A citation-based method for searching scientific literature

Edwin Vans, Ashwini Patil, Alok Sharma. Brief Bioinform 2021
Times Cited: 1







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



Times Cited
  Times     Co-cited
Similarity


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
100

SINCERA: A Pipeline for Single-Cell RNA-Seq Profiling Analysis.
Minzhe Guo, Hui Wang, S Steven Potter, Jeffrey A Whitsett, Yan Xu. PLoS Comput Biol 2015
142
100

Spatial transcriptomic survey of human embryonic cerebral cortex by single-cell RNA-seq analysis.
Xiaoying Fan, Ji Dong, Suijuan Zhong, Yuan Wei, Qian Wu, Liying Yan, Jun Yong, Le Sun, Xiaoye Wang, Yangyu Zhao,[...]. Cell Res 2018
68
100

SCANPY: large-scale single-cell gene expression data analysis.
F Alexander Wolf, Philipp Angerer, Fabian J Theis. Genome Biol 2018
623
100

SAIC: an iterative clustering approach for analysis of single cell RNA-seq data.
Lu Yang, Jiancheng Liu, Qiang Lu, Arthur D Riggs, Xiwei Wu. BMC Genomics 2017
11
100


scmap: projection of single-cell RNA-seq data across data sets.
Vladimir Yu Kiselev, Andrew Yiu, Martin Hemberg. Nat Methods 2018
165
100

The technology and biology of single-cell RNA sequencing.
Aleksandra A Kolodziejczyk, Jong Kyoung Kim, Valentine Svensson, John C Marioni, Sarah A Teichmann. Mol Cell 2015
439
100


PanoView: An iterative clustering method for single-cell RNA sequencing data.
Ming-Wen Hu, Dong Won Kim, Sheng Liu, Donald J Zack, Seth Blackshaw, Jiang Qian. PLoS Comput Biol 2019
3
100

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
100

Impact of similarity metrics on single-cell RNA-seq data clustering.
Taiyun Kim, Irene Rui Chen, Yingxin Lin, Andy Yi-Yang Wang, Jean Yee Hwa Yang, Pengyi Yang. Brief Bioinform 2019
28
100

Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq.
Diego Adhemar Jaitin, Assaf Weiner, Ido Yofe, David Lara-Astiaso, Hadas Keren-Shaul, Eyal David, Tomer Meir Salame, Amos Tanay, Alexander van Oudenaarden, Ido Amit. Cell 2016
287
100

SC3: consensus clustering of single-cell RNA-seq data.
Vladimir Yu Kiselev, Kristina Kirschner, Michael T Schaub, Tallulah Andrews, Andrew Yiu, Tamir Chandra, Kedar N Natarajan, Wolf Reik, Mauricio Barahona, Anthony R Green,[...]. Nat Methods 2017
441
100

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
396
100

Feature selection and dimension reduction for single-cell RNA-Seq based on a multinomial model.
F William Townes, Stephanie C Hicks, Martin J Aryee, Rafael A Irizarry. Genome Biol 2019
55
100

Gene expression distribution deconvolution in single-cell RNA sequencing.
Jingshu Wang, Mo Huang, Eduardo Torre, Hannah Dueck, Sydney Shaffer, John Murray, Arjun Raj, Mingyao Li, Nancy R Zhang. Proc Natl Acad Sci U S A 2018
29
100

Visualization and analysis of single-cell RNA-seq data by kernel-based similarity learning.
Bo Wang, Junjie Zhu, Emma Pierson, Daniele Ramazzotti, Serafim Batzoglou. Nat Methods 2017
189
100

Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq.
Michael B Cole, Davide Risso, Allon Wagner, David DeTomaso, John Ngai, Elizabeth Purdom, Sandrine Dudoit, Nir Yosef. Cell Syst 2019
39
100

SciBet as a portable and fast single cell type identifier.
Chenwei Li, Baolin Liu, Boxi Kang, Zedao Liu, Yedan Liu, Changya Chen, Xianwen Ren, Zemin Zhang. Nat Commun 2020
11
100

Pooling across cells to normalize single-cell RNA sequencing data with many zero counts.
Aaron T L Lun, Karsten Bach, John C Marioni. Genome Biol 2016
359
100

Spatial reconstruction of single-cell gene expression data.
Rahul Satija, Jeffrey A Farrell, David Gennert, Alexander F Schier, Aviv Regev. Nat Biotechnol 2015
100


Semisoft clustering of single-cell data.
Lingxue Zhu, Jing Lei, Lambertus Klei, Bernie Devlin, Kathryn Roeder. Proc Natl Acad Sci U S A 2019
19
100


Smart-seq2 for sensitive full-length transcriptome profiling in single cells.
Simone Picelli, Åsa K Björklund, Omid R Faridani, Sven Sagasser, Gösta Winberg, Rickard Sandberg. Nat Methods 2013
961
100

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
100

NCBI GEO: archive for functional genomics data sets--update.
Tanya Barrett, Stephen E Wilhite, Pierre Ledoux, Carlos Evangelista, Irene F Kim, Maxim Tomashevsky, Kimberly A Marshall, Katherine H Phillippy, Patti M Sherman, Michelle Holko,[...]. Nucleic Acids Res 2013
100

Benchmark and Parameter Sensitivity Analysis of Single-Cell RNA Sequencing Clustering Methods.
Monika Krzak, Yordan Raykov, Alexis Boukouvalas, Luisa Cutillo, Claudia Angelini. Front Genet 2019
6
100

scruff: an R/Bioconductor package for preprocessing single-cell RNA-sequencing data.
Zhe Wang, Junming Hu, W Evan Johnson, Joshua D Campbell. BMC Bioinformatics 2019
5
100


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
100

CHETAH: a selective, hierarchical cell type identification method for single-cell RNA sequencing.
Jurrian K de Kanter, Philip Lijnzaad, Tito Candelli, Thanasis Margaritis, Frank C P Holstege. Nucleic Acids Res 2019
38
100

Discovery of rare cells from voluminous single cell expression data.
Aashi Jindal, Prashant Gupta, Jayadeva, Debarka Sengupta. Nat Commun 2018
24
100

Single-cell RNA-seq highlights intra-tumoral heterogeneity and malignant progression in pancreatic ductal adenocarcinoma.
Junya Peng, Bao-Fa Sun, Chuan-Yuan Chen, Jia-Yi Zhou, Yu-Sheng Chen, Hao Chen, Lulu Liu, Dan Huang, Jialin Jiang, Guan-Shen Cui,[...]. Cell Res 2019
135
100

Deep generative modeling for single-cell transcriptomics.
Romain Lopez, Jeffrey Regier, Michael B Cole, Michael I Jordan, Nir Yosef. Nat Methods 2018
200
100

SCnorm: robust normalization of single-cell RNA-seq data.
Rhonda Bacher, Li-Fang Chu, Ning Leng, Audrey P Gasch, James A Thomson, Ron M Stewart, Michael Newton, Christina Kendziorski. Nat Methods 2017
123
100


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.