A citation-based method for searching scientific literature

Manuel A Rivas, Mélissa Beaudoin, Agnes Gardet, Christine Stevens, Yashoda Sharma, Clarence K Zhang, Gabrielle Boucher, Stephan Ripke, David Ellinghaus, Noel Burtt, Tim Fennell, Andrew Kirby, Anna Latiano, Philippe Goyette, Todd Green, Jonas Halfvarson, Talin Haritunians, Joshua M Korn, Finny Kuruvilla, Caroline Lagacé, Benjamin Neale, Ken Sin Lo, Phil Schumm, Leif Törkvist, Marla C Dubinsky, Steven R Brant, Mark S Silverberg, Richard H Duerr, David Altshuler, Stacey Gabriel, Guillaume Lettre, Andre Franke, Mauro D'Amato, Dermot P B McGovern, Judy H Cho, John D Rioux, Ramnik J Xavier, Mark J Daly. Nat Genet 2011
Times Cited: 542







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



Times Cited
  Times     Co-cited
Similarity


Rare-variant association testing for sequencing data with the sequence kernel association test.
Michael C Wu, Seunggeun Lee, Tianxi Cai, Yun Li, Michael Boehnke, Xihong Lin. Am J Hum Genet 2011
6

Fungal Signature in the Gut Microbiota of Pediatric Patients With Inflammatory Bowel Disease.
Christel Chehoud, Lindsey G Albenberg, Colleen Judge, Christian Hoffmann, Stephanie Grunberg, Kyle Bittinger, Robert N Baldassano, James D Lewis, Frederic D Bushman, Gary D Wu. Inflamm Bowel Dis 2015
144
5

Dectin-3 Deficiency Promotes Colitis Development due to Impaired Antifungal Innate Immune Responses in the Gut.
Tingting Wang, Deng Pan, Zhicheng Zhou, Yun You, Changying Jiang, Xueqiang Zhao, Xin Lin. PLoS Pathog 2016
56
8

Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn's Disease.
James D Lewis, Eric Z Chen, Robert N Baldassano, Anthony R Otley, Anne M Griffiths, Dale Lee, Kyle Bittinger, Aubrey Bailey, Elliot S Friedman, Christian Hoffmann,[...]. Cell Host Microbe 2015
430
5

Bacteriome and Mycobiome Interactions Underscore Microbial Dysbiosis in Familial Crohn's Disease.
G Hoarau, P K Mukherjee, C Gower-Rousseau, C Hager, J Chandra, M A Retuerto, C Neut, S Vermeire, J Clemente, J F Colombel,[...]. mBio 2016
225
5

Induction of intestinal Th17 cells by segmented filamentous bacteria.
Ivaylo I Ivanov, Koji Atarashi, Nicolas Manel, Eoin L Brodie, Tatsuichiro Shima, Ulas Karaoz, Dongguang Wei, Katherine C Goldfarb, Clark A Santee, Susan V Lynch,[...]. Cell 2009
5

Invasive fungal infection and impaired neutrophil killing in human CARD9 deficiency.
Agata Drewniak, Roel P Gazendam, Anton T J Tool, Michel van Houdt, Machiel H Jansen, John L van Hamme, Ester M M van Leeuwen, Dirk Roos, Emmanuel Scalais, Carine de Beaufort,[...]. Blood 2013
207
5

A human gut microbial gene catalogue established by metagenomic sequencing.
Junjie Qin, Ruiqiang Li, Jeroen Raes, Manimozhiyan Arumugam, Kristoffer Solvsten Burgdorf, Chaysavanh Manichanh, Trine Nielsen, Nicolas Pons, Florence Levenez, Takuji Yamada,[...]. Nature 2010
5

Deletion polymorphism upstream of IRGM associated with altered IRGM expression and Crohn's disease.
Steven A McCarroll, Alan Huett, Petric Kuballa, Shannon D Chilewski, Aimee Landry, Philippe Goyette, Michael C Zody, Jennifer L Hall, Steven R Brant, Judy H Cho,[...]. Nat Genet 2008
497
5

Three ulcerative colitis susceptibility loci are associated with primary sclerosing cholangitis and indicate a role for IL2, REL, and CARD9.
Marcel Janse, Laetitia E Lamberts, Lude Franke, Soumya Raychaudhuri, Eva Ellinghaus, Kirsten Muri Boberg, Espen Melum, Trine Folseraas, Erik Schrumpf, Annika Bergquist,[...]. Hepatology 2011
90
5

Card9 controls a non-TLR signalling pathway for innate anti-fungal immunity.
Olaf Gross, Andreas Gewies, Katrin Finger, Martin Schäfer, Tim Sparwasser, Christian Peschel, Irmgard Förster, Jürgen Ruland. Nature 2006
623
5

