A citation-based method for searching scientific literature

Mathew J Garnett, Elena J Edelman, Sonja J Heidorn, Chris D Greenman, Anahita Dastur, King Wai Lau, Patricia Greninger, I Richard Thompson, Xi Luo, Jorge Soares, Qingsong Liu, Francesco Iorio, Didier Surdez, Li Chen, Randy J Milano, Graham R Bignell, Ah T Tam, Helen Davies, Jesse A Stevenson, Syd Barthorpe, Stephen R Lutz, Fiona Kogera, Karl Lawrence, Anne McLaren-Douglas, Xeni Mitropoulos, Tatiana Mironenko, Helen Thi, Laura Richardson, Wenjun Zhou, Frances Jewitt, Tinghu Zhang, Patrick O'Brien, Jessica L Boisvert, Stacey Price, Wooyoung Hur, Wanjuan Yang, Xianming Deng, Adam Butler, Hwan Geun Choi, Jae Won Chang, Jose Baselga, Ivan Stamenkovic, Jeffrey A Engelman, Sreenath V Sharma, Olivier Delattre, Julio Saez-Rodriguez, Nathanael S Gray, Jeffrey Settleman, P Andrew Futreal, Daniel A Haber, Michael R Stratton, Sridhar Ramaswamy, Ultan McDermott, Cyril H Benes. Nature 2012
Times Cited: 1483







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



Times Cited
  Times     Co-cited
Similarity


The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.
Jordi Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam A Margolin, Sungjoon Kim, Christopher J Wilson, Joseph Lehár, Gregory V Kryukov, Dmitriy Sonkin,[...]. Nature 2012
57

A Landscape of Pharmacogenomic Interactions in Cancer.
Francesco Iorio, Theo A Knijnenburg, Daniel J Vis, Graham R Bignell, Michael P Menden, Michael Schubert, Nanne Aben, Emanuel Gonçalves, Syd Barthorpe, Howard Lightfoot,[...]. Cell 2016
772
40

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
28

Next-generation characterization of the Cancer Cell Line Encyclopedia.
Mahmoud Ghandi, Franklin W Huang, Judit Jané-Valbuena, Gregory V Kryukov, Christopher C Lo, E Robert McDonald, Jordi Barretina, Ellen T Gelfand, Craig M Bielski, Haoxin Li,[...]. Nature 2019
855
16

A community effort to assess and improve drug sensitivity prediction algorithms.
James C Costello, Laura M Heiser, Elisabeth Georgii, Mehmet Gönen, Michael P Menden, Nicholas J Wang, Mukesh Bansal, Muhammad Ammad-ud-din, Petteri Hintsanen, Suleiman A Khan,[...]. Nat Biotechnol 2014
365
14

Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset.
Brinton Seashore-Ludlow, Matthew G Rees, Jaime H Cheah, Murat Cokol, Edmund V Price, Matthew E Coletti, Victor Jones, Nicole E Bodycombe, Christian K Soule, Joshua Gould,[...]. Cancer Discov 2015
324
13

Defining a Cancer Dependency Map.
Aviad Tsherniak, Francisca Vazquez, Phil G Montgomery, Barbara A Weir, Gregory Kryukov, Glenn S Cowley, Stanley Gill, William F Harrington, Sasha Pantel, John M Krill-Burger,[...]. Cell 2017
734
13

Inconsistency in large pharmacogenomic studies.
Benjamin Haibe-Kains, Nehme El-Hachem, Nicolai Juul Birkbak, Andrew C Jin, Andrew H Beck, Hugo J W L Aerts, John Quackenbush. Nature 2013
312
12

Reproducible pharmacogenomic profiling of cancer cell line panels.
Peter M Haverty, Eva Lin, Jenille Tan, Yihong Yu, Billy Lam, Steve Lianoglou, Richard M Neve, Scott Martin, Jeff Settleman, Robert L Yauch,[...]. Nature 2016
154
12


Correlating chemical sensitivity and basal gene expression reveals mechanism of action.
Matthew G Rees, Brinton Seashore-Ludlow, Jaime H Cheah, Drew J Adams, Edmund V Price, Shubhroz Gill, Sarah Javaid, Matthew E Coletti, Victor L Jones, Nicole E Bodycombe,[...]. Nat Chem Biol 2016
310
11

An interactive resource to identify cancer genetic and lineage dependencies targeted by small molecules.
Amrita Basu, Nicole E Bodycombe, Jaime H Cheah, Edmund V Price, Ke Liu, Giannina I Schaefer, Richard Y Ebright, Michelle L Stewart, Daisuke Ito, Stephanie Wang,[...]. Cell 2013
344
11

