A citation-based method for searching scientific literature

Andres F Vallejo, James Davies, Amit Grover, Ching-Hsuan Tsai, Robert Jepras, Marta E Polak, Jonathan West. iScience 2021
Times Cited: 2







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



Times Cited
  Times     Co-cited
Similarity


Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
Evan Z Macosko, Anindita Basu, Rahul Satija, James Nemesh, Karthik Shekhar, Melissa Goldman, Itay Tirosh, Allison R Bialas, Nolan Kamitaki, Emily M Martersteck,[...]. Cell 2015
100

Personalising medicine in inflammatory bowel disease-current and future perspectives.
James J Ashton, Enrico Mossotto, Sarah Ennis, R Mark Beattie. Transl Pediatr 2019
14
50

Single-Cell Analysis of Crohn's Disease Lesions Identifies a Pathogenic Cellular Module Associated with Resistance to Anti-TNF Therapy.
Jerome C Martin, Christie Chang, Gilles Boschetti, Ryan Ungaro, Mamta Giri, John A Grout, Kyle Gettler, Ling-Shiang Chuang, Shikha Nayar, Alexander J Greenstein,[...]. Cell 2019
126
50

NOD1 and NOD2: signaling, host defense, and inflammatory disease.
Roberta Caruso, Neil Warner, Naohiro Inohara, Gabriel Núñez. Immunity 2014
319
50

EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data.
Aaron T L Lun, Samantha Riesenfeld, Tallulah Andrews, The Phuong Dao, Tomas Gomes, John C Marioni. Genome Biol 2019
117
50

BBKNN: fast batch alignment of single cell transcriptomes.
Krzysztof Polański, Matthew D Young, Zhichao Miao, Kerstin B Meyer, Sarah A Teichmann, Jong-Eun Park. Bioinformatics 2020
96
50

Differential regulation of chemokines by IL-17 in colonic epithelial cells.
Jimmy W Lee, Ping Wang, Michael G Kattah, Sawsan Youssef, Lawrence Steinman, Kathryn DeFea, Daniel S Straus. J Immunol 2008
84
50

Pooling across cells to normalize single-cell RNA sequencing data with many zero counts.
Aaron T L Lun, Karsten Bach, John C Marioni. Genome Biol 2016
359
50

Is faecal calprotectin equally useful in all Crohn's disease locations? A prospective, comparative study.
Kamila Stawczyk-Eder, Piotr Eder, Liliana Lykowska-Szuber, Iwona Krela-Kazmierczak, Katarzyna Klimczak, Aleksandra Szymczak, Patrycja Szachta, Katarzyna Katulska, Krzysztof Linke. Arch Med Sci 2015
27
50

Assessment of the psoriatic transcriptome in a large sample: additional regulated genes and comparisons with in vitro models.
Johann E Gudjonsson, Jun Ding, Andrew Johnston, Trilokraj Tejasvi, Andrew M Guzman, Rajan P Nair, John J Voorhees, Goncalo R Abecasis, James T Elder. J Invest Dermatol 2010
141
50

Evolution of the immune system in humans from infancy to old age.
A Katharina Simon, Georg A Hollander, Andrew McMichael. Proc Biol Sci 2015
577
50


ESPGHAN revised porto criteria for the diagnosis of inflammatory bowel disease in children and adolescents.
Arie Levine, Sibylle Koletzko, Dan Turner, Johanna C Escher, Salvatore Cucchiara, Lissy de Ridder, Kaija-Leena Kolho, Gabor Veres, Richard K Russell, Anders Paerregaard,[...]. J Pediatr Gastroenterol Nutr 2014
558
50


DNA Methylation and Transcription Patterns in Intestinal Epithelial Cells From Pediatric Patients With Inflammatory Bowel Diseases Differentiate Disease Subtypes and Associate With Outcome.
Kate Joanne Howell, Judith Kraiczy, Komal M Nayak, Marco Gasparetto, Alexander Ross, Claire Lee, Tim N Mak, Bon-Kyoung Koo, Nitin Kumar, Trevor Lawley,[...]. Gastroenterology 2018
93
50

The diagnostic approach to monogenic very early onset inflammatory bowel disease.
Holm H Uhlig, Tobias Schwerd, Sibylle Koletzko, Neil Shah, Jochen Kammermeier, Abdul Elkadri, Jodie Ouahed, David C Wilson, Simon P Travis, Dan Turner,[...]. Gastroenterology 2014
309
50

