A citation-based method for searching scientific literature

Lipin Loo, Jeremy M Simon, Lei Xing, Eric S McCoy, Jesse K Niehaus, Jiami Guo, E S Anton, Mark J Zylka. Nat Commun 2019
Times Cited: 100







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



Times Cited
  Times     Co-cited
Similarity


Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat Biotechnol 2018
23

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
542
23

Developmental diversification of cortical inhibitory interneurons.
Christian Mayer, Christoph Hafemeister, Rachel C Bandler, Robert Machold, Renata Batista Brito, Xavier Jaglin, Kathryn Allaway, Andrew Butler, Gord Fishell, Rahul Satija. Nature 2018
201
18

Temporal patterning of apical progenitors and their daughter neurons in the developing neocortex.
L Telley, G Agirman, J Prados, N Amberg, S Fièvre, P Oberst, G Bartolini, I Vitali, C Cadilhac, S Hippenmeyer,[...]. Science 2019
123
18

Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex.
Tomasz J Nowakowski, Aparna Bhaduri, Alex A Pollen, Beatriz Alvarado, Mohammed A Mostajo-Radji, Elizabeth Di Lullo, Maximilian Haeussler, Carmen Sandoval-Espinosa, Siyuan John Liu, Dmitry Velmeshev,[...]. Science 2017
344
17

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
17

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
542
16

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
15

Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq.
Amit Zeisel, Ana B Muñoz-Manchado, Simone Codeluppi, Peter Lönnerberg, Gioele La Manno, Anna Juréus, Sueli Marques, Hermany Munguba, Liqun He, Christer Betsholtz,[...]. Science 2015
14

Early emergence of cortical interneuron diversity in the mouse embryo.
Da Mi, Zhen Li, Lynette Lim, Mingfeng Li, Monika Moissidis, Yifei Yang, Tianliuyun Gao, Tim Xiaoming Hu, Thomas Pratt, David J Price,[...]. Science 2018
114
14

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
13

Neuronal subtype specification in the cerebral cortex.
Bradley J Molyneaux, Paola Arlotta, Joao R L Menezes, Jeffrey D Macklis. Nat Rev Neurosci 2007
12

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
885
12

A single-cell RNA-seq survey of the developmental landscape of the human prefrontal cortex.
Suijuan Zhong, Shu Zhang, Xiaoying Fan, Qian Wu, Liying Yan, Ji Dong, Haofeng Zhang, Long Li, Le Sun, Na Pan,[...]. Nature 2018
259
12

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
800
12

Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding.
Alexander B Rosenberg, Charles M Roco, Richard A Muscat, Anna Kuchina, Paul Sample, Zizhen Yao, Lucas T Graybuck, David J Peeler, Sumit Mukherjee, Wei Chen,[...]. Science 2018
435
12

Development and evolution of the human neocortex.
Jan H Lui, David V Hansen, Arnold R Kriegstein. Cell 2011
744
11

Developmental Emergence of Adult Neural Stem Cells as Revealed by Single-Cell Transcriptional Profiling.
Scott A Yuzwa, Michael J Borrett, Brendan T Innes, Anastassia Voronova, Troy Ketela, David R Kaplan, Gary D Bader, Freda D Miller. Cell Rep 2017
84
13

The glial nature of embryonic and adult neural stem cells.
Arnold Kriegstein, Arturo Alvarez-Buylla. Annu Rev Neurosci 2009
11

Sequential transcriptional waves direct the differentiation of newborn neurons in the mouse neocortex.
Ludovic Telley, Subashika Govindan, Julien Prados, Isabelle Stevant, Serge Nef, Emmanouil Dermitzakis, Alexandre Dayer, Denis Jabaudon. Science 2016
162
11

RNA velocity of single cells.
Gioele La Manno, Ruslan Soldatov, Amit Zeisel, Emelie Braun, Hannah Hochgerner, Viktor Petukhov, Katja Lidschreiber, Maria E Kastriti, Peter Lönnerberg, Alessandro Furlan,[...]. Nature 2018
938
10

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
10

Molecular logic of neocortical projection neuron specification, development and diversity.
L C Greig, M B Woodworth, M J Galazo, H Padmanabhan, J D Macklis. Nat Rev Neurosci 2013
454
10

Molecular identity of human outer radial glia during cortical development.
Alex A Pollen, Tomasz J Nowakowski, Jiadong Chen, Hanna Retallack, Carmen Sandoval-Espinosa, Cory R Nicholas, Joe Shuga, Siyuan John Liu, Michael C Oldham, Aaron Diaz,[...]. Cell 2015
418
9

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.
Cole Trapnell, Davide Cacchiarelli, Jonna Grimsby, Prapti Pokharel, Shuqiang Li, Michael Morse, Niall J Lennon, Kenneth J Livak, Tarjei S Mikkelsen, John L Rinn. Nat Biotechnol 2014
9

Single-cell analysis reveals transcriptional heterogeneity of neural progenitors in human cortex.
Matthew B Johnson, Peter P Wang, Kutay D Atabay, Elisabeth A Murphy, Ryan N Doan, Jonathan L Hecht, Christopher A Walsh. Nat Neurosci 2015
174
9

Massively parallel digital transcriptional profiling of single cells.
Grace X Y Zheng, Jessica M Terry, Phillip Belgrader, Paul Ryvkin, Zachary W Bent, Ryan Wilson, Solongo B Ziraldo, Tobias D Wheeler, Geoff P McDermott, Junjie Zhu,[...]. Nat Commun 2017
9