The NCI60 human tumour cell line anticancer drug screen.
Robert H Shoemaker. Nat Rev Cancer 2006
10

Prioritization of cancer therapeutic targets using CRISPR-Cas9 screens.
Fiona M Behan, Francesco Iorio, Gabriele Picco, Emanuel Gonçalves, Charlotte M Beaver, Giorgia Migliardi, Rita Santos, Yanhua Rao, Francesco Sassi, Marika Pinnelli,[...]. Nature 2019
388
10



Genetic and transcriptional evolution alters cancer cell line drug response.
Uri Ben-David, Benjamin Siranosian, Gavin Ha, Helen Tang, Yaara Oren, Kunihiko Hinohara, Craig A Strathdee, Joshua Dempster, Nicholas J Lyons, Robert Burns,[...]. Nature 2018
329
9

Machine learning prediction of cancer cell sensitivity to drugs based on genomic and chemical properties.
Michael P Menden, Francesco Iorio, Mathew Garnett, Ultan McDermott, Cyril H Benes, Pedro J Ballester, Julio Saez-Rodriguez. PLoS One 2013
207
9

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Aravind Subramanian, Pablo Tamayo, Vamsi K Mootha, Sayan Mukherjee, Benjamin L Ebert, Michael A Gillette, Amanda Paulovich, Scott L Pomeroy, Todd R Golub, Eric S Lander,[...]. Proc Natl Acad Sci U S A 2005
9

Trapping of PARP1 and PARP2 by Clinical PARP Inhibitors.
Junko Murai, Shar-yin N Huang, Benu Brata Das, Amelie Renaud, Yiping Zhang, James H Doroshow, Jiuping Ji, Shunichi Takeda, Yves Pommier. Cancer Res 2012
8

PharmacoDB: an integrative database for mining in vitro anticancer drug screening studies.
Petr Smirnov, Victor Kofia, Alexander Maru, Mark Freeman, Chantal Ho, Nehme El-Hachem, George-Alexandru Adam, Wail Ba-Alawi, Zhaleh Safikhani, Benjamin Haibe-Kains. Nucleic Acids Res 2018
71
11

Discovering the anti-cancer potential of non-oncology drugs by systematic viability profiling.
Steven M Corsello, Rohith T Nagari, Ryan D Spangler, Jordan Rossen, Mustafa Kocak, Jordan G Bryan, Ranad Humeidi, David Peck, Xiaoyun Wu, Andrew A Tang,[...]. Nat Cancer 2020
125
8

Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries.
Freddie Bray, Jacques Ferlay, Isabelle Soerjomataram, Rebecca L Siegel, Lindsey A Torre, Ahmedin Jemal. CA Cancer J Clin 2018
8

Organoid Modeling of the Tumor Immune Microenvironment.
James T Neal, Xingnan Li, Junjie Zhu, Valeria Giangarra, Caitlin L Grzeskowiak, Jihang Ju, Iris H Liu, Shin-Heng Chiou, Ameen A Salahudeen, Amber R Smith,[...]. Cell 2018
428
8

COSMIC: the Catalogue Of Somatic Mutations In Cancer.
John G Tate, Sally Bamford, Harry C Jubb, Zbyslaw Sondka, David M Beare, Nidhi Bindal, Harry Boutselakis, Charlotte G Cole, Celestino Creatore, Elisabeth Dawson,[...]. Nucleic Acids Res 2019
8

A comprehensive transcriptional portrait of human cancer cell lines.
Christiaan Klijn, Steffen Durinck, Eric W Stawiski, Peter M Haverty, Zhaoshi Jiang, Hanbin Liu, Jeremiah Degenhardt, Oleg Mayba, Florian Gnad, Jinfeng Liu,[...]. Nat Biotechnol 2015
367
7

Specific killing of BRCA2-deficient tumours with inhibitors of poly(ADP-ribose) polymerase.
Helen E Bryant, Niklas Schultz, Huw D Thomas, Kayan M Parker, Dan Flower, Elena Lopez, Suzanne Kyle, Mark Meuth, Nicola J Curtin, Thomas Helleday. Nature 2005
7

Computational correction of copy number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells.
Robin M Meyers, Jordan G Bryan, James M McFarland, Barbara A Weir, Ann E Sizemore, Han Xu, Neekesh V Dharia, Phillip G Montgomery, Glenn S Cowley, Sasha Pantel,[...]. Nat Genet 2017
642
7

limma powers differential expression analyses for RNA-sequencing and microarray studies.
Matthew E Ritchie, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, Gordon K Smyth. Nucleic Acids Res 2015
7

