A citation-based method for searching scientific literature

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, Ed S Lein, Hongkui Zeng. Nat. Neurosci. 2010
Times Cited: 2682







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



Times Cited
  Times     Co-cited
Similarity


A resource of Cre driver lines for genetic targeting of GABAergic neurons in cerebral cortex.
Hiroki Taniguchi, Miao He, Priscilla Wu, Sangyong Kim, Raehum Paik, Ken Sugino, Duda Kvitsiani, Yu Fu, Jiangteng Lu, Ying Lin,[...]. Neuron 2011
817
11

Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat. Biotechnol. 2018
10

Cre reporter strains produced by targeted insertion of EYFP and ECFP into the ROSA26 locus.
S Srinivas, T Watanabe, C S Lin, C M William, Y Tanabe, T M Jessell, F Costantini. BMC Dev Biol 2001
8


Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
6

Identification of stem cells in small intestine and colon by marker gene Lgr5.
Nick Barker, Johan H van Es, Jeroen Kuipers, Pekka Kujala, Maaike van den Born, Miranda Cozijnsen, Andrea Haegebarth, Jeroen Korving, Harry Begthel, Peter J Peters,[...]. Nature 2007
5

A developmental switch in the response of DRG neurons to ETS transcription factor signaling.
Simon Hippenmeyer, Eline Vrieseling, Markus Sigrist, Thomas Portmann, Celia Laengle, David R Ladle, Silvia Arber. PLoS Biol. 2005
574
5

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
710
5

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.
Da Wei Huang, Brad T Sherman, Richard A Lempicki. Nat Protoc 2009
5

Genome-wide atlas of gene expression in the adult mouse brain.
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,[...]. Nature 2007
4

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Aravind Subramanian, Pablo Tamayo, Vamsi K Mootha, Sayan Mukherjee, Benjamin L Ebert, Michael A Gillette, Amanda Paulovich, Scott L Pomeroy, Todd R Golub, Eric S Lander,[...]. Proc Natl Acad Sci U S A 2005
4

Full-length RNA-seq from single cells using Smart-seq2.
Simone Picelli, Omid R Faridani, Asa K Björklund, Gösta Winberg, Sven Sagasser, Rickard Sandberg. Nat Protoc 2014
987
4

Reversed graph embedding resolves complex single-cell trajectories.
Xiaojie Qiu, Qi Mao, Ying Tang, Li Wang, Raghav Chawla, Hannah A Pliner, Cole Trapnell. Nat. Methods 2017
439
4

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
4

Origin, fate and dynamics of macrophages at central nervous system interfaces.
Tobias Goldmann, Peter Wieghofer, Marta Joana Costa Jordão, Fabiola Prutek, Nora Hagemeyer, Kathrin Frenzel, Lukas Amann, Ori Staszewski, Katrin Kierdorf, Martin Krueger,[...]. Nat. Immunol. 2016
310
4

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
377
4

Fate mapping reveals origins and dynamics of monocytes and tissue macrophages under homeostasis.
Simon Yona, Ki-Wook Kim, Yochai Wolf, Alexander Mildner, Diana Varol, Michal Breker, Dalit Strauss-Ayali, Sergey Viukov, Martin Guilliams, Alexander Misharin,[...]. Immunity 2013
4

Repair and regeneration of the respiratory system: complexity, plasticity, and mechanisms of lung stem cell function.
Brigid L M Hogan, Christina E Barkauskas, Harold A Chapman, Jonathan A Epstein, Rajan Jain, Connie C W Hsia, Laura Niklason, Elizabeth Calle, Andrew Le, Scott H Randell,[...]. Cell Stem Cell 2014
341
4

Lineage tracing.
Kai Kretzschmar, Fiona M Watt. Cell 2012
314
4

Cis elements of the villin gene control expression in restricted domains of the vertical (crypt) and horizontal (duodenum, cecum) axes of the intestine.
Blair B Madison, Laura Dunbar, Xiaotan T Qiao, Katherine Braunstein, Evan Braunstein, Deborah L Gumucio. J. Biol. Chem. 2002
476
4


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

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
4


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
4


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
357
3

A Suite of Transgenic Driver and Reporter Mouse Lines with Enhanced Brain-Cell-Type Targeting and Functionality.
Tanya L Daigle, Linda Madisen, Travis A Hage, Matthew T Valley, Ulf Knoblich, Rylan S Larsen, Marc M Takeno, Lawrence Huang, Hong Gu, Rachael Larsen,[...]. Cell 2018
89
3

Transgenic mice for conditional gene manipulation in astroglial cells.
Michal Slezak, Christian Göritz, Aurore Niemiec, Jonas Frisén, Pierre Chambon, Daniel Metzger, Frank W Pfrieger. Glia 2007
92
3


