A citation-based method for searching scientific literature

Daniel B Graham, Ramnik J Xavier. Nature 2020
Times Cited: 181







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



Times Cited
  Times     Co-cited
Similarity


Fungal microbiota dysbiosis in IBD.
Harry Sokol, Valentin Leducq, Hugues Aschard, Hang-Phuong Pham, Sarah Jegou, Cecilia Landman, David Cohen, Giuseppina Liguori, Anne Bourrier, Isabelle Nion-Larmurier,[...]. Gut 2017
548
4


The microbiome in inflammatory bowel disease: current status and the future ahead.
Aleksandar D Kostic, Ramnik J Xavier, Dirk Gevers. Gastroenterology 2014
965
4

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
415
4

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
358
4

Prediction of complicated disease course for children newly diagnosed with Crohn's disease: a multicentre inception cohort study.
Subra Kugathasan, Lee A Denson, Thomas D Walters, Mi-Ok Kim, Urko M Marigorta, Melanie Schirmer, Kajari Mondal, Chunyan Liu, Anne Griffiths, Joshua D Noe,[...]. Lancet 2017
324
4

A decrease of the butyrate-producing species Roseburia hominis and Faecalibacterium prausnitzii defines dysbiosis in patients with ulcerative colitis.
Kathleen Machiels, Marie Joossens, João Sabino, Vicky De Preter, Ingrid Arijs, Venessa Eeckhaut, Vera Ballet, Karolien Claes, Filip Van Immerseel, Kristin Verbeke,[...]. Gut 2014
877
4

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
4

Current global trends in the incidence of pediatric-onset inflammatory bowel disease.
Josef Sýkora, Renáta Pomahačová, Marcela Kreslová, Dominika Cvalínová, Přemysl Štych, Jan Schwarz. World J Gastroenterol 2018
140
4

The Human Intestinal Microbiome in Health and Disease.
Susan V Lynch, Oluf Pedersen. N Engl J Med 2016
4

Gut microbiota and IBD: causation or correlation?
Josephine Ni, Gary D Wu, Lindsey Albenberg, Vesselin T Tomov. Nat Rev Gastroenterol Hepatol 2017
615
4

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
4

Genetic Sequencing of Pediatric Patients Identifies Mutations in Monogenic Inflammatory Bowel Disease Genes that Translate to Distinct Clinical Phenotypes.
James J Ashton, Enrico Mossotto, Imogen S Stafford, Rachel Haggarty, Tracy A F Coelho, Akshay Batra, Nadeem A Afzal, Matthew Mort, David Bunyan, Robert Mark Beattie,[...]. Clin Transl Gastroenterol 2020
13
30

Inherited determinants of Crohn's disease and ulcerative colitis phenotypes: a genetic association study.
Isabelle Cleynen, Gabrielle Boucher, Luke Jostins, L Philip Schumm, Sebastian Zeissig, Tariq Ahmad, Vibeke Andersen, Jane M Andrews, Vito Annese, Stephan Brand,[...]. Lancet 2016
413
4

Prevalence and Clinical Features of Inflammatory Bowel Diseases Associated With Monogenic Variants, Identified by Whole-Exome Sequencing in 1000 Children at a Single Center.
Eileen Crowley, Neil Warner, Jie Pan, Sam Khalouei, Abdul Elkadri, Karoline Fiedler, Justin Foong, Andrei L Turinsky, Dana Bronte-Tinkew, Shiqi Zhang,[...]. Gastroenterology 2020
41
9

A de novo whole gene deletion of XIAP detected by exome sequencing analysis in very early onset inflammatory bowel disease: a case report.
Judith R Kelsen, Noor Dawany, Alejandro Martinez, Christopher M Grochowski, Kelly Maurer, Eric Rappaport, David A Piccoli, Robert N Baldassano, Petar Mamula, Kathleen E Sullivan,[...]. BMC Gastroenterol 2015
33
12

