A citation-based method for searching scientific literature

Jian Ye, Ning Ma, Thomas L Madden, James M Ostell. Nucleic Acids Res 2013
Times Cited: 603







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



Times Cited
  Times     Co-cited
Similarity


Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data.
Namita T Gupta, Jason A Vander Heiden, Mohamed Uduman, Daniel Gadala-Maria, Gur Yaari, Steven H Kleinstein. Bioinformatics 2015
327
22

MiXCR: software for comprehensive adaptive immunity profiling.
Dmitriy A Bolotin, Stanislav Poslavsky, Igor Mitrophanov, Mikhail Shugay, Ilgar Z Mamedov, Ekaterina V Putintseva, Dmitriy M Chudakov. Nat Methods 2015
728
19

pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires.
Jason A Vander Heiden, Gur Yaari, Mohamed Uduman, Joel N H Stern, Kevin C O'Connor, David A Hafler, Francois Vigneault, Steven H Kleinstein. Bioinformatics 2014
224
19

Convergent antibody responses to SARS-CoV-2 in convalescent individuals.
Davide F Robbiani, Christian Gaebler, Frauke Muecksch, Julio C C Lorenzi, Zijun Wang, Alice Cho, Marianna Agudelo, Christopher O Barnes, Anna Gazumyan, Shlomo Finkin,[...]. Nature 2020
15

Human neutralizing antibodies elicited by SARS-CoV-2 infection.
Bin Ju, Qi Zhang, Jiwan Ge, Ruoke Wang, Jing Sun, Xiangyang Ge, Jiazhen Yu, Sisi Shan, Bing Zhou, Shuo Song,[...]. Nature 2020
13

Commonality despite exceptional diversity in the baseline human antibody repertoire.
Bryan Briney, Anne Inderbitzin, Collin Joyce, Dennis R Burton. Nature 2019
216
12

Studies in humanized mice and convalescent humans yield a SARS-CoV-2 antibody cocktail.
Johanna Hansen, Alina Baum, Kristen E Pascal, Vincenzo Russo, Stephanie Giordano, Elzbieta Wloga, Benjamin O Fulton, Ying Yan, Katrina Koon, Krunal Patel,[...]. Science 2020
743
11

Cross-neutralization of SARS-CoV-2 by a human monoclonal SARS-CoV antibody.
Dora Pinto, Young-Jun Park, Martina Beltramello, Alexandra C Walls, M Alejandra Tortorici, Siro Bianchi, Stefano Jaconi, Katja Culap, Fabrizia Zatta, Anna De Marco,[...]. Nature 2020
11

Structural basis of a shared antibody response to SARS-CoV-2.
Meng Yuan, Hejun Liu, Nicholas C Wu, Chang-Chun D Lee, Xueyong Zhu, Fangzhu Zhao, Deli Huang, Wenli Yu, Yuanzi Hua, Henry Tien,[...]. Science 2020
346
10

Potent neutralizing antibodies against multiple epitopes on SARS-CoV-2 spike.
Lihong Liu, Pengfei Wang, Manoj S Nair, Jian Yu, Micah Rapp, Qian Wang, Yang Luo, Jasper F-W Chan, Vincent Sahi, Amir Figueroa,[...]. Nature 2020
866
10

IMGT/V-QUEST: the highly customized and integrated system for IG and TR standardized V-J and V-D-J sequence analysis.
Xavier Brochet, Marie-Paule Lefranc, Véronique Giudicelli. Nucleic Acids Res 2008
824
10

Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation.
Daniel Wrapp, Nianshuang Wang, Kizzmekia S Corbett, Jory A Goldsmith, Ching-Lin Hsieh, Olubukola Abiona, Barney S Graham, Jason S McLellan. Science 2020
9

Broad betacoronavirus neutralization by a stem helix-specific human antibody.
Dora Pinto, Maximilian M Sauer, Nadine Czudnochowski, Jun Siong Low, M Alejandra Tortorici, Michael P Housley, Julia Noack, Alexandra C Walls, John E Bowen, Barbara Guarino,[...]. Science 2021
112
9

Potent Neutralizing Antibodies against SARS-CoV-2 Identified by High-Throughput Single-Cell Sequencing of Convalescent Patients' B Cells.
Yunlong Cao, Bin Su, Xianghua Guo, Wenjie Sun, Yongqiang Deng, Linlin Bao, Qinyu Zhu, Xu Zhang, Yinghui Zheng, Chenyang Geng,[...]. Cell 2020
758
9

CoV-AbDab: the coronavirus antibody database.
Matthew I J Raybould, Aleksandr Kovaltsuk, Claire Marks, Charlotte M Deane. Bioinformatics 2021
114
9


IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes.
Véronique Giudicelli, Denys Chaume, Marie-Paule Lefranc. Nucleic Acids Res 2005
322
9