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
9

Development and Functional Diversification of Cortical Interneurons.
Lynette Lim, Da Mi, Alfredo Llorca, Oscar Marín. Neuron 2018
218
9

Conserved cell types with divergent features in human versus mouse cortex.
Rebecca D Hodge, Trygve E Bakken, Jeremy A Miller, Kimberly A Smith, Eliza R Barkan, Lucas T Graybuck, Jennie L Close, Brian Long, Nelson Johansen, Osnat Penn,[...]. Nature 2019
460
9

The single-cell transcriptional landscape of mammalian organogenesis.
Junyue Cao, Malte Spielmann, Xiaojie Qiu, Xingfan Huang, Daniel M Ibrahim, Andrew J Hill, Fan Zhang, Stefan Mundlos, Lena Christiansen, Frank J Steemers,[...]. Nature 2019
673
9

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.
Mark D Robinson, Davis J McCarthy, Gordon K Smyth. Bioinformatics 2010
8

Spatio-temporal transcriptome of the human brain.
Hyo Jung Kang, Yuka Imamura Kawasawa, Feng Cheng, Ying Zhu, Xuming Xu, Mingfeng Li, André M M Sousa, Mihovil Pletikos, Kyle A Meyer, Goran Sedmak,[...]. Nature 2011
8

Intermediate neuronal progenitors (basal progenitors) produce pyramidal-projection neurons for all layers of cerebral cortex.
Tom Kowalczyk, Adria Pontious, Chris Englund, Ray A M Daza, Francesco Bedogni, Rebecca Hodge, Alessio Attardo, Chris Bell, Wieland B Huttner, Robert F Hevner. Cereb Cortex 2009
288
8

Deterministic progenitor behavior and unitary production of neurons in the neocortex.
Peng Gao, Maria Pia Postiglione, Teresa G Krieger, Luisirene Hernandez, Chao Wang, Zhi Han, Carmen Streicher, Ekaterina Papusheva, Ryan Insolera, Kritika Chugh,[...]. Cell 2014
231
8

Cortical excitatory neurons and glia, but not GABAergic neurons, are produced in the Emx1-expressing lineage.
Jessica A Gorski, Tiffany Talley, Mengsheng Qiu, Luis Puelles, John L R Rubenstein, Kevin R Jones. J Neurosci 2002
764
7


HTSeq--a Python framework to work with high-throughput sequencing data.
Simon Anders, Paul Theodor Pyl, Wolfgang Huber. Bioinformatics 2015
7

Neurogenic radial glia in the outer subventricular zone of human neocortex.
David V Hansen, Jan H Lui, Philip R L Parker, Arnold R Kriegstein. Nature 2010
788
7

Transcriptomes of germinal zones of human and mouse fetal neocortex suggest a role of extracellular matrix in progenitor self-renewal.
Simone A Fietz, Robert Lachmann, Holger Brandl, Martin Kircher, Nikolay Samusik, Roland Schröder, Naharajan Lakshmanaperumal, Ian Henry, Johannes Vogt, Axel Riehn,[...]. Proc Natl Acad Sci U S A 2012
194
7

Neurons derived from radial glial cells establish radial units in neocortex.
S C Noctor, A C Flint, T A Weissman, R S Dammerman, A R Kriegstein. Nature 2001
7

OSVZ progenitors of human and ferret neocortex are epithelial-like and expand by integrin signaling.
Simone A Fietz, Iva Kelava, Johannes Vogt, Michaela Wilsch-Bräuninger, Denise Stenzel, Jennifer L Fish, Denis Corbeil, Axel Riehn, Wolfgang Distler, Robert Nitsch,[...]. Nat Neurosci 2010
506
7

Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex.
Alex A Pollen, Tomasz J Nowakowski, Joe Shuga, Xiaohui Wang, Anne A Leyrat, Jan H Lui, Nianzhen Li, Lukasz Szpankowski, Brian Fowler, Peilin Chen,[...]. Nat Biotechnol 2014
498
7

Cortical neurons arise in symmetric and asymmetric division zones and migrate through specific phases.
Stephen C Noctor, Verónica Martínez-Cerdeño, Lidija Ivic, Arnold R Kriegstein. Nat Neurosci 2004
7

Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism.
F Kyle Satterstrom, Jack A Kosmicki, Jiebiao Wang, Michael S Breen, Silvia De Rubeis, Joon-Yong An, Minshi Peng, Ryan Collins, Jakob Grove, Lambertus Klei,[...]. Cell 2020
568
7

DeCoN: genome-wide analysis of in vivo transcriptional dynamics during pyramidal neuron fate selection in neocortex.
Bradley J Molyneaux, Loyal A Goff, Andrea C Brettler, Hsu-Hsin Chen, Siniša Hrvatin, John L Rinn, Paola Arlotta. Neuron 2015
149
7

A comparison of single-cell trajectory inference methods.
Wouter Saelens, Robrecht Cannoodt, Helena Todorov, Yvan Saeys. Nat Biotechnol 2019
400
7

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
762
7

Dimensionality reduction for visualizing single-cell data using UMAP.
Etienne Becht, Leland McInnes, John Healy, Charles-Antoine Dutertre, Immanuel W H Kwok, Lai Guan Ng, Florent Ginhoux, Evan W Newell. Nat Biotechnol 2018
7

SCANPY: large-scale single-cell gene expression data analysis.
F Alexander Wolf, Philipp Angerer, Fabian J Theis. Genome Biol 2018
7


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.