A citation-based method for searching scientific literature

Ke Jin, Le Ou-Yang, Xing-Ming Zhao, Hong Yan, Xiao-Fei Zhang. Bioinformatics 2020
Times Cited: 2







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



Times Cited
  Times     Co-cited
Similarity


AutoImpute: Autoencoder based imputation of single-cell RNA-seq data.
Divyanshu Talwar, Aanchal Mongia, Debarka Sengupta, Angshul Majumdar. Sci Rep 2018
39
100


DrImpute: imputing dropout events in single cell RNA sequencing data.
Wuming Gong, Il-Youp Kwak, Pruthvi Pota, Naoko Koyano-Nakagawa, Daniel J Garry. BMC Bioinformatics 2018
96
100

EnImpute: imputing dropout events in single-cell RNA-sequencing data via ensemble learning.
Xiao-Fei Zhang, Le Ou-Yang, Shuo Yang, Xing-Ming Zhao, Xiaohua Hu, Hong Yan. Bioinformatics 2019
9
100

DeepImpute: an accurate, fast, and scalable deep neural network method to impute single-cell RNA-seq data.
Cédric Arisdakessian, Olivier Poirion, Breck Yunits, Xun Zhu, Lana X Garmire. Genome Biol 2019
52
100

SAVER: gene expression recovery for single-cell RNA sequencing.
Mo Huang, Jingshu Wang, Eduardo Torre, Hannah Dueck, Sydney Shaffer, Roberto Bonasio, John I Murray, Arjun Raj, Mingyao Li, Nancy R Zhang. Nat Methods 2018
186
100


Single-cell RNA-seq denoising using a deep count autoencoder.
Gökcen Eraslan, Lukas M Simon, Maria Mircea, Nikola S Mueller, Fabian J Theis. Nat Commun 2019
189
100


netNMF-sc: leveraging gene-gene interactions for imputation and dimensionality reduction in single-cell expression analysis.
Rebecca Elyanow, Bianca Dumitrascu, Barbara E Engelhardt, Benjamin J Raphael. Genome Res 2020
12
100

Exploring single-cell data with deep multitasking neural networks.
Matthew Amodio, David van Dijk, Krishnan Srinivasan, William S Chen, Hussein Mohsen, Kevin R Moon, Allison Campbell, Yujiao Zhao, Xiaomei Wang, Manjunatha Venkataswamy,[...]. Nat Methods 2019
58
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

Recovering Gene Interactions from Single-Cell Data Using Data Diffusion.
David van Dijk, Roshan Sharma, Juozas Nainys, Kristina Yim, Pooja Kathail, Ambrose J Carr, Cassandra Burdziak, Kevin R Moon, Christine L Chaffer, Diwakar Pattabiraman,[...]. Cell 2018
380
100

Effective detection of variation in single-cell transcriptomes using MATQ-seq.
Kuanwei Sheng, Wenjian Cao, Yichi Niu, Qing Deng, Chenghang Zong. Nat Methods 2017
77
50

An Introduction to the Analysis of Single-Cell RNA-Sequencing Data.
Aisha A AlJanahi, Mark Danielsen, Cynthia E Dunbar. Mol Ther Methods Clin Dev 2018
47
50

Locality Sensitive Imputation for Single Cell RNA-Seq Data.
Marmar Moussa, Ion I Măndoiu. J Comput Biol 2019
6
50

Quantitative single-cell RNA-seq with unique molecular identifiers.
Saiful Islam, Amit Zeisel, Simon Joost, Gioele La Manno, Pawel Zajac, Maria Kasper, Peter Lönnerberg, Sten Linnarsson. Nat Methods 2014
608
50

Current best practices in single-cell RNA-seq analysis: a tutorial.
Malte D Luecken, Fabian J Theis. Mol Syst Biol 2019
346
50


Integration of single-cell RNA-seq data into population models to characterize cancer metabolism.
Chiara Damiani, Davide Maspero, Marzia Di Filippo, Riccardo Colombo, Dario Pescini, Alex Graudenzi, Hans Victor Westerhoff, Lilia Alberghina, Marco Vanoni, Giancarlo Mauri. PLoS Comput Biol 2019
24
50

Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance.
Sydney M Shaffer, Margaret C Dunagin, Stefan R Torborg, Eduardo A Torre, Benjamin Emert, Clemens Krepler, Marilda Beqiri, Katrin Sproesser, Patricia A Brafford, Min Xiao,[...]. Nature 2017
432
50

Eleven grand challenges in single-cell data science.
David Lähnemann, Johannes Köster, Ewa Szczurek, Davis J McCarthy, Stephanie C Hicks, Mark D Robinson, Catalina A Vallejos, Kieran R Campbell, Niko Beerenwinkel, Ahmed Mahfouz,[...]. Genome Biol 2020
171
50

