A citation-based method for searching scientific literature

Nicole A P Lieberman, Vikas Peddu, Hong Xie, Lasata Shrestha, Meei-Li Huang, Megan C Mears, Maria N Cajimat, Dennis A Bente, Pei-Yong Shi, Francesca Bovier, Pavitra Roychoudhury, Keith R Jerome, Anne Moscona, Matteo Porotto, Alexander L Greninger. PLoS Biol 2020
Times Cited: 121







List of co-cited articles
1439 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Imbalanced Host Response to SARS-CoV-2 Drives Development of COVID-19.
Daniel Blanco-Melo, Benjamin E Nilsson-Payant, Wen-Chun Liu, Skyler Uhl, Daisy Hoagland, Rasmus Møller, Tristan X Jordan, Kohei Oishi, Maryline Panis, David Sachs,[...]. Cell 2020
43

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor.
Markus Hoffmann, Hannah Kleine-Weber, Simon Schroeder, Nadine Krüger, Tanja Herrler, Sandra Erichsen, Tobias S Schiergens, Georg Herrler, Nai-Huei Wu, Andreas Nitsche,[...]. Cell 2020
35

Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China.
Chaolin Huang, Yeming Wang, Xingwang Li, Lili Ren, Jianping Zhao, Yi Hu, Li Zhang, Guohui Fan, Jiuyang Xu, Xiaoying Gu,[...]. Lancet 2020
32

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19.
Mingfeng Liao, Yang Liu, Jing Yuan, Yanling Wen, Gang Xu, Juanjuan Zhao, Lin Cheng, Jinxiu Li, Xin Wang, Fuxiang Wang,[...]. Nat Med 2020
26

A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.
David E Gordon, Gwendolyn M Jang, Mehdi Bouhaddou, Jiewei Xu, Kirsten Obernier, Kris M White, Matthew J O'Meara, Veronica V Rezelj, Jeffrey Z Guo, Danielle L Swaney,[...]. Nature 2020
23

A pneumonia outbreak associated with a new coronavirus of probable bat origin.
Peng Zhou, Xing-Lou Yang, Xian-Guang Wang, Ben Hu, Lei Zhang, Wei Zhang, Hao-Rui Si, Yan Zhu, Bei Li, Chao-Lin Huang,[...]. Nature 2020
22

Impaired type I interferon activity and inflammatory responses in severe COVID-19 patients.
Jérôme Hadjadj, Nader Yatim, Laura Barnabei, Aurélien Corneau, Jeremy Boussier, Nikaïa Smith, Hélène Péré, Bruno Charbit, Vincent Bondet, Camille Chenevier-Gobeaux,[...]. Science 2020
22

Autoantibodies against type I IFNs in patients with life-threatening COVID-19.
Paul Bastard, Lindsey B Rosen, Qian Zhang, Eleftherios Michailidis, Hans-Heinrich Hoffmann, Yu Zhang, Karim Dorgham, Quentin Philippot, Jérémie Rosain, Vivien Béziat,[...]. Science 2020
20

Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study.
Fei Zhou, Ting Yu, Ronghui Du, Guohui Fan, Ying Liu, Zhibo Liu, Jie Xiang, Yeming Wang, Bin Song, Xiaoying Gu,[...]. Lancet 2020
20

Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients.
Yong Xiong, Yuan Liu, Liu Cao, Dehe Wang, Ming Guo, Ao Jiang, Dong Guo, Wenjia Hu, Jiayi Yang, Zhidong Tang,[...]. Emerg Microbes Infect 2020
593
20

Proteomic and Metabolomic Characterization of COVID-19 Patient Sera.
Bo Shen, Xiao Yi, Yaoting Sun, Xiaojie Bi, Juping Du, Chao Zhang, Sheng Quan, Fangfei Zhang, Rui Sun, Liujia Qian,[...]. Cell 2020
516
19

A Novel Coronavirus from Patients with Pneumonia in China, 2019.
Na Zhu, Dingyu Zhang, Wenling Wang, Xingwang Li, Bo Yang, Jingdong Song, Xiang Zhao, Baoying Huang, Weifeng Shi, Roujian Lu,[...]. N Engl J Med 2020
18

