A citation-based method for searching scientific literature

Rahul Shaw, Xin Tian, Jian Xu. Mol Plant 2021
Times Cited: 24







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



Times Cited
  Times     Co-cited
Similarity


Spatiotemporal Developmental Trajectories in the Arabidopsis Root Revealed Using High-Throughput Single-Cell RNA Sequencing.
Tom Denyer, Xiaoli Ma, Simon Klesen, Emanuele Scacchi, Kay Nieselt, Marja C P Timmermans. Dev Cell 2019
119
50

A Single-Cell RNA Sequencing Profiles the Developmental Landscape of Arabidopsis Root.
Tian-Qi Zhang, Zhou-Geng Xu, Guan-Dong Shang, Jia-Wei Wang. Mol Plant 2019
101
50

High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types.
Christine N Shulse, Benjamin J Cole, Doina Ciobanu, Junyan Lin, Yuko Yoshinaga, Mona Gouran, Gina M Turco, Yiwen Zhu, Ronan C O'Malley, Siobhan M Brady,[...]. Cell Rep 2019
108
45

Single-Cell Transcriptomics: A High-Resolution Avenue for Plant Functional Genomics.
Charlotte Rich-Griffin, Annika Stechemesser, Jessica Finch, Emma Lucas, Sascha Ott, Patrick Schäfer. Trends Plant Sci 2020
47
41

Dynamics of Gene Expression in Single Root Cells of Arabidopsis thaliana.
Ken Jean-Baptiste, José L McFaline-Figueroa, Cristina M Alexandre, Michael W Dorrity, Lauren Saunders, Kerry L Bubb, Cole Trapnell, Stanley Fields, Christine Queitsch, Josh T Cuperus. Plant Cell 2019
85
41

Single-Cell RNA Sequencing Resolves Molecular Relationships Among Individual Plant Cells.
Kook Hui Ryu, Ling Huang, Hyun Min Kang, John Schiefelbein. Plant Physiol 2019
124
41

Transcriptional landscape of rice roots at the single-cell resolution.
Qing Liu, Zhe Liang, Dan Feng, Sanjie Jiang, Yifan Wang, Zhuoying Du, Ruoxi Li, Guihua Hu, Pingxian Zhang, Yanfei Ma,[...]. Mol Plant 2021
25
41

Global Dynamic Molecular Profiling of Stomatal Lineage Cell Development by Single-Cell RNA Sequencing.
Zhixin Liu, Yaping Zhou, Jinggong Guo, Jiaoai Li, Zixia Tian, Zhinan Zhu, Jiajing Wang, Rui Wu, Bo Zhang, Yongjian Hu,[...]. Mol Plant 2020
29
37

A gene expression map of the Arabidopsis root.
Kenneth Birnbaum, Dennis E Shasha, Jean Y Wang, Jee W Jung, Georgina M Lambert, David W Galbraith, Philip N Benfey. Science 2003
843
37


Plant stem-cell organization and differentiation at single-cell resolution.
James W Satterlee, Josh Strable, Michael J Scanlon. Proc Natl Acad Sci U S A 2020
32
37

Vascular transcription factors guide plant epidermal responses to limiting phosphate conditions.
Jos R Wendrich, BaoJun Yang, Niels Vandamme, Kevin Verstaen, Wouter Smet, Celien Van de Velde, Max Minne, Brecht Wybouw, Eliana Mor, Helena E Arents,[...]. Science 2020
48
33

Advances and Opportunities in Single-Cell Transcriptomics for Plant Research.
Carolin Seyfferth, Jim Renema, Jos R Wendrich, Thomas Eekhout, Ruth Seurinck, Niels Vandamme, Bernhard Blob, Yvan Saeys, Yrjo Helariutta, Kenneth D Birnbaum,[...]. Annu Rev Plant Biol 2021
15
46

Dynamics of Gene Expression in Single Root Cells of Arabidopsis thaliana.
Ken Jean-Baptiste, José L McFaline-Figueroa, Cristina M Alexandre, Michael W Dorrity, Lauren Saunders, Kerry L Bubb, Cole Trapnell, Stanley Fields, Christine Queitsch, Josh T Cuperus. Plant Cell 2019
36
29


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
29

Molecular Mechanisms Driving Switch Behavior in Xylem Cell Differentiation.
Gina M Turco, Joel Rodriguez-Medina, Stefan Siebert, Diane Han, Miguel Á Valderrama-Gómez, Hannah Vahldick, Christine N Shulse, Benjamin J Cole, Celina E Juliano, Diane E Dickel,[...]. Cell Rep 2019
26
25

A high-resolution root spatiotemporal map reveals dominant expression patterns.
Siobhan M Brady, David A Orlando, Ji-Young Lee, Jean Y Wang, Jeremy Koch, José R Dinneny, Daniel Mace, Uwe Ohler, Philip N Benfey. Science 2007
754
25

The regulatory landscape of Arabidopsis thaliana roots at single-cell resolution.
Michael W Dorrity, Cristina M Alexandre, Morgan O Hamm, Anna-Lena Vigil, Stanley Fields, Christine Queitsch, Josh T Cuperus. Nat Commun 2021
14
42

Single-cell resolution of lineage trajectories in the Arabidopsis stomatal lineage and developing leaf.
Camila B Lopez-Anido, Anne Vatén, Nicole K Smoot, Nidhi Sharma, Victoria Guo, Yan Gong, M Ximena Anleu Gil, Annika K Weimer, Dominique C Bergmann. Dev Cell 2021
14
42

A cis-regulatory atlas in maize at single-cell resolution.
Alexandre P Marand, Zongliang Chen, Andrea Gallavotti, Robert J Schmitz. Cell 2021
25
20