Germinal centers.
Gabriel D Victora, Michel C Nussenzweig. Annu Rev Immunol 2012
9

High frequency of shared clonotypes in human B cell receptor repertoires.
Cinque Soto, Robin G Bombardi, Andre Branchizio, Nurgun Kose, Pranathi Matta, Alexander M Sevy, Robert S Sinkovits, Pavlo Gilchuk, Jessica A Finn, James E Crowe. Nature 2019
152
9

Design and standardization of PCR primers and protocols for detection of clonal immunoglobulin and T-cell receptor gene recombinations in suspect lymphoproliferations: report of the BIOMED-2 Concerted Action BMH4-CT98-3936.
J J M van Dongen, A W Langerak, M Brüggemann, P A S Evans, M Hummel, F L Lavender, E Delabesse, F Davi, E Schuuring, R García-Sanz,[...]. Leukemia 2003
9

Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein.
Alexandra C Walls, Young-Jun Park, M Alejandra Tortorici, Abigail Wall, Andrew T McGuire, David Veesler. Cell 2020
8

Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data.
Florian Rubelt, Christian E Busse, Syed Ahmad Chan Bukhari, Jean-Philippe Bürckert, Encarnita Mariotti-Ferrandiz, Lindsay G Cowell, Corey T Watson, Nishanth Marthandan, William J Faison, Uri Hershberg,[...]. Nat Immunol 2017
86
9

Observed Antibody Space: A Resource for Data Mining Next-Generation Sequencing of Antibody Repertoires.
Aleksandr Kovaltsuk, Jinwoo Leem, Sebastian Kelm, James Snowden, Charlotte M Deane, Konrad Krawczyk. J Immunol 2018
63
12

An atlas of B-cell clonal distribution in the human body.
Wenzhao Meng, Bochao Zhang, Gregory W Schwartz, Aaron M Rosenfeld, Daqiu Ren, Joseph J C Thome, Dustin J Carpenter, Nobuhide Matsuoka, Harvey Lerner, Amy L Friedman,[...]. Nat Biotechnol 2017
88
9

Human B Cell Clonal Expansion and Convergent Antibody Responses to SARS-CoV-2.
Sandra C A Nielsen, Fan Yang, Katherine J L Jackson, Ramona A Hoh, Katharina Röltgen, Grace H Jean, Bryan A Stevens, Ji-Yeun Lee, Arjun Rustagi, Angela J Rogers,[...]. Cell Host Microbe 2020
137
8

Efficient generation of monoclonal antibodies from single human B cells by single cell RT-PCR and expression vector cloning.
Thomas Tiller, Eric Meffre, Sergey Yurasov, Makoto Tsuiji, Michel C Nussenzweig, Hedda Wardemann. J Immunol Methods 2008
689
8

High-throughput immune repertoire analysis with IGoR.
Quentin Marcou, Thierry Mora, Aleksandra M Walczak. Nat Commun 2018
102
8

Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases.
Pierre Barennes, Valentin Quiniou, Mikhail Shugay, Evgeniy S Egorov, Alexey N Davydov, Dmitriy M Chudakov, Imran Uddin, Mazlina Ismail, Theres Oakes, Benny Chain,[...]. Nat Biotechnol 2021
42
19

Potent neutralizing antibodies from COVID-19 patients define multiple targets of vulnerability.
Philip J M Brouwer, Tom G Caniels, Karlijn van der Straten, Jonne L Snitselaar, Yoann Aldon, Sandhya Bangaru, Jonathan L Torres, Nisreen M A Okba, Mathieu Claireaux, Gius Kerster,[...]. Science 2020
722
7

Isolation of potent SARS-CoV-2 neutralizing antibodies and protection from disease in a small animal model.
Thomas F Rogers, Fangzhu Zhao, Deli Huang, Nathan Beutler, Alison Burns, Wan-Ting He, Oliver Limbo, Chloe Smith, Ge Song, Jordan Woehl,[...]. Science 2020
893
7

Potently neutralizing and protective human antibodies against SARS-CoV-2.
Seth J Zost, Pavlo Gilchuk, James Brett Case, Elad Binshtein, Rita E Chen, Joseph P Nkolola, Alexandra Schäfer, Joseph X Reidy, Andrew Trivette, Rachel S Nargi,[...]. Nature 2020
629
7

Cross-reactive serum and memory B-cell responses to spike protein in SARS-CoV-2 and endemic coronavirus infection.
Ge Song, Wan-Ting He, Sean Callaghan, Fabio Anzanello, Deli Huang, James Ricketts, Jonathan L Torres, Nathan Beutler, Linghang Peng, Sirena Vargas,[...]. Nat Commun 2021
138
7

