A citation-based method for searching scientific literature

Bo Wang, Aziz M Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg. Nat Methods 2014
Times Cited: 653







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



Times Cited
  Times     Co-cited
Similarity



NEMO: cancer subtyping by integration of partial multi-omic data.
Nimrod Rappoport, Ron Shamir. Bioinformatics 2019
54
29


Multi-Omics Factor Analysis-a framework for unsupervised integration of multi-omics data sets.
Ricard Argelaguet, Britta Velten, Damien Arnol, Sascha Dietrich, Thorsten Zenz, John C Marioni, Florian Buettner, Wolfgang Huber, Oliver Stegle. Mol Syst Biol 2018
253
15

Pattern discovery and cancer gene identification in integrated cancer genomic data.
Qianxing Mo, Sijian Wang, Venkatraman E Seshan, Adam B Olshen, Nikolaus Schultz, Chris Sander, R Scott Powers, Marc Ladanyi, Ronglai Shen. Proc Natl Acad Sci U S A 2013
214
14


More Is Better: Recent Progress in Multi-Omics Data Integration Methods.
Sijia Huang, Kumardeep Chaudhary, Lana X Garmire. Front Genet 2017
297
14


A fully Bayesian latent variable model for integrative clustering analysis of multi-type omics data.
Qianxing Mo, Ronglai Shen, Cui Guo, Marina Vannucci, Keith S Chan, Susan G Hilsenbeck. Biostatistics 2018
68
19

Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin.
Katherine A Hoadley, Christina Yau, Denise M Wolf, Andrew D Cherniack, David Tamborero, Sam Ng, Max D M Leiserson, Beifang Niu, Michael D McLellan, Vladislav Uzunangelov,[...]. Cell 2014
853
12

A novel approach for data integration and disease subtyping.
Tin Nguyen, Rebecca Tagett, Diana Diaz, Sorin Draghici. Genome Res 2017
70
15

JOINT AND INDIVIDUAL VARIATION EXPLAINED (JIVE) FOR INTEGRATED ANALYSIS OF MULTIPLE DATA TYPES.
Eric F Lock, Katherine A Hoadley, J S Marron, Andrew B Nobel. Ann Appl Stat 2013
170
10

Deep Learning-Based Multi-Omics Integration Robustly Predicts Survival in Liver Cancer.
Kumardeep Chaudhary, Olivier B Poirion, Liangqun Lu, Lana X Garmire. Clin Cancer Res 2018
314
10

PINSPlus: a tool for tumor subtype discovery in integrated genomic data.
Hung Nguyen, Sangam Shrestha, Sorin Draghici, Tin Nguyen. Bioinformatics 2019
34
29


Multi-omics Data Integration, Interpretation, and Its Application.
Indhupriya Subramanian, Srikant Verma, Shiva Kumar, Abhay Jere, Krishanpal Anamika. Bioinform Biol Insights 2020
193
10

Bayesian consensus clustering.
Eric F Lock, David B Dunson. Bioinformatics 2013
107
8

The Cancer Genome Atlas Pan-Cancer analysis project.
John N Weinstein, Eric A Collisson, Gordon B Mills, Kenna R Mills Shaw, Brad A Ozenberger, Kyle Ellrott, Ilya Shmulevich, Chris Sander, Joshua M Stuart. Nat Genet 2013
8

Discovery of multi-dimensional modules by integrative analysis of cancer genomic data.
Shihua Zhang, Chun-Chi Liu, Wenyuan Li, Hui Shen, Peter W Laird, Xianghong Jasmine Zhou. Nucleic Acids Res 2012
176
8

mixOmics: An R package for 'omics feature selection and multiple data integration.
Florian Rohart, Benoît Gautier, Amrit Singh, Kim-Anh Lê Cao. PLoS Comput Biol 2017
978
8

MOLI: multi-omics late integration with deep neural networks for drug response prediction.
Hossein Sharifi-Noghabi, Olga Zolotareva, Colin C Collins, Martin Ester. Bioinformatics 2019
74
10

Multi-omics approaches to disease.
Yehudit Hasin, Marcus Seldin, Aldons Lusis. Genome Biol 2017
653
8

Methods of integrating data to uncover genotype-phenotype interactions.
Marylyn D Ritchie, Emily R Holzinger, Ruowang Li, Sarah A Pendergrass, Dokyoon Kim. Nat Rev Genet 2015
447
8

Patient Similarity Networks for Precision Medicine.
Shraddha Pai, Gary D Bader. J Mol Biol 2018
39
20

MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data.
Ricard Argelaguet, Damien Arnol, Danila Bredikhin, Yonatan Deloro, Britta Velten, John C Marioni, Oliver Stegle. Genome Biol 2020
91
8

Comprehensive Integration of Single-Cell Data.
Tim Stuart, Andrew Butler, Paul Hoffman, Christoph Hafemeister, Efthymia Papalexi, William M Mauck, Yuhan Hao, Marlon Stoeckius, Peter Smibert, Rahul Satija. Cell 2019
8

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups.
Christina Curtis, Sohrab P Shah, Suet-Feung Chin, Gulisa Turashvili, Oscar M Rueda, Mark J Dunning, Doug Speed, Andy G Lynch, Shamith Samarajiwa, Yinyin Yuan,[...]. Nature 2012
7

Multi-omic tumor data reveal diversity of molecular mechanisms that correlate with survival.
Daniele Ramazzotti, Avantika Lal, Bo Wang, Serafim Batzoglou, Arend Sidow. Nat Commun 2018
60
11