A single-cell view of the transcriptome during lateral root initiation in Arabidopsis thaliana.
Hardik P Gala, Amy Lanctot, Ken Jean-Baptiste, Sarah Guiziou, Jonah C Chu, Joseph E Zemke, Wesley George, Christine Queitsch, Josh T Cuperus, Jennifer L Nemhauser. Plant Cell 2021
15
33

Distinct identities of leaf phloem cells revealed by single cell transcriptomics.
Ji-Yun Kim, Efthymia Symeonidi, Tin Yau Pang, Tom Denyer, Diana Weidauer, Margaret Bezrutczyk, Manuel Miras, Nora Zöllner, Thomas Hartwig, Michael M Wudick,[...]. Plant Cell 2021
13
38

Single-cell RNA sequencing of developing maize ears facilitates functional analysis and trait candidate gene discovery.
Xiaosa Xu, Megan Crow, Brian R Rice, Forrest Li, Benjamin Harris, Lei Liu, Edgar Demesa-Arevalo, Zefu Lu, Liya Wang, Nathan Fox,[...]. Dev Cell 2021
24
20

FlsnRNA-seq: protoplasting-free full-length single-nucleus RNA profiling in plants.
Yanping Long, Zhijian Liu, Jinbu Jia, Weipeng Mo, Liang Fang, Dongdong Lu, Bo Liu, Hong Zhang, Wei Chen, Jixian Zhai. Genome Biol 2021
12
41

A single-cell analysis of the Arabidopsis vegetative shoot apex.
Tian-Qi Zhang, Yu Chen, Jia-Wei Wang. Dev Cell 2021
17
29

Towards Building a Plant Cell Atlas.
Seung Y Rhee, Kenneth D Birnbaum, David W Ehrhardt. Trends Plant Sci 2019
31
16

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors.
Christopher S McGinnis, Lyndsay M Murrow, Zev J Gartner. Cell Syst 2019
239
16

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
625
16

Spatially resolved transcriptome profiling in model plant species.
Stefania Giacomello, Fredrik Salmén, Barbara K Terebieniec, Sanja Vickovic, José Fernandez Navarro, Andrey Alexeyenko, Johan Reimegård, Lauren S McKee, Chanaka Mannapperuma, Vincent Bulone,[...]. Nat Plants 2017
46
16

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
792
16

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
16

Root Regeneration Triggers an Embryo-like Sequence Guided by Hormonal Interactions.
Idan Efroni, Alison Mello, Tal Nawy, Pui-Leng Ip, Ramin Rahni, Nicholas DelRose, Ashley Powers, Rahul Satija, Kenneth D Birnbaum. Cell 2016
111
16

Quantification of cell identity from single-cell gene expression profiles.
Idan Efroni, Pui-Leng Ip, Tal Nawy, Alison Mello, Kenneth D Birnbaum. Genome Biol 2015
75
16

The promise of single-cell genomics in plants.
José L McFaline-Figueroa, Cole Trapnell, Josh T Cuperus. Curr Opin Plant Biol 2020
12
33

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
440
16

High-Resolution Expression Map of the Arabidopsis Root Reveals Alternative Splicing and lincRNA Regulation.
Song Li, Masashi Yamada, Xinwei Han, Uwe Ohler, Philip N Benfey. Dev Cell 2016
116
12

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
918
12


Cell identity mediates the response of Arabidopsis roots to abiotic stress.
José R Dinneny, Terri A Long, Jean Y Wang, Jee W Jung, Daniel Mace, Solomon Pointer, Christa Barron, Siobhan M Brady, John Schiefelbein, Philip N Benfey. Science 2008
434
12

A comparison of single-cell trajectory inference methods.
Wouter Saelens, Robrecht Cannoodt, Helena Todorov, Yvan Saeys. Nat Biotechnol 2019
319
12

Integrative Methods and Practical Challenges for Single-Cell Multi-omics.
Anjun Ma, Adam McDermaid, Jennifer Xu, Yuzhou Chang, Qin Ma. Trends Biotechnol 2020
42
12

Evidence for phloem loading via the abaxial bundle sheath cells in maize leaves.
Margaret Bezrutczyk, Nora R Zöllner, Colin P S Kruse, Thomas Hartwig, Tobias Lautwein, Karl Köhrer, Wolf B Frommer, Ji-Yun Kim. Plant Cell 2021
12
25



Isolation of Plant Root Nuclei for Single Cell RNA Sequencing.
Sandra Thibivilliers, Dirk Anderson, Marc Libault. Curr Protoc Plant Biol 2020
10
30

Single-cell transcriptome analysis of Physcomitrella leaf cells during reprogramming using microcapillary manipulation.
Minoru Kubo, Tomoaki Nishiyama, Yosuke Tamada, Ryosuke Sano, Masaki Ishikawa, Takashi Murata, Akihiro Imai, Daniel Lang, Taku Demura, Ralf Reski,[...]. Nucleic Acids Res 2019
13
23

Systematic comparison of single-cell and single-nucleus RNA-sequencing methods.
Jiarui Ding, Xian Adiconis, Sean K Simmons, Monika S Kowalczyk, Cynthia C Hession, Nemanja D Marjanovic, Travis K Hughes, Marc H Wadsworth, Tyler Burks, Lan T Nguyen,[...]. Nat Biotechnol 2020
145
12

Characterization of cell fate probabilities in single-cell data with Palantir.
Manu Setty, Vaidotas Kiseliovas, Jacob Levine, Adam Gayoso, Linas Mazutis, Dana Pe'er. Nat Biotechnol 2019
80
8

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
732
8


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.