Comprehensive single-cell transcriptional profiling of a multicellular organism.
Junyue Cao, Jonathan S Packer, Vijay Ramani, Darren A Cusanovich, Chau Huynh, Riza Daza, Xiaojie Qiu, Choli Lee, Scott N Furlan, Frank J Steemers,[...]. Science 2017
465
50

bayNorm: Bayesian gene expression recovery, imputation and normalization for single-cell RNA-sequencing data.
Wenhao Tang, François Bertaux, Philipp Thomas, Claire Stefanelli, Malika Saint, Samuel Marguerat, Vahid Shahrezaei. Bioinformatics 2020
16
50

scRMD: imputation for single cell RNA-seq data via robust matrix decomposition.
Chong Chen, Changjing Wu, Linjie Wu, Xiaochen Wang, Minghua Deng, Ruibin Xi. Bioinformatics 2020
11
50

Genomic analysis at the single-cell level.
Tomer Kalisky, Paul Blainey, Stephen R Quake. Annu Rev Genet 2011
123
50

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
393
50

Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes.
Åsa Segerstolpe, Athanasia Palasantza, Pernilla Eliasson, Eva-Marie Andersson, Anne-Christine Andréasson, Xiaoyan Sun, Simone Picelli, Alan Sabirsh, Maryam Clausen, Magnus K Bjursell,[...]. Cell Metab 2016
564
50

Semisupervised Generative Autoencoder for Single-Cell Data.
Trung Ngo Trong, Juha Mehtonen, Gerardo González, Roger Kramer, Ville Hautamäki, Merja Heinäniemi. J Comput Biol 2020
6
50

A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications.
Ashraful Haque, Jessica Engel, Sarah A Teichmann, Tapio Lönnberg. Genome Med 2017
227
50

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types.
Diego Adhemar Jaitin, Ephraim Kenigsberg, Hadas Keren-Shaul, Naama Elefant, Franziska Paul, Irina Zaretsky, Alexander Mildner, Nadav Cohen, Steffen Jung, Amos Tanay,[...]. Science 2014
889
50

A benchmark of batch-effect correction methods for single-cell RNA sequencing data.
Hoa Thi Nhu Tran, Kok Siong Ang, Marion Chevrier, Xiaomeng Zhang, Nicole Yee Shin Lee, Michelle Goh, Jinmiao Chen. Genome Biol 2020
149
50

From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing.
Georgi K Marinov, Brian A Williams, Ken McCue, Gary P Schroth, Jason Gertz, Richard M Myers, Barbara J Wold. Genome Res 2014
290
50

SCRABBLE: single-cell RNA-seq imputation constrained by bulk RNA-seq data.
Tao Peng, Qin Zhu, Penghang Yin, Kai Tan. Genome Biol 2019
27
50

A systematic evaluation of single cell RNA-seq analysis pipelines.
Beate Vieth, Swati Parekh, Christoph Ziegenhain, Wolfgang Enard, Ines Hellmann. Nat Commun 2019
89
50

RESCUE: imputing dropout events in single-cell RNA-sequencing data.
Sam Tracy, Guo-Cheng Yuan, Ruben Dries. BMC Bioinformatics 2019
11
50

A Random Matrix Theory Approach to Denoise Single-Cell Data.
Luis Aparicio, Mykola Bordyuh, Andrew J Blumberg, Raul Rabadan. Patterns (N Y) 2020
7
50


scHinter: imputing dropout events for single-cell RNA-seq data with limited sample size.
Pengchao Ye, Wenbin Ye, Congting Ye, Shuchao Li, Lishan Ye, Guoli Ji, Xiaohui Wu. Bioinformatics 2020
2
50

McImpute: Matrix Completion Based Imputation for Single Cell RNA-seq Data.
Aanchal Mongia, Debarka Sengupta, Angshul Majumdar. Front Genet 2019
17
50


Single-cell RNA-seq analysis identifies markers of resistance to targeted BRAF inhibitors in melanoma cell populations.
Yu-Jui Ho, Naishitha Anaparthy, David Molik, Grinu Mathew, Toby Aicher, Ami Patel, James Hicks, Molly Gale Hammell. Genome Res 2018
30
50


CEL-Seq: single-cell RNA-Seq by multiplexed linear amplification.
Tamar Hashimshony, Florian Wagner, Noa Sher, Itai Yanai. Cell Rep 2012
624
50

scNPF: an integrative framework assisted by network propagation and network fusion for preprocessing of single-cell RNA-seq data.
Wenbin Ye, Guoli Ji, Pengchao Ye, Yuqi Long, Xuesong Xiao, Shuchao Li, Yaru Su, Xiaohui Wu. BMC Genomics 2019
3
50

From Louvain to Leiden: guaranteeing well-connected communities.
V A Traag, L Waltman, N J van Eck. Sci Rep 2019
300
50

Tumour heterogeneity and metastasis at single-cell resolution.
Devon A Lawson, Kai Kessenbrock, Ryan T Davis, Nicholas Pervolarakis, Zena Werb. Nat Cell Biol 2018
168
50

SCANPY: large-scale single-cell gene expression data analysis.
F Alexander Wolf, Philipp Angerer, Fabian J Theis. Genome Biol 2018
812
50

Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat Biotechnol 2018
50

deepMc: Deep Matrix Completion for Imputation of Single-Cell RNA-seq Data.
Aanchal Mongia, Debarka Sengupta, Angshul Majumdar. J Comput Biol 2020
6
50


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.