an overview.
David C Van Essen, Stephen M Smith, Deanna M Barch, Timothy E J Behrens, Essa Yacoub, Kamil Ugurbil. Neuroimage 2013
3

Structural Basis of Large-Scale Functional Connectivity in the Mouse.
Joanes Grandjean, Valerio Zerbi, Joshua Henk Balsters, Nicole Wenderoth, Markus Rudin. J Neurosci 2017
62
4

Large-scale topology and the default mode network in the mouse connectome.
James M Stafford, Benjamin R Jarrett, Oscar Miranda-Dominguez, Brian D Mills, Nicholas Cain, Stefan Mihalas, Garet P Lahvis, K Matthew Lattal, Suzanne H Mitchell, Stephen V David,[...]. Proc Natl Acad Sci U S A 2014
137
3

A trans-synaptic nanocolumn aligns neurotransmitter release to receptors.
Ai-Hui Tang, Haiwen Chen, Tuo P Li, Sarah R Metzbower, Harold D MacGillavry, Thomas A Blanpied. Nature 2016
286
3

Transcellular Nanoalignment of Synaptic Function.
Thomas Biederer, Pascal S Kaeser, Thomas A Blanpied. Neuron 2017
149
3

A molecular atlas of cell types and zonation in the brain vasculature.
Michael Vanlandewijck, Liqun He, Maarja Andaloussi Mäe, Johanna Andrae, Koji Ando, Francesca Del Gaudio, Khayrun Nahar, Thibaud Lebouvier, Bàrbara Laviña, Leonor Gouveia,[...]. Nature 2018
641
3

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
319
3

The brain's default mode network.
Marcus E Raichle. Annu Rev Neurosci 2015
3

A multi-modal parcellation of human cerebral cortex.
Matthew F Glasser, Timothy S Coalson, Emma C Robinson, Carl D Hacker, John Harwell, Essa Yacoub, Kamil Ugurbil, Jesper Andersson, Christian F Beckmann, Mark Jenkinson,[...]. Nature 2016
3

U1 snRNP regulates cancer cell migration and invasion in vitro.
Jung-Min Oh, Christopher C Venters, Chao Di, Anna Maria Pinto, Lili Wan, Ihab Younis, Zhiqiang Cai, Chie Arai, Byung Ran So, Jingqi Duan,[...]. Nat Commun 2020
759
3

Cell type-specific genetic and optogenetic tools reveal hippocampal CA2 circuits.
Keigo Kohara, Michele Pignatelli, Alexander J Rivest, Hae-Yoon Jung, Takashi Kitamura, Junghyup Suh, Dominic Frank, Koichiro Kajikawa, Nathan Mise, Yuichi Obata,[...]. Nat Neurosci 2014
268
3

A translational profiling approach for the molecular characterization of CNS cell types.
Myriam Heiman, Anne Schaefer, Shiaoching Gong, Jayms D Peterson, Michelle Day, Keri E Ramsey, Mayte Suárez-Fariñas, Cordelia Schwarz, Dietrich A Stephan, D James Surmeier,[...]. Cell 2008
740
3

Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity.
Joshua D Welch, Velina Kozareva, Ashley Ferreira, Charles Vanderburg, Carly Martin, Evan Z Macosko. Cell 2019
282
3

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
3

Chronic Stress Induces Activity, Synaptic, and Transcriptional Remodeling of the Lateral Habenula Associated with Deficits in Motivated Behaviors.
Ignas Cerniauskas, Jochen Winterer, Johannes W de Jong, David Lukacsovich, Hongbin Yang, Fawwad Khan, James R Peck, Sophie K Obayashi, Varoth Lilascharoen, Byung Kook Lim,[...]. Neuron 2019
38
7

NIH Image to ImageJ: 25 years of image analysis.
Caroline A Schneider, Wayne S Rasband, Kevin W Eliceiri. Nat Methods 2012
3

clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
3

High-Spatial-Resolution Multi-Omics Sequencing via Deterministic Barcoding in Tissue.
Yang Liu, Mingyu Yang, Yanxiang Deng, Graham Su, Archibald Enninful, Cindy C Guo, Toma Tebaldi, Di Zhang, Dongjoo Kim, Zhiliang Bai,[...]. Cell 2020
81
3

Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.
Allon M Klein, Linas Mazutis, Ilke Akartuna, Naren Tallapragada, Adrian Veres, Victor Li, Leonid Peshkin, David A Weitz, Marc W Kirschner. Cell 2015
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.