Gut mucosal virome alterations in ulcerative colitis.
Tao Zuo, Xiao-Juan Lu, Yu Zhang, Chun Pan Cheung, Siu Lam, Fen Zhang, Whitney Tang, Jessica Y L Ching, Risheng Zhao, Paul K S Chan,[...]. Gut 2019
148
4

Serum Biomarkers Identify Patients Who Will Develop Inflammatory Bowel Diseases Up to 5 Years Before Diagnosis.
Joana Torres, Francesca Petralia, Takahiro Sato, Pei Wang, Shannon E Telesco, Rok Seon Choung, Richard Strauss, Xiao-Jun Li, Renee M Laird, Ramiro L Gutierrez,[...]. Gastroenterology 2020
52
7

CX3CR1+ mononuclear phagocytes control immunity to intestinal fungi.
Irina Leonardi, Xin Li, Alexa Semon, Dalin Li, Itai Doron, Gregory Putzel, Agnieszka Bar, Daniel Prieto, Maria Rescigno, Dermot P B McGovern,[...]. Science 2018
145
4

Mucosal healing in inflammatory bowel disease: results from a Norwegian population-based cohort.
Kathrine Frey Frøslie, Jørgen Jahnsen, Bjørn A Moum, Morten H Vatn. Gastroenterology 2007
815
4

Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis.
Christopher S Smillie, Moshe Biton, Jose Ordovas-Montanes, Keri M Sullivan, Grace Burgin, Daniel B Graham, Rebecca H Herbst, Noga Rogel, Michal Slyper, Julia Waldman,[...]. Cell 2019
350
4

Increased Tryptophan Metabolism Is Associated With Activity of Inflammatory Bowel Diseases.
Susanna Nikolaus, Berenice Schulte, Natalie Al-Massad, Florian Thieme, Dominik M Schulte, Johannes Bethge, Ateequr Rehman, Florian Tran, Konrad Aden, Robert Häsler,[...]. Gastroenterology 2017
186
4

Environmental triggers in IBD: a review of progress and evidence.
Ashwin N Ananthakrishnan, Charles N Bernstein, Dimitrios Iliopoulos, Andrew Macpherson, Markus F Neurath, Raja A Raja Ali, Stephan R Vavricka, Claudio Fiocchi. Nat Rev Gastroenterol Hepatol 2018
314
4

Clinical Genomics for the Diagnosis of Monogenic Forms of Inflammatory Bowel Disease: A Position Paper From the Paediatric IBD Porto Group of European Society of Paediatric Gastroenterology, Hepatology and Nutrition.
Holm H Uhlig, Fabienne Charbit-Henrion, Daniel Kotlarz, Dror S Shouval, Tobias Schwerd, Caterina Strisciuglio, Lissy de Ridder, Johan van Limbergen, Marina Macchi, Scott B Snapper,[...]. J Pediatr Gastroenterol Nutr 2021
25
16

Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease.
James Kinchen, Hannah H Chen, Kaushal Parikh, Agne Antanaviciute, Marta Jagielowicz, David Fawkner-Corbett, Neil Ashley, Laura Cubitt, Esther Mellado-Gomez, Moustafa Attar,[...]. Cell 2018
235
4

Hyaluronic acid-bilirubin nanomedicine for targeted modulation of dysregulated intestinal barrier, microbiome and immune responses in colitis.
Yonghyun Lee, Kohei Sugihara, Merritt G Gillilland, Sangyong Jon, Nobuhiko Kamada, James J Moon. Nat Mater 2020
142
4

NLRP3 Inflammasome and Inflammatory Bowel Disease.
Yu Zhen, Hu Zhang. Front Immunol 2019
184
4