The Global Phosphorylation Landscape of SARS-CoV-2 Infection.
Mehdi Bouhaddou, Danish Memon, Bjoern Meyer, Kris M White, Veronica V Rezelj, Miguel Correa Marrero, Benjamin J Polacco, James E Melnyk, Svenja Ulferts, Robyn M Kaake,[...]. Cell 2020
381
17

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues.
Carly G K Ziegler, Samuel J Allon, Sarah K Nyquist, Ian M Mbano, Vincent N Miao, Constantine N Tzouanas, Yuming Cao, Ashraf S Yousif, Julia Bals, Blake M Hauser,[...]. Cell 2020
17

Clinical Characteristics of Coronavirus Disease 2019 in China.
Wei-Jie Guan, Zheng-Yi Ni, Yu Hu, Wen-Hua Liang, Chun-Quan Ou, Jian-Xing He, Lei Liu, Hong Shan, Chun-Liang Lei, David S C Hui,[...]. N Engl J Med 2020
17

Inborn errors of type I IFN immunity in patients with life-threatening COVID-19.
Qian Zhang, Paul Bastard, Zhiyong Liu, Jérémie Le Pen, Marcela Moncada-Velez, Jie Chen, Masato Ogishi, Ira K D Sabli, Stephanie Hodeib, Cecilia Korol,[...]. Science 2020
947
17

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets.
Yingyao Zhou, Bin Zhou, Lars Pache, Max Chang, Alireza Hadj Khodabakhshi, Olga Tanaseichuk, Christopher Benner, Sumit K Chanda. Nat Commun 2019
17

Longitudinal analyses reveal immunological misfiring in severe COVID-19.
Carolina Lucas, Patrick Wong, Jon Klein, Tiago B R Castro, Julio Silva, Maria Sundaram, Mallory K Ellingson, Tianyang Mao, Ji Eun Oh, Benjamin Israelow,[...]. Nature 2020
810
15

Proteomics of SARS-CoV-2-infected host cells reveals therapy targets.
Denisa Bojkova, Kevin Klann, Benjamin Koch, Marek Widera, David Krause, Sandra Ciesek, Jindrich Cinatl, Christian Münch. Nature 2020
439
15

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
15

SARS-CoV-2 Reverse Genetics Reveals a Variable Infection Gradient in the Respiratory Tract.
Yixuan J Hou, Kenichi Okuda, Caitlin E Edwards, David R Martinez, Takanori Asakura, Kenneth H Dinnon, Takafumi Kato, Rhianna E Lee, Boyd L Yount, Teresa M Mascenik,[...]. Cell 2020
647
13

COVID-19 severity correlates with airway epithelium-immune cell interactions identified by single-cell analysis.
Robert Lorenz Chua, Soeren Lukassen, Saskia Trump, Bianca P Hennig, Daniel Wendisch, Fabian Pott, Olivia Debnath, Loreen Thürmann, Florian Kurth, Maria Theresa Völker,[...]. Nat Biotechnol 2020
421
13

A single-cell atlas of the peripheral immune response in patients with severe COVID-19.
Aaron J Wilk, Arjun Rustagi, Nancy Q Zhao, Jonasel Roque, Giovanny J Martínez-Colón, Julia L McKechnie, Geoffrey T Ivison, Thanmayi Ranganath, Rosemary Vergara, Taylor Hollis,[...]. Nat Med 2020
604
13

SARS-CoV-2 entry factors are highly expressed in nasal epithelial cells together with innate immune genes.
Waradon Sungnak, Ni Huang, Christophe Bécavin, Marijn Berg, Rachel Queen, Monika Litvinukova, Carlos Talavera-López, Henrike Maatz, Daniel Reichart, Fotios Sampaziotis,[...]. Nat Med 2020
13

Factors associated with COVID-19-related death using OpenSAFELY.
Elizabeth J Williamson, Alex J Walker, Krishnan Bhaskaran, Seb Bacon, Chris Bates, Caroline E Morton, Helen J Curtis, Amir Mehrkar, David Evans, Peter Inglesby,[...]. Nature 2020
12

STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets.
Damian Szklarczyk, Annika L Gable, David Lyon, Alexander Junge, Stefan Wyder, Jaime Huerta-Cepas, Milan Simonovic, Nadezhda T Doncheva, John H Morris, Peer Bork,[...]. Nucleic Acids Res 2019
12

Single-cell landscape of immunological responses in patients with COVID-19.
Ji-Yuan Zhang, Xiang-Ming Wang, Xudong Xing, Zhe Xu, Chao Zhang, Jin-Wen Song, Xing Fan, Peng Xia, Jun-Liang Fu, Si-Yu Wang,[...]. Nat Immunol 2020
212
12

Heightened Innate Immune Responses in the Respiratory Tract of COVID-19 Patients.
Zhuo Zhou, Lili Ren, Li Zhang, Jiaxin Zhong, Yan Xiao, Zhilong Jia, Li Guo, Jing Yang, Chun Wang, Shuai Jiang,[...]. Cell Host Microbe 2020
474
12

SARS-CoV-2 Viral Load in Upper Respiratory Specimens of Infected Patients.
Lirong Zou, Feng Ruan, Mingxing Huang, Lijun Liang, Huitao Huang, Zhongsi Hong, Jianxiang Yu, Min Kang, Yingchao Song, Jinyu Xia,[...]. N Engl J Med 2020
11

Immunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19.
Jeong Seok Lee, Seongwan Park, Hye Won Jeong, Jin Young Ahn, Seong Jin Choi, Hoyoung Lee, Baekgyu Choi, Su Kyung Nam, Moa Sa, Ji-Soo Kwon,[...]. Sci Immunol 2020
338
11

Sex differences in immune responses that underlie COVID-19 disease outcomes.
Takehiro Takahashi, Mallory K Ellingson, Patrick Wong, Benjamin Israelow, Carolina Lucas, Jon Klein, Julio Silva, Tianyang Mao, Ji Eun Oh, Maria Tokuyama,[...]. Nature 2020
493
11

SARS-CoV-2 productively infects human gut enterocytes.
Mart M Lamers, Joep Beumer, Jelte van der Vaart, Kèvin Knoops, Jens Puschhof, Tim I Breugem, Raimond B G Ravelli, J Paul van Schayck, Anna Z Mykytyn, Hans Q Duimel,[...]. Science 2020
794
11

Discovery of SARS-CoV-2 antiviral drugs through large-scale compound repurposing.
Laura Riva, Shuofeng Yuan, Xin Yin, Laura Martin-Sancho, Naoko Matsunaga, Lars Pache, Sebastian Burgstaller-Muehlbacher, Paul D De Jesus, Peter Teriete, Mitchell V Hull,[...]. Nature 2020
365
11

Temporal dynamics in viral shedding and transmissibility of COVID-19.
Xi He, Eric H Y Lau, Peng Wu, Xilong Deng, Jian Wang, Xinxin Hao, Yiu Chung Lau, Jessica Y Wong, Yujuan Guan, Xinghua Tan,[...]. Nat Med 2020
10

limma powers differential expression analyses for RNA-sequencing and microarray studies.
Matthew E Ritchie, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, Gordon K Smyth. Nucleic Acids Res 2015
10

clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
10

Type I and Type III Interferons Restrict SARS-CoV-2 Infection of Human Airway Epithelial Cultures.
Abigail Vanderheiden, Philipp Ralfs, Tatiana Chirkova, Amit A Upadhyay, Matthew G Zimmerman, Shamika Bedoya, Hadj Aoued, Gregory M Tharp, Kathryn L Pellegrini, Candela Manfredi,[...]. J Virol 2020
136
10

Comparative Transcriptome Analysis Reveals the Intensive Early Stage Responses of Host Cells to SARS-CoV-2 Infection.
Jiya Sun, Fei Ye, Aiping Wu, Ren Yang, Mei Pan, Jie Sheng, Wenjie Zhu, Longfei Mao, Ming Wang, Zanxian Xia,[...]. Front Microbiol 2020
38
26