New Transgenic Mouse Lines for Selectively Targeting Astrocytes and Studying Calcium Signals in Astrocyte Processes In Situ and In Vivo.
Rahul Srinivasan, Tsai-Yi Lu, Hua Chai, Ji Xu, Ben S Huang, Peyman Golshani, Giovanni Coppola, Baljit S Khakh. Neuron 2016
69
4

Resting microglial cells are highly dynamic surveillants of brain parenchyma in vivo.
Axel Nimmerjahn, Frank Kirchhoff, Fritjof Helmchen. Science 2005
3

Conditional site-specific recombination in mammalian cells using a ligand-dependent chimeric Cre recombinase.
D Metzger, J Clifford, H Chiba, P Chambon. Proc. Natl. Acad. Sci. U.S.A. 1995
329
3

Re-evaluating microglia expression profiles using RiboTag and cell isolation strategies.
Zhana Haimon, Alon Volaski, Johannes Orthgiess, Sigalit Boura-Halfon, Diana Varol, Anat Shemer, Simon Yona, Binyamin Zuckerman, Eyal David, Louise Chappell-Maor,[...]. Nat. Immunol. 2018
51
5

Neurons exhibit Lyz2 promoter activity in vivo: Implications for using LysM-Cre mice in myeloid cell research.
Johannes Orthgiess, Martin Gericke, Kerstin Immig, Angela Schulz, Johannes Hirrlinger, Ingo Bechmann, Jens Eilers. Eur. J. Immunol. 2016
39
7

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
3

Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system.
Jean Livet, Tamily A Weissman, Hyuno Kang, Ryan W Draft, Ju Lu, Robyn A Bennis, Joshua R Sanes, Jeff W Lichtman. Nature 2007
987
3

Enhancing the precision of genetic lineage tracing using dual recombinases.
Lingjuan He, Yan Li, Yi Li, Wenjuan Pu, Xiuzhen Huang, Xueying Tian, Yue Wang, Hui Zhang, Qiaozhen Liu, Libo Zhang,[...]. Nat. Med. 2017
70
4

Regeneration of the lung alveolus by an evolutionarily conserved epithelial progenitor.
William J Zacharias, David B Frank, Jarod A Zepp, Michael P Morley, Farrah A Alkhaleel, Jun Kong, Su Zhou, Edward Cantu, Edward E Morrisey. Nature 2018
153
3

Lung regeneration by multipotent stem cells residing at the bronchioalveolar-duct junction.
Qiaozhen Liu, Kuo Liu, Guizhong Cui, Xiuzhen Huang, Shun Yao, Wenke Guo, Zhen Qin, Yan Li, Rui Yang, Wenjuan Pu,[...]. Nat. Genet. 2019
50
6

Vessel formation. De novo formation of a distinct coronary vascular population in neonatal heart.
Xueying Tian, Tianyuan Hu, Hui Zhang, Lingjuan He, Xiuzhen Huang, Qiaozhen Liu, Wei Yu, Liang He, Zhen Yang, Yan Yan,[...]. Science 2014
94
3

Single-cell Wnt signaling niches maintain stemness of alveolar type 2 cells.
Ahmad N Nabhan, Douglas G Brownfield, Pehr B Harbury, Mark A Krasnow, Tushar J Desai. Science 2018
154
3

Identification of bronchioalveolar stem cells in normal lung and lung cancer.
Carla F Bender Kim, Erica L Jackson, Amber E Woolfenden, Sharon Lawrence, Imran Babar, Sinae Vogel, Denise Crowley, Roderick T Bronson, Tyler Jacks. Cell 2005
3

Tie2-Cre transgenic mice: a new model for endothelial cell-lineage analysis in vivo.
Y Y Kisanuki, R E Hammer, J Miyazaki , S C Williams, J A Richardson, M Yanagisawa. Dev. Biol. 2001
801
3

Single Lgr5 stem cells build crypt-villus structures in vitro without a mesenchymal niche.
Toshiro Sato, Robert G Vries, Hugo J Snippert, Marc van de Wetering, Nick Barker, Daniel E Stange, Johan H van Es, Arie Abo, Pekka Kujala, Peter J Peters,[...]. Nature 2009
3

Spontaneous cortical activity alternates between motifs defined by regional axonal projections.
Majid H Mohajerani, Allen W Chan, Mostafa Mohsenvand, Jeffrey LeDue, Rui Liu, David A McVea, Jamie D Boyd, Yu Tian Wang, Mark Reimers, Timothy H Murphy. Nat. Neurosci. 2013
163
3

Barrel cortex function.
Dirk Feldmeyer, Michael Brecht, Fritjof Helmchen, Carl C H Petersen, James F A Poulet, Jochen F Staiger, Heiko J Luhmann, Cornelius Schwarz. Prog. Neurobiol. 2013
155
3

Interneuron cell types are fit to function.
Adam Kepecs, Gordon Fishell. Nature 2014
430
3

limma powers differential expression analyses for RNA-sequencing and microarray studies.
Matthew E Ritchie, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, Gordon K Smyth. Nucleic Acids Res 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.