STRIDE-II: An Update on the Selecting Therapeutic Targets in Inflammatory Bowel Disease (STRIDE) Initiative of the International Organization for the Study of IBD (IOIBD): Determining Therapeutic Goals for Treat-to-Target strategies in IBD.
Dan Turner, Amanda Ricciuto, Ayanna Lewis, Ferdinando D'Amico, Jasbir Dhaliwal, Anne M Griffiths, Dominik Bettenworth, William J Sandborn, Bruce E Sands, Walter Reinisch,[...]. Gastroenterology 2021
305
4

Oncostatin M drives intestinal inflammation and predicts response to tumor necrosis factor-neutralizing therapy in patients with inflammatory bowel disease.
Nathaniel R West, Ahmed N Hegazy, Benjamin M J Owens, Samuel J Bullers, Bryan Linggi, Sofia Buonocore, Margherita Coccia, Dieter Görtz, Sébastien This, Krista Stockenhuber,[...]. Nat Med 2017
348
4

Microbiotas from Humans with Inflammatory Bowel Disease Alter the Balance of Gut Th17 and RORγt+ Regulatory T Cells and Exacerbate Colitis in Mice.
Graham J Britton, Eduardo J Contijoch, Ilaria Mogno, Olivia H Vennaro, Sean R Llewellyn, Ruby Ng, Zhihua Li, Arthur Mortha, Miriam Merad, Anuk Das,[...]. Immunity 2019
194
4

Impaired Intestinal Permeability Contributes to Ongoing Bowel Symptoms in Patients With Inflammatory Bowel Disease and Mucosal Healing.
Jeff Chang, Rupert W Leong, Valerie C Wasinger, Matthew Ip, Michael Yang, Tri Giang Phan. Gastroenterology 2017
130
4

Mend Your Fences: The Epithelial Barrier and its Relationship With Mucosal Immunity in Inflammatory Bowel Disease.
Eva Martini, Susanne M Krug, Britta Siegmund, Markus F Neurath, Christoph Becker. Cell Mol Gastroenterol Hepatol 2017
248
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

Activation of Gpr109a, receptor for niacin and the commensal metabolite butyrate, suppresses colonic inflammation and carcinogenesis.
Nagendra Singh, Ashish Gurav, Sathish Sivaprakasam, Evan Brady, Ravi Padia, Huidong Shi, Muthusamy Thangaraju, Puttur D Prasad, Santhakumar Manicassamy, David H Munn,[...]. Immunity 2014
3

SYK-CARD9 Signaling Axis Promotes Gut Fungi-Mediated Inflammasome Activation to Restrict Colitis and Colon Cancer.
Ankit Malik, Deepika Sharma, R K Subbarao Malireddi, Clifford S Guy, Ti-Cheng Chang, Scott R Olsen, Geoffrey Neale, Peter Vogel, Thirumala-Devi Kanneganti. Immunity 2018
80
3

YAP Aggravates Inflammatory Bowel Disease by Regulating M1/M2 Macrophage Polarization and Gut Microbial Homeostasis.
Xin Zhou, Weiyun Li, Shuang Wang, Panli Zhang, Qiong Wang, Jun Xiao, Chi Zhang, Xin Zheng, Xiaoyan Xu, Shengjie Xue,[...]. Cell Rep 2019
103
3

Tryptophan catabolites from microbiota engage aryl hydrocarbon receptor and balance mucosal reactivity via interleukin-22.
Teresa Zelante, Rossana G Iannitti, Cristina Cunha, Antonella De Luca, Gloria Giovannini, Giuseppe Pieraccini, Riccardo Zecchi, Carmen D'Angelo, Cristina Massi-Benedetti, Francesca Fallarino,[...]. Immunity 2013
3

Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43.
Kendle M Maslowski, Angelica T Vieira, Aylwin Ng, Jan Kranich, Frederic Sierro, Di Yu, Heidi C Schilter, Michael S Rolph, Fabienne Mackay, David Artis,[...]. Nature 2009
3