IMGT®, the international ImMunoGeneTics information system® 25 years on.
Marie-Paule Lefranc, Véronique Giudicelli, Patrice Duroux, Joumana Jabado-Michaloud, Géraldine Folch, Safa Aouinti, Emilie Carillon, Hugo Duvergey, Amélie Houles, Typhaine Paysan-Lafosse,[...]. Nucleic Acids Res 2015
313
7

Sequencing and cloning of antigen-specific antibodies from mouse memory B cells.
Lotta von Boehmer, Cassie Liu, Sarah Ackerman, Alexander D Gitlin, Qiao Wang, Anna Gazumyan, Michel C Nussenzweig. Nat Protoc 2016
93
7

Rapid isolation and profiling of a diverse panel of human monoclonal antibodies targeting the SARS-CoV-2 spike protein.
Seth J Zost, Pavlo Gilchuk, Rita E Chen, James Brett Case, Joseph X Reidy, Andrew Trivette, Rachel S Nargi, Rachel E Sutton, Naveenchandra Suryadevara, Elaine C Chen,[...]. Nat Med 2020
302
7


High-quality full-length immunoglobulin profiling with unique molecular barcoding.
M A Turchaninova, A Davydov, O V Britanova, M Shugay, V Bikos, E S Egorov, V I Kirgizova, E M Merzlyak, D B Staroverov, D A Bolotin,[...]. Nat Protoc 2016
106
7

T cell fate and clonality inference from single-cell transcriptomes.
Michael J T Stubbington, Tapio Lönnberg, Valentina Proserpio, Simon Clare, Anneliese O Speak, Gordon Dougan, Sarah A Teichmann. Nat Methods 2016
266
7

Hierarchical Clustering Can Identify B Cell Clones with High Confidence in Ig Repertoire Sequencing Data.
Namita T Gupta, Kristofor D Adams, Adrian W Briggs, Sonia C Timberlake, Francois Vigneault, Steven H Kleinstein. J Immunol 2017
62
11

SCANPY: large-scale single-cell gene expression data analysis.
F Alexander Wolf, Philipp Angerer, Fabian J Theis. Genome Biol 2018
7

Next-Generation Sequencing of T and B Cell Receptor Repertoires from COVID-19 Patients Showed Signatures Associated with Severity of Disease.
Christoph Schultheiß, Lisa Paschold, Donjete Simnica, Malte Mohme, Edith Willscher, Lisa von Wenserski, Rebekka Scholz, Imke Wieters, Christine Dahlke, Eva Tolosa,[...]. Immunity 2020
168
7

Analysis of the B cell receptor repertoire in six immune-mediated diseases.
R J M Bashford-Rogers, L Bergamaschi, E F McKinney, D C Pombal, F Mescia, J C Lee, D C Thomas, S M Flint, P Kellam, D R W Jayne,[...]. Nature 2019
87
8

Deep Sequencing of B Cell Receptor Repertoires From COVID-19 Patients Reveals Strong Convergent Immune Signatures.
Jacob D Galson, Sebastian Schaetzle, Rachael J M Bashford-Rogers, Matthew I J Raybould, Aleksandr Kovaltsuk, Gavin J Kilpatrick, Ralph Minter, Donna K Finch, Jorge Dias, Louisa K James,[...]. Front Immunol 2020
59
11

Antibody resistance of SARS-CoV-2 variants B.1.351 and B.1.1.7.
Pengfei Wang, Manoj S Nair, Lihong Liu, Sho Iketani, Yang Luo, Yicheng Guo, Maple Wang, Jian Yu, Baoshan Zhang, Peter D Kwong,[...]. Nature 2021
6

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
6

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
Paul D Adams, Pavel V Afonine, Gábor Bunkóczi, Vincent B Chen, Ian W Davis, Nathaniel Echols, Jeffrey J Headd, Li-Wei Hung, Gary J Kapral, Ralf W Grosse-Kunstleve,[...]. Acta Crystallogr D Biol Crystallogr 2010
6

Inference of macromolecular assemblies from crystalline state.
Evgeny Krissinel, Kim Henrick. J Mol Biol 2007
6

IMGT/V-QUEST: IMGT standardized analysis of the immunoglobulin (IG) and T cell receptor (TR) nucleotide sequences.
Véronique Giudicelli, Xavier Brochet, Marie-Paule Lefranc. Cold Spring Harb Protoc 2011
242
6

Massively parallel single-cell B-cell receptor sequencing enables rapid discovery of diverse antigen-reactive antibodies.
Leonard D Goldstein, Ying-Jiun J Chen, Jia Wu, Subhra Chaudhuri, Yi-Chun Hsiao, Kellen Schneider, Kam Hon Hoi, Zhonghua Lin, Steve Guerrero, Bijay S Jaiswal,[...]. Commun Biol 2019
68
8

ANARCI: antigen receptor numbering and receptor classification.
James Dunbar, Charlotte M Deane. Bioinformatics 2016
107
6


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.