A citation-based method for searching scientific literature

Guangdun Peng, Shengbao Suo, Guizhong Cui, Fang Yu, Ran Wang, Jun Chen, Shirui Chen, Zhiwen Liu, Guoyu Chen, Yun Qian, Patrick P L Tam, Jing-Dong J Han, Naihe Jing. Nature 2019
Times Cited: 61







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



Times Cited
  Times     Co-cited
Similarity


A single-cell molecular map of mouse gastrulation and early organogenesis.
Blanca Pijuan-Sala, Jonathan A Griffiths, Carolina Guibentif, Tom W Hiscock, Wajid Jawaid, Fernando J Calero-Nieto, Carla Mulas, Ximena Ibarra-Soria, Richard C V Tyser, Debbie Lee Lian Ho,[...]. Nature 2019
239
37

Spatial Transcriptome for the Molecular Annotation of Lineage Fates and Cell Identity in Mid-gastrula Mouse Embryo.
Guangdun Peng, Shengbao Suo, Jun Chen, Weiyang Chen, Chang Liu, Fang Yu, Ran Wang, Shirui Chen, Na Sun, Guizhong Cui,[...]. Dev Cell 2016
125
27

Molecular recording of mammalian embryogenesis.
Michelle M Chan, Zachary D Smith, Stefanie Grosswendt, Helene Kretzmer, Thomas M Norman, Britt Adamson, Marco Jost, Jeffrey J Quinn, Dian Yang, Matthew G Jones,[...]. Nature 2019
121
27

The emergent landscape of the mouse gut endoderm at single-cell resolution.
Sonja Nowotschin, Manu Setty, Ying-Yi Kuo, Vincent Liu, Vidur Garg, Roshan Sharma, Claire S Simon, Nestor Saiz, Rui Gardner, Stéphane C Boutet,[...]. Nature 2019
100
26

Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo.
Sebastian J Arnold, Elizabeth J Robertson. Nat Rev Mol Cell Biol 2009
468
21


A developmental coordinate of pluripotency among mice, monkeys and humans.
Tomonori Nakamura, Ikuhiro Okamoto, Kotaro Sasaki, Yukihiro Yabuta, Chizuru Iwatani, Hideaki Tsuchiya, Yasunari Seita, Shinichiro Nakamura, Takuya Yamamoto, Mitinori Saitou. Nature 2016
250
18

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
631
18

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
883
18


In vitro culture of cynomolgus monkey embryos beyond early gastrulation.
Huaixiao Ma, Jinglei Zhai, Haifeng Wan, Xiangxiang Jiang, Xiaoxiao Wang, Lin Wang, Yunlong Xiang, Xiechao He, Zhen-Ao Zhao, Bo Zhao,[...]. Science 2019
66
16

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
16

Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo.
Daniel E Wagner, Caleb Weinreb, Zach M Collins, James A Briggs, Sean G Megason, Allon M Klein. Science 2018
321
16

Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis.
Jeffrey A Farrell, Yiqun Wang, Samantha J Riesenfeld, Karthik Shekhar, Aviv Regev, Alexander F Schier. Science 2018
276
16

Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat Biotechnol 2018
14

Dissecting primate early post-implantation development using long-term in vitro embryo culture.
Yuyu Niu, Nianqin Sun, Chang Li, Ying Lei, Zhihao Huang, Jun Wu, Chenyang Si, Xi Dai, Chuanyu Liu, Jingkuan Wei,[...]. Science 2019
65
14

Naive and primed pluripotent states.
Jennifer Nichols, Austin Smith. Cell Stem Cell 2009
14

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
14

Single-Cell Landscape of Transcriptional Heterogeneity and Cell Fate Decisions during Mouse Early Gastrulation.
Hisham Mohammed, Irene Hernando-Herraez, Aurora Savino, Antonio Scialdone, Iain Macaulay, Carla Mulas, Tamir Chandra, Thierry Voet, Wendy Dean, Jennifer Nichols,[...]. Cell Rep 2017
131
14

Controlled modelling of human epiblast and amnion development using stem cells.
Yi Zheng, Xufeng Xue, Yue Shao, Sicong Wang, Sajedeh Nasr Esfahani, Zida Li, Jonathon M Muncie, Johnathon N Lakins, Valerie M Weaver, Deborah L Gumucio,[...]. Nature 2019
145
14

Resolving early mesoderm diversification through single-cell expression profiling.
Antonio Scialdone, Yosuke Tanaka, Wajid Jawaid, Victoria Moignard, Nicola K Wilson, Iain C Macaulay, John C Marioni, Berthold Göttgens. Nature 2016
171
14

Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution.
Samuel G Rodriques, Robert R Stickels, Aleksandrina Goeva, Carly A Martin, Evan Murray, Charles R Vanderburg, Joshua Welch, Linlin M Chen, Fei Chen, Evan Z Macosko. Science 2019
511
14

Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH.
Chee-Huat Linus Eng, Michael Lawson, Qian Zhu, Ruben Dries, Noushin Koulena, Yodai Takei, Jina Yun, Christopher Cronin, Christoph Karp, Guo-Cheng Yuan,[...]. Nature 2019
425
14

Nodal signalling in the epiblast patterns the early mouse embryo.
J Brennan, C C Lu, D P Norris, T A Rodriguez, R S Beddington, E J Robertson. Nature 2001
371
14

In Toto Imaging and Reconstruction of Post-Implantation Mouse Development at the Single-Cell Level.
Katie McDole, Léo Guignard, Fernando Amat, Andrew Berger, Grégoire Malandain, Loïc A Royer, Srinivas C Turaga, Kristin Branson, Philipp J Keller. Cell 2018
179
13