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update.
Maxim V Kuleshov, Matthew R Jones, Andrew D Rouillard, Nicolas F Fernandez, Qiaonan Duan, Zichen Wang, Simon Koplev, Sherry L Jenkins, Kathleen M Jagodnik, Alexander Lachmann,[...]. Nucleic Acids Res 2016
50

Th17 Cells in Inflammatory Bowel Disease: An Update for the Clinician.
Guoqing Hou, Shrinivas Bishu. Inflamm Bowel Dis 2020
8
50

A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis.
Marie-Agnès Dillies, Andrea Rau, Julie Aubert, Christelle Hennequet-Antier, Marine Jeanmougin, Nicolas Servant, Céline Keime, Guillemette Marot, David Castel, Jordi Estelle,[...]. Brief Bioinform 2013
599
50

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
252
50

Erratum: 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
52
50

From Louvain to Leiden: guaranteeing well-connected communities.
V A Traag, L Waltman, N J van Eck. Sci Rep 2019
216
50

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
50

SCANPY: large-scale single-cell gene expression data analysis.
F Alexander Wolf, Philipp Angerer, Fabian J Theis. Genome Biol 2018
623
50

CXCR1-binding chemokines in inflammatory bowel diseases: down-regulated IL-8/CXCL8 production by leukocytes in Crohn's disease and selective GCP-2/CXCL6 expression in inflamed intestinal tissue.
Klara Gijsbers, Gert Van Assche, Sofie Joossens, Sofie Struyf, Paul Proost, Paul Rutgeerts, Karel Geboes, Jo Van Damme. Eur J Immunol 2004
53
50

Next generation sequencing and functional pathway analysis to understand the mechanism of action of copper-tolfenamic acid against pancreatic cancer cells.
Myrna Hurtado, Laszlo Prokai, Umesh T Sankpal, Blair Levesque, Rajasekhar Maram, Jaya Chhabra, Deondra T Brown, Raj K Gurung, Alvin A Holder, Jamboor K Vishwanatha,[...]. Process Biochem 2020
1
100

CEMiTool: a Bioconductor package for performing comprehensive modular co-expression analyses.
Pedro S T Russo, Gustavo R Ferreira, Lucas E Cardozo, Matheus C Bürger, Raul Arias-Carrasco, Sandra R Maruyama, Thiago D C Hirata, Diógenes S Lima, Fernando M Passos, Kiyoshi F Fukutani,[...]. BMC Bioinformatics 2018
63
50

Genetics and pathogenesis of inflammatory bowel disease.
Bernard Khor, Agnès Gardet, Ramnik J Xavier. Nature 2011
50

Corrigendum. Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature.
Yael Haberman, Timothy L Tickle, Phillip J Dexheimer, Mi-Ok Kim, Dora Tang, Rebekah Karns, Robert N Baldassano, Joshua D Noe, Joel Rosh, James Markowitz,[...]. J Clin Invest 2015
10
50

Pazopanib for treatment of typical solitary fibrous tumours: a multicentre, single-arm, phase 2 trial.
Javier Martin-Broto, Josefina Cruz, Nicolas Penel, Axel Le Cesne, Nadia Hindi, Pablo Luna, David S Moura, Daniel Bernabeu, Enrique de Alava, Jose Antonio Lopez-Guerrero,[...]. Lancet Oncol 2020
16
50

Serum interleukin 17 levels in patients with Crohn's disease: real life data.
Abdurrahman Sahin, Turan Calhan, Mustafa Cengiz, Resul Kahraman, Kubra Aydin, Kamil Ozdil, May Korachi, H Mehmet Sokmen. Dis Markers 2014
13
50

Low TREM1 expression in whole blood predicts anti-TNF response in inflammatory bowel disease.
Bram Verstockt, Sare Verstockt, Jonas Dehairs, Vera Ballet, Helene Blevi, Willem-Jan Wollants, Christine Breynaert, Gert Van Assche, Séverine Vermeire, Marc Ferrante. EBioMedicine 2019
42
50

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations.
Dorrelyn P Martin, Jharna Miya, Julie W Reeser, Sameek Roychowdhury. J Vis Exp 2016
7
50

The NCATS BioPlanet - An Integrated Platform for Exploring the Universe of Cellular Signaling Pathways for Toxicology, Systems Biology, and Chemical Genomics.
Ruili Huang, Ivan Grishagin, Yuhong Wang, Tongan Zhao, Jon Greene, John C Obenauer, Deborah Ngan, Dac-Trung Nguyen, Rajarshi Guha, Ajit Jadhav,[...]. Front Pharmacol 2019
40
50