Systems biological assessment of immunity to mild versus severe COVID-19 infection in humans.
Prabhu S Arunachalam, Florian Wimmers, Chris Ka Pun Mok, Ranawaka A P M Perera, Madeleine Scott, Thomas Hagan, Natalia Sigal, Yupeng Feng, Laurel Bristow, Owen Tak-Yin Tsang,[...]. Science 2020
438
10

Clinical course and outcomes of critically ill patients with SARS-CoV-2 pneumonia in Wuhan, China: a single-centered, retrospective, observational study.
Xiaobo Yang, Yuan Yu, Jiqian Xu, Huaqing Shu, Jia'an Xia, Hong Liu, Yongran Wu, Lu Zhang, Zhui Yu, Minghao Fang,[...]. Lancet Respir Med 2020
9

Pulmonary Vascular Endothelialitis, Thrombosis, and Angiogenesis in Covid-19.
Maximilian Ackermann, Stijn E Verleden, Mark Kuehnel, Axel Haverich, Tobias Welte, Florian Laenger, Arno Vanstapel, Christopher Werlein, Helge Stark, Alexandar Tzankov,[...]. N Engl J Med 2020
9

Clinical Characteristics of 138 Hospitalized Patients With 2019 Novel Coronavirus-Infected Pneumonia in Wuhan, China.
Dawei Wang, Bo Hu, Chang Hu, Fangfang Zhu, Xing Liu, Jing Zhang, Binbin Wang, Hui Xiang, Zhenshun Cheng, Yong Xiong,[...]. JAMA 2020
9

Clinical and immunological features of severe and moderate coronavirus disease 2019.
Guang Chen, Di Wu, Wei Guo, Yong Cao, Da Huang, Hongwu Wang, Tao Wang, Xiaoyun Zhang, Huilong Chen, Haijing Yu,[...]. J Clin Invest 2020
9

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Aravind Subramanian, Pablo Tamayo, Vamsi K Mootha, Sayan Mukherjee, Benjamin L Ebert, Michael A Gillette, Amanda Paulovich, Scott L Pomeroy, Todd R Golub, Eric S Lander,[...]. Proc Natl Acad Sci U S A 2005
9

Dysregulation in Akt/mTOR/HIF-1 signaling identified by proteo-transcriptomics of SARS-CoV-2 infected cells.
Sofia Appelberg, Soham Gupta, Sara Svensson Akusjärvi, Anoop T Ambikan, Flora Mikaeloff, Elisa Saccon, Ákos Végvári, Rui Benfeitas, Maike Sperk, Marie Ståhlberg,[...]. Emerg Microbes Infect 2020
98
9

Mapping Systemic Inflammation and Antibody Responses in Multisystem Inflammatory Syndrome in Children (MIS-C).
Conor N Gruber, Roosheel S Patel, Rebecca Trachtman, Lauren Lepow, Fatima Amanat, Florian Krammer, Karen M Wilson, Kenan Onel, Daniel Geanon, Kevin Tuballes,[...]. Cell 2020
225
9

A dynamic COVID-19 immune signature includes associations with poor prognosis.
Adam G Laing, Anna Lorenc, Irene Del Molino Del Barrio, Abhishek Das, Matthew Fish, Leticia Monin, Miguel Muñoz-Ruiz, Duncan R McKenzie, Thomas S Hayday, Isaac Francos-Quijorna,[...]. Nat Med 2020
406
9

Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
9

Type I Interferon Susceptibility Distinguishes SARS-CoV-2 from SARS-CoV.
Kumari G Lokugamage, Adam Hage, Maren de Vries, Ana M Valero-Jimenez, Craig Schindewolf, Meike Dittmann, Ricardo Rajsbaum, Vineet D Menachery. J Virol 2020
159
9

Epidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: a descriptive study.
Nanshan Chen, Min Zhou, Xuan Dong, Jieming Qu, Fengyun Gong, Yang Han, Yang Qiu, Jingli Wang, Ying Liu, Yuan Wei,[...]. Lancet 2020
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.