Self-organization of a human organizer by combined Wnt and Nodal signalling.
I Martyn, T Y Kanno, A Ruzo, E D Siggia, A H Brivanlou. Nature 2018
109
13

Mapping the Mouse Cell Atlas by Microwell-Seq.
Xiaoping Han, Renying Wang, Yincong Zhou, Lijiang Fei, Huiyu Sun, Shujing Lai, Assieh Saadatpour, Ziming Zhou, Haide Chen, Fang Ye,[...]. Cell 2018
490
13

The dynamics of gene expression in vertebrate embryogenesis at single-cell resolution.
James A Briggs, Caleb Weinreb, Daniel E Wagner, Sean Megason, Leonid Peshkin, Marc W Kirschner, Allon M Klein. Science 2018
223
13

Developmental barcoding of whole mouse via homing CRISPR.
Reza Kalhor, Kian Kalhor, Leo Mejia, Kathleen Leeper, Amanda Graveline, Prashant Mali, George M Church. Science 2018
153
13

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
13

Self-organization of the human embryo in the absence of maternal tissues.
Marta N Shahbazi, Agnieszka Jedrusik, Sanna Vuoristo, Gaelle Recher, Anna Hupalowska, Virginia Bolton, Norah N M Fogarty, Alison Campbell, Liani Devito, Dusko Ilic,[...]. Nat Cell Biol 2016
312
11

The Dynamics of Morphogenesis in the Early Mouse Embryo.
Jaime A Rivera-Pérez, Anna-Katerina Hadjantonakis. Cold Spring Harb Perspect Biol 2014
53
13

Self-assembly of embryonic and two extra-embryonic stem cell types into gastrulating embryo-like structures.
Berna Sozen, Gianluca Amadei, Andy Cox, Ran Wang, Ellen Na, Sylwia Czukiewska, Lia Chappell, Thierry Voet, Geert Michel, Naihe Jing,[...]. Nat Cell Biol 2018
122
11

Derivation of pluripotent epiblast stem cells from mammalian embryos.
I Gabrielle M Brons, Lucy E Smithers, Matthew W B Trotter, Peter Rugg-Gunn, Bowen Sun, Susana M Chuva de Sousa Lopes, Sarah K Howlett, Amanda Clarkson, Lars Ahrlund-Richter, Roger A Pedersen,[...]. Nature 2007
11


Assembly of embryonic and extraembryonic stem cells to mimic embryogenesis in vitro.
Sarah Ellys Harrison, Berna Sozen, Neophytos Christodoulou, Christos Kyprianou, Magdalena Zernicka-Goetz. Science 2017
190
11

A method to recapitulate early embryonic spatial patterning in human embryonic stem cells.
Aryeh Warmflash, Benoit Sorre, Fred Etoc, Eric D Siggia, Ali H Brivanlou. Nat Methods 2014
397
11

Multi-axial self-organization properties of mouse embryonic stem cells into gastruloids.
Leonardo Beccari, Naomi Moris, Mehmet Girgin, David A Turner, Peter Baillie-Johnson, Anne-Catherine Cossy, Matthias P Lutolf, Denis Duboule, Alfonso Martinez Arias. Nature 2018
159
11

Micropattern differentiation of mouse pluripotent stem cells recapitulates embryo regionalized cell fate patterning.
Sophie M Morgani, Jakob J Metzger, Jennifer Nichols, Eric D Siggia, Anna-Katerina Hadjantonakis. Elife 2018
90
11

Reconstituting the transcriptome and DNA methylome landscapes of human implantation.
Fan Zhou, Rui Wang, Peng Yuan, Yixin Ren, Yunuo Mao, Rong Li, Ying Lian, Junsheng Li, Lu Wen, Liying Yan,[...]. Nature 2019
90
11

Whole-organism lineage tracing by combinatorial and cumulative genome editing.
Aaron McKenna, Gregory M Findlay, James A Gagnon, Marshall S Horwitz, Alexander F Schier, Jay Shendure. Science 2016
347
11

Spatial reconstruction of single-cell gene expression data.
Rahul Satija, Jeffrey A Farrell, David Gennert, Alexander F Schier, Aviv Regev. Nat Biotechnol 2015
11

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain.
Bushra Raj, Daniel E Wagner, Aaron McKenna, Shristi Pandey, Allon M Klein, Jay Shendure, James A Gagnon, Alexander F Schier. Nat Biotechnol 2018
256
11

RNA imaging. Spatially resolved, highly multiplexed RNA profiling in single cells.
Kok Hao Chen, Alistair N Boettiger, Jeffrey R Moffitt, Siyuan Wang, Xiaowei Zhuang. Science 2015
780
11

Single-Cell RNA-Seq Reveals Cellular Heterogeneity of Pluripotency Transition and X Chromosome Dynamics during Early Mouse Development.
Shangli Cheng, Yu Pei, Liqun He, Guangdun Peng, Björn Reinius, Patrick P L Tam, Naihe Jing, Qiaolin Deng. Cell Rep 2019
41
14

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
9

Self-organization of the in vitro attached human embryo.
Alessia Deglincerti, Gist F Croft, Lauren N Pietila, Magdalena Zernicka-Goetz, Eric D Siggia, Ali H Brivanlou. Nature 2016
329
9

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
9

Gene function in mouse embryogenesis: get set for gastrulation.
Patrick P L Tam, David A F Loebel. Nat Rev Genet 2007
382
9

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
9


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.