Comparison of Reproducibility, Accuracy, Sensitivity, and Specificity of miRNA Quantification Platforms.
Paula M Godoy, Andrea J Barczak, Peter DeHoff, Srimeenakshi Srinivasan, Alton Etheridge, David Galas, Saumya Das, David J Erle, Louise C Laurent. Cell Rep 2019
12
50

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization.
Jing Chen, Eric E Bardes, Bruce J Aronow, Anil G Jegga. Nucleic Acids Res 2009
50

Increased expression of interleukin 17 in inflammatory bowel disease.
S Fujino, A Andoh, S Bamba, A Ogawa, K Hata, Y Araki, T Bamba, Y Fujiyama. Gut 2003
50

Loss of interleukin-10 signaling and infantile inflammatory bowel disease: implications for diagnosis and therapy.
Daniel Kotlarz, Rita Beier, Dhaarini Murugan, Jana Diestelhorst, Ole Jensen, Kaan Boztug, Dietmar Pfeifer, Hans Kreipe, Eva-Doreen Pfister, Ulrich Baumann,[...]. Gastroenterology 2012
268
50

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
3
50

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage.
Dvir Aran, Agnieszka P Looney, Leqian Liu, Esther Wu, Valerie Fong, Austin Hsu, Suzanna Chak, Ram P Naikawadi, Paul J Wolters, Adam R Abate,[...]. Nat Immunol 2019
341
50

WGCNA: an R package for weighted correlation network analysis.
Peter Langfelder, Steve Horvath. BMC Bioinformatics 2008
50

Concordance between gene expression in peripheral whole blood and colonic tissue in children with inflammatory bowel disease.
Nathan P Palmer, Jocelyn A Silvester, Jessica J Lee, Andrew L Beam, Inbar Fried, Vladimir I Valtchinov, Fedik Rahimov, Sek Won Kong, Saum Ghodoussipour, Helen C Hood,[...]. PLoS One 2019
7
50

Differential expression analysis for sequence count data.
Simon Anders, Wolfgang Huber. Genome Biol 2010
50

Clinical and Genomic Correlates of Neutrophil Reactive Oxygen Species Production in Pediatric Patients With Crohn's Disease.
Lee A Denson, Ingrid Jurickova, Rebekah Karns, Kelly A Shaw, David J Cutler, David T Okou, Anne Dodd, Kathryn Quinn, Kajari Mondal, Bruce J Aronow,[...]. Gastroenterology 2018
28
50

Immunological Profiling of Paediatric Inflammatory Bowel Disease Using Unsupervised Machine Learning.
Tracy Coelho, Enrico Mossotto, Yifang Gao, Rachel Haggarty, James J Ashton, Akshay Batra, Imogen S Stafford, Robert M Beattie, Anthony P Williams, Sarah Ennis. J Pediatr Gastroenterol Nutr 2020
1
100

Simultaneous epitope and transcriptome measurement in single cells.
Marlon Stoeckius, Christoph Hafemeister, William Stephenson, Brian Houck-Loomis, Pratip K Chattopadhyay, Harold Swerdlow, Rahul Satija, Peter Smibert. Nat Methods 2017
628
50

Meta-analytic framework for sparse K-means to identify disease subtypes in multiple transcriptomic studies.
Zhiguang Huo, Ying Ding, Silvia Liu, Steffi Oesterreich, George Tseng. J Am Stat Assoc 2016
9
50

Cell Hashing with barcoded antibodies enables multiplexing and doublet detection for single cell genomics.
Marlon Stoeckius, Shiwei Zheng, Brian Houck-Loomis, Stephanie Hao, Bertrand Z Yeung, William M Mauck, Peter Smibert, Rahul Satija. Genome Biol 2018
166
50

Gene expression profiling of single epidermal, basal and trichome cells of Arabidopsis thaliana.
Elke Lieckfeldt, Ulrike Simon-Rosin, Frank Kose, Daniela Zoeller, Martin Schliep, Joachim Fisahn. J Plant Physiol 2008
22
50

Hierarchical Transcription Factor and Chromatin Binding Network for Wood Formation in Black Cottonwood (Populus trichocarpa).
Hao Chen, Jack P Wang, Huizi Liu, Huiyu Li, Ying-Chung Jimmy Lin, Rui Shi, Chenmin Yang, Jinghui Gao, Chenguang Zhou, Quanzi Li,[...]. Plant Cell 2019
26
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.