Discovery of new risk loci for IgA nephropathy implicates genes involved in immunity against intestinal pathogens.
Krzysztof Kiryluk, Yifu Li, Francesco Scolari, Simone Sanna-Cherchi, Murim Choi, Miguel Verbitsky, David Fasel, Sneh Lata, Sindhuri Prakash, Samantha Shapiro,[...]. Nat Genet 2014
337
5

Genome-wide polygenic scores for common diseases identify individuals with risk equivalent to monogenic mutations.
Amit V Khera, Mark Chaffin, Krishna G Aragam, Mary E Haas, Carolina Roselli, Seung Hoan Choi, Pradeep Natarajan, Eric S Lander, Steven A Lubitz, Patrick T Ellinor,[...]. Nat Genet 2018
5

An atlas of genetic correlations across human diseases and traits.
Brendan Bulik-Sullivan, Hilary K Finucane, Verneri Anttila, Alexander Gusev, Felix R Day, Po-Ru Loh, Laramie Duncan, John R B Perry, Nick Patterson, Elise B Robinson,[...]. Nat Genet 2015
5

Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types.
Hilary K Finucane, Yakir A Reshef, Verneri Anttila, Kamil Slowikowski, Alexander Gusev, Andrea Byrnes, Steven Gazal, Po-Ru Loh, Caleb Lareau, Noam Shoresh,[...]. Nat Genet 2018
364
5



Resolving TYK2 locus genotype-to-phenotype differences in autoimmunity.
Calliope A Dendrou, Adrian Cortes, Lydia Shipman, Hayley G Evans, Kathrine E Attfield, Luke Jostins, Thomas Barber, Gurman Kaur, Subita Balaram Kuttikkatte, Oliver A Leach,[...]. Sci Transl Med 2016
126
5

IBD risk loci are enriched in multigenic regulatory modules encompassing putative causative genes.
Yukihide Momozawa, Julia Dmitrieva, Emilie Théâtre, Valérie Deffontaine, Souad Rahmouni, Benoît Charloteaux, François Crins, Elisa Docampo, Mahmoud Elansary, Ann-Stephan Gori,[...]. Nat Commun 2018
97
5

Optimal tests for rare variant effects in sequencing association studies.
Seunggeun Lee, Michael C Wu, Xihong Lin. Biostatistics 2012
424
5


Multiple rare alleles contribute to low plasma levels of HDL cholesterol.
Jonathan C Cohen, Robert S Kiss, Alexander Pertsemlidis, Yves L Marcel, Ruth McPherson, Helen H Hobbs. Science 2004
811
5



Low LDL cholesterol in individuals of African descent resulting from frequent nonsense mutations in PCSK9.
Jonathan Cohen, Alexander Pertsemlidis, Ingrid K Kotowski, Randall Graham, Christine Kim Garcia, Helen H Hobbs. Nat Genet 2005
929
5

PLINK: a tool set for whole-genome association and population-based linkage analyses.
Shaun Purcell, Benjamin Neale, Kathe Todd-Brown, Lori Thomas, Manuel A R Ferreira, David Bender, Julian Maller, Pamela Sklar, Paul I W de Bakker, Mark J Daly,[...]. Am J Hum Genet 2007
5

Gut microbiome structure and metabolic activity in inflammatory bowel disease.
Eric A Franzosa, Alexandra Sirota-Madi, Julian Avila-Pacheco, Nadine Fornelos, Henry J Haiser, Stefan Reinker, Tommi Vatanen, A Brantley Hall, Himel Mallick, Lauren J McIver,[...]. Nat Microbiol 2019
560
5

Immunological Consequences of Intestinal Fungal Dysbiosis.
Matthew L Wheeler, Jose J Limon, Agnieszka S Bar, Christian A Leal, Matthew Gargus, Jie Tang, Jordan Brown, Vincent A Funari, Hanlin L Wang, Timothy R Crother,[...]. Cell Host Microbe 2016
221
4

Dectin-1 is required for beta-glucan recognition and control of fungal infection.
Philip R Taylor, S Vicky Tsoni, Janet A Willment, Kevin M Dennehy, Marcela Rosas, Helen Findon, Ken Haynes, Chad Steele, Marina Botto, Siamon Gordon,[...]. Nat Immunol 2007
813
4

Extrapulmonary Aspergillus infection in patients with CARD9 deficiency.
Nikolaus Rieber, Roel P Gazendam, Alexandra F Freeman, Amy P Hsu, Amanda L Collar, Janyce A Sugui, Rebecca A Drummond, Chokechai Rongkavilit, Kevin Hoffman, Carolyn Henderson,[...]. JCI Insight 2016
97
4

Commensal Fungi Recapitulate the Protective Benefits of Intestinal Bacteria.
Tony T Jiang, Tzu-Yu Shao, W X Gladys Ang, Jeremy M Kinder, Lucien H Turner, Giang Pham, Jordan Whitt, Theresa Alenghat, Sing Sing Way. Cell Host Microbe 2017
126
4