A purified membrane protein from Akkermansia muciniphila or the pasteurised bacterium blunts colitis associated tumourigenesis by modulation of CD8+ T cells in mice.
Lijuan Wang, Lei Tang, Yiming Feng, Suying Zhao, Mei Han, Chuan Zhang, Gehui Yuan, Jun Zhu, Shuyuan Cao, Qian Wu,[...]. Gut 2020
130
3

Administration of Akkermansia muciniphila Ameliorates Dextran Sulfate Sodium-Induced Ulcerative Colitis in Mice.
Xiaoyuan Bian, Wenrui Wu, Liya Yang, Longxian Lv, Qing Wang, Yating Li, Jianzhong Ye, Daiqiong Fang, Jingjing Wu, Xianwan Jiang,[...]. Front Microbiol 2019
167
3

NOD2 stimulation induces autophagy in dendritic cells influencing bacterial handling and antigen presentation.
Rachel Cooney, John Baker, Oliver Brain, Benedicte Danis, Tica Pichulik, Philip Allan, David J P Ferguson, Barry J Campbell, Derek Jewell, Alison Simmons. Nat Med 2010
747
3

Interaction between microbiota and immunity in health and disease.
Danping Zheng, Timur Liwinski, Eran Elinav. Cell Res 2020
637
3

Leukocyte Trafficking to the Small Intestine and Colon.
Aida Habtezion, Linh P Nguyen, Husein Hadeiba, Eugene C Butcher. Gastroenterology 2016
178
3

The Bile Acid Receptor GPBAR1 Regulates the M1/M2 Phenotype of Intestinal Macrophages and Activation of GPBAR1 Rescues Mice from Murine Colitis.
Michele Biagioli, Adriana Carino, Sabrina Cipriani, Daniela Francisci, Silvia Marchianò, Paolo Scarpelli, Daniele Sorcini, Angela Zampella, Stefano Fiorucci. J Immunol 2017
132
3

Mucolytic bacteria with increased prevalence in IBD mucosa augment in vitro utilization of mucin by other bacteria.
Chin Wen Png, Sara K Lindén, Kristen S Gilshenan, Erwin G Zoetendal, Chris S McSweeney, Lindsay I Sly, Michael A McGuckin, Timothy H J Florin. Am J Gastroenterol 2010
763
3

Interactions between Intestinal Microbiota and Host Immune Response in Inflammatory Bowel Disease.
Ming Zhang, Kaiji Sun, Yujun Wu, Ying Yang, Patrick Tso, Zhenlong Wu. Front Immunol 2017
153
3

A single-cell survey of the small intestinal epithelium.
Adam L Haber, Moshe Biton, Noga Rogel, Rebecca H Herbst, Karthik Shekhar, Christopher Smillie, Grace Burgin, Toni M Delorey, Michael R Howitt, Yarden Katz,[...]. Nature 2017
678
3

Long-term expansion of epithelial organoids from human colon, adenoma, adenocarcinoma, and Barrett's epithelium.
Toshiro Sato, Daniel E Stange, Marc Ferrante, Robert G J Vries, Johan H Van Es, Stieneke Van den Brink, Winan J Van Houdt, Apollo Pronk, Joost Van Gorp, Peter D Siersema,[...]. Gastroenterology 2011
3

Butyrate Does Not Protect Against Inflammation-induced Loss of Epithelial Barrier Function and Cytokine Production in Primary Cell Monolayers From Patients With Ulcerative Colitis.
Maaike Vancamelbeke, Thessa Laeremans, Wiebe Vanhove, Kaline Arnauts, Anabela Santo Ramalho, Ricard Farré, Isabelle Cleynen, Marc Ferrante, Séverine Vermeire. J Crohns Colitis 2019
38
7

Receptors for protons or lipid messengers or both?
Klaus Seuwen, Marie-Gabrielle Ludwig, Romain M Wolf. J Recept Signal Transduct Res 2006
106
3


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.