Visualization and analysis of single-cell RNA-seq data by kernel-based similarity learning.
Bo Wang, Junjie Zhu, Emma Pierson, Daniele Ramazzotti, Serafim Batzoglou. Nat Methods 2017
251
7



Genomics of Drug Sensitivity in Cancer (GDSC): a resource for therapeutic biomarker discovery in cancer cells.
Wanjuan Yang, Jorge Soares, Patricia Greninger, Elena J Edelman, Howard Lightfoot, Simon Forbes, Nidhi Bindal, Dave Beare, James A Smith, I Richard Thompson,[...]. Nucleic Acids Res 2013
7

moCluster: Identifying Joint Patterns Across Multiple Omics Data Sets.
Chen Meng, Dominic Helm, Martin Frejno, Bernhard Kuster. J Proteome Res 2016
46
15

Integrated analysis of multimodal single-cell data.
Yuhan Hao, Stephanie Hao, Erica Andersen-Nissen, William M Mauck, Shiwei Zheng, Andrew Butler, Maddie J Lee, Aaron J Wilk, Charlotte Darby, Michael Zager,[...]. Cell 2021
575
7

Integrative subtype discovery in glioblastoma using iCluster.
Ronglai Shen, Qianxing Mo, Nikolaus Schultz, Venkatraman E Seshan, Adam B Olshen, Jason Huse, Marc Ladanyi, Chris Sander. PLoS One 2012
127
6

Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.
Charles J Vaske, Stephen C Benz, J Zachary Sanborn, Dent Earl, Christopher Szeto, Jingchun Zhu, David Haussler, Joshua M Stuart. Bioinformatics 2010
479
6

Methods for the integration of multi-omics data: mathematical aspects.
Matteo Bersanelli, Ettore Mosca, Daniel Remondini, Enrico Giampieri, Claudia Sala, Gastone Castellani, Luciano Milanesi. BMC Bioinformatics 2016
179
6

The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data.
Ethan Cerami, Jianjiong Gao, Ugur Dogrusoz, Benjamin E Gross, Selcuk Onur Sumer, Bülent Arman Aksoy, Anders Jacobsen, Caitlin J Byrne, Michael L Heuer, Erik Larsson,[...]. Cancer Discov 2012
5

DIABLO: an integrative approach for identifying key molecular drivers from multi-omics assays.
Amrit Singh, Casey P Shannon, Benoît Gautier, Florian Rohart, Michaël Vacher, Scott J Tebbutt, Kim-Anh Lê Cao. Bioinformatics 2019
158
5

Supervised risk predictor of breast cancer based on intrinsic subtypes.
Joel S Parker, Michael Mullins, Maggie C U Cheang, Samuel Leung, David Voduc, Tammi Vickery, Sherri Davies, Christiane Fauron, Xiaping He, Zhiyuan Hu,[...]. J Clin Oncol 2009
5

Pattern fusion analysis by adaptive alignment of multiple heterogeneous omics data.
Qianqian Shi, Chuanchao Zhang, Minrui Peng, Xiangtian Yu, Tao Zeng, Juan Liu, Luonan Chen. Bioinformatics 2017
34
14

NCBI GEO: archive for functional genomics data sets--update.
Tanya Barrett, Stephen E Wilhite, Pierre Ledoux, Carlos Evangelista, Irene F Kim, Maxim Tomashevsky, Kimberly A Marshall, Katherine H Phillippy, Patti M Sherman, Michelle Holko,[...]. Nucleic Acids Res 2013
5

Human Protein Reference Database--2009 update.
T S Keshava Prasad, Renu Goel, Kumaran Kandasamy, Shivakumar Keerthikumar, Sameer Kumar, Suresh Mathivanan, Deepthi Telikicherla, Rajesh Raju, Beema Shafreen, Abhilash Venugopal,[...]. Nucleic Acids Res 2009
5

Integrative multi-omics module network inference with Lemon-Tree.
Eric Bonnet, Laurence Calzone, Tom Michoel. PLoS Comput Biol 2015
53
9

Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
M Ashburner, C A Ball, J A Blake, D Botstein, H Butler, J M Cherry, A P Davis, K Dolinski, S S Dwight, J T Eppig,[...]. Nat Genet 2000
5

Bayesian correlated clustering to integrate multiple datasets.
Paul Kirk, Jim E Griffin, Richard S Savage, Zoubin Ghahramani, David L Wild. Bioinformatics 2012
116
5

Gaussian interaction profile kernels for predicting drug-target interaction.
Twan van Laarhoven, Sander B Nabuurs, Elena Marchiori. Bioinformatics 2011
403
5

HMDD v3.0: a database for experimentally supported human microRNA-disease associations.
Zhou Huang, Jiangcheng Shi, Yuanxu Gao, Chunmei Cui, Shan Zhang, Jianwei Li, Yuan Zhou, Qinghua Cui. Nucleic Acids Res 2019
264
5

Integrative Network Fusion: A Multi-Omics Approach in Molecular Profiling.
Marco Chierici, Nicole Bussola, Alessia Marcolini, Margherita Francescatto, Alessandro Zandonà, Lucia Trastulla, Claudio Agostinelli, Giuseppe Jurman, Cesare Furlanello. Front Oncol 2020
15
33

DrugBank 5.0: a major update to the DrugBank database for 2018.
David S Wishart, Yannick D Feunang, An C Guo, Elvis J Lo, Ana Marcu, Jason R Grant, Tanvir Sajed, Daniel Johnson, Carin Li, Zinat Sayeeda,[...]. Nucleic Acids Res 2018
5


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.