Fungi and inflammatory bowel diseases: Alterations of composition and diversity.
Stephan J Ott, Tanja Kühbacher, Meike Musfeldt, Philip Rosenstiel, Stephan Hellmig, Ateequr Rehman, Oliver Drews, Wilko Weichert, Kenneth N Timmis, Stefan Schreiber. Scand J Gastroenterol 2008
270
4

Mycobiome: Approaches to analysis of intestinal fungi.
Jie Tang, Iliyan D Iliev, Jordan Brown, David M Underhill, Vincent A Funari. J Immunol Methods 2015
101
4

Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota.
Koji Atarashi, Takeshi Tanoue, Kenshiro Oshima, Wataru Suda, Yuji Nagano, Hiroyoshi Nishikawa, Shinji Fukuda, Takuro Saito, Seiko Narushima, Koji Hase,[...]. Nature 2013
4

Commensal Fungi in Health and Disease.
Jose J Limon, Joseph H Skalski, David M Underhill. Cell Host Microbe 2017
151
4

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
4

Elucidating the chromosome 9 association with AS; CARD9 is a candidate gene.
J J Pointon, D Harvey, T Karaderi, L H Appleton, C Farrar, M A Stone, R D Sturrock, M A Brown, B P Wordsworth. Genes Immun 2010
51
7

Card9 mediates susceptibility to intestinal pathogens through microbiota modulation and control of bacterial virulence.
Bruno Lamas, Marie-Laure Michel, Nadine Waldschmitt, Hang-Phuong Pham, Vassiliki Zacharioudaki, Louise Dupraz, Myriam Delacre, Jane M Natividad, Gregory Da Costa, Julien Planchais,[...]. Gut 2018
23
17

Interplay of host genetics and gut microbiota underlying the onset and clinical presentation of inflammatory bowel disease.
Floris Imhann, Arnau Vich Vila, Marc Jan Bonder, Jingyuan Fu, Dirk Gevers, Marijn C Visschedijk, Lieke M Spekhorst, Rudi Alberts, Lude Franke, Hendrik M van Dullemen,[...]. Gut 2018
369
4

Genetic and epigenetic fine mapping of causal autoimmune disease variants.
Kyle Kai-How Farh, Alexander Marson, Jiang Zhu, Markus Kleinewietfeld, William J Housley, Samantha Beik, Noam Shoresh, Holly Whitton, Russell J H Ryan, Alexander A Shishkin,[...]. Nature 2015
4

Integrative analysis of 111 reference human epigenomes.
Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J Ziller,[...]. Nature 2015
4

A reference panel of 64,976 haplotypes for genotype imputation.
Shane McCarthy, Sayantan Das, Warren Kretzschmar, Olivier Delaneau, Andrew R Wood, Alexander Teumer, Hyun Min Kang, Christian Fuchsberger, Petr Danecek, Kevin Sharp,[...]. Nat Genet 2016
4

Genetic effects on gene expression across human tissues.
Alexis Battle, Christopher D Brown, Barbara E Engelhardt, Stephen B Montgomery. Nature 2017
4

Loss-of-function mutations in SLC30A8 protect against type 2 diabetes.
Jason Flannick, Gudmar Thorleifsson, Nicola L Beer, Suzanne B R Jacobs, Niels Grarup, Noël P Burtt, Anubha Mahajan, Christian Fuchsberger, Gil Atzmon, Rafn Benediktsson,[...]. Nat Genet 2014
313
4

Genetic analyses of diverse populations improves discovery for complex traits.
Genevieve L Wojcik, Mariaelisa Graff, Katherine K Nishimura, Ran Tao, Jeffrey Haessler, Christopher R Gignoux, Heather M Highland, Yesha M Patel, Elena P Sorokin, Christy L Avery,[...]. Nature 2019
314
4

A global reference for human genetic variation.
Adam Auton, Lisa D Brooks, Richard M Durbin, Erik P Garrison, Hyun Min Kang, Jan O Korbel, Jonathan L Marchini, Shane McCarthy, Gil A McVean, Gonçalo R Abecasis. Nature 2015
4

An Expanded View of Complex Traits: From Polygenic to Omnigenic.
Evan A Boyle, Yang I Li, Jonathan K Pritchard. Cell 2017
4

Schizophrenia risk from complex variation of complement component 4.
Aswin Sekar, Allison R Bialas, Heather de Rivera, Avery Davis, Timothy R Hammond, Nolan Kamitaki, Katherine Tooley, Jessy Presumey, Matthew Baum, Vanessa Van Doren,[...]. Nature 2016
4

The UK Biobank resource with deep phenotyping and genomic data.
Clare Bycroft, Colin Freeman, Desislava Petkova, Gavin Band, Lloyd T Elliott, Kevin Sharp, Allan Motyer, Damjan Vukcevic, Olivier Delaneau, Jared O'Connell,[...]. Nature 2018
4

Validating therapeutic targets through human genetics.
Robert M Plenge, Edward M Scolnick, David Altshuler. Nat Rev Drug Discov 2013
370
4


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.