Revisiting inconsistency in large pharmacogenomic studies.
Zhaleh Safikhani, Petr Smirnov, Mark Freeman, Nehme El-Hachem, Adrian She, Quevedo Rene, Anna Goldenberg, Nicolai J Birkbak, Christos Hatzis, Leming Shi,[...]. F1000Res 2016
35
20

Prospective derivation of a living organoid biobank of colorectal cancer patients.
Marc van de Wetering, Hayley E Francies, Joshua M Francis, Gergana Bounova, Francesco Iorio, Apollo Pronk, Winan van Houdt, Joost van Gorp, Amaro Taylor-Weiner, Lennart Kester,[...]. Cell 2015
6

Targeting the DNA repair defect in BRCA mutant cells as a therapeutic strategy.
Hannah Farmer, Nuala McCabe, Christopher J Lord, Andrew N J Tutt, Damian A Johnson, Tobias B Richardson, Manuela Santarosa, Krystyna J Dillon, Ian Hickson, Charlotte Knights,[...]. Nature 2005
6

Patient-derived xenografts undergo mouse-specific tumor evolution.
Uri Ben-David, Gavin Ha, Yuen-Yi Tseng, Noah F Greenwald, Coyin Oh, Juliann Shih, James M McFarland, Bang Wong, Jesse S Boehm, Rameen Beroukhim,[...]. Nat Genet 2017
357
6

High-throughput screening using patient-derived tumor xenografts to predict clinical trial drug response.
Hui Gao, Joshua M Korn, Stéphane Ferretti, John E Monahan, Youzhen Wang, Mallika Singh, Chao Zhang, Christian Schnell, Guizhi Yang, Yun Zhang,[...]. Nat Med 2015
654
6

Targeting the DNA repair pathway in Ewing sarcoma.
Elizabeth Stewart, Ross Goshorn, Cori Bradley, Lyra M Griffiths, Claudia Benavente, Nathaniel R Twarog, Gregory M Miller, William Caufield, Burgess B Freeman, Armita Bahrami,[...]. Cell Rep 2014
106
6

Consistency in drug response profiling.
John Patrick Mpindi, Bhagwan Yadav, Päivi Östling, Prson Gautam, Disha Malani, Astrid Murumägi, Akira Hirasawa, Sara Kangaspeska, Krister Wennerberg, Olli Kallioniemi,[...]. Nature 2016
41
14

PharmacoGx: an R package for analysis of large pharmacogenomic datasets.
Petr Smirnov, Zhaleh Safikhani, Nehme El-Hachem, Dong Wang, Adrian She, Catharina Olsen, Mark Freeman, Heather Selby, Deena M A Gendoo, Patrick Grossmann,[...]. Bioinformatics 2016
105
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
6

A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles.
Aravind Subramanian, Rajiv Narayan, Steven M Corsello, David D Peck, Ted E Natoli, Xiaodong Lu, Joshua Gould, John F Davis, Andrew A Tubelli, Jacob K Asiedu,[...]. Cell 2017
957
6

Patient-derived organoids model treatment response of metastatic gastrointestinal cancers.
Georgios Vlachogiannis, Somaieh Hedayat, Alexandra Vatsiou, Yann Jamin, Javier Fernández-Mateos, Khurum Khan, Andrea Lampis, Katherine Eason, Ian Huntingford, Rosemary Burke,[...]. Science 2018
643
6

Cancer Drug Response Profile scan (CDRscan): A Deep Learning Model That Predicts Drug Effectiveness from Cancer Genomic Signature.
Yoosup Chang, Hyejin Park, Hyun-Jin Yang, Seungju Lee, Kwee-Yum Lee, Tae Soon Kim, Jongsun Jung, Jae-Min Shin. Sci Rep 2018
81
7

Improving prediction of phenotypic drug response on cancer cell lines using deep convolutional network.
Pengfei Liu, Hongjian Li, Shuai Li, Kwong-Sak Leung. BMC Bioinformatics 2019
30
20

Cancer cell lines for drug discovery and development.
Jennifer L Wilding, Walter F Bodmer. Cancer Res 2014
205
5

Chemosensitive Relapse in Small Cell Lung Cancer Proceeds through an EZH2-SLFN11 Axis.
Eric E Gardner, Benjamin H Lok, Valentina E Schneeberger, Patrice Desmeules, Linde A Miles, Paige K Arnold, Andy Ni, Inna Khodos, Elisa de Stanchina, Thuyen Nguyen,[...]. Cancer Cell 2017
221
5

Patient-derived xenograft models: an emerging platform for translational cancer research.
Manuel Hidalgo, Frederic Amant, Andrew V Biankin, Eva Budinská, Annette T Byrne, Carlos Caldas, Robert B Clarke, Steven de Jong, Jos Jonkers, Gunhild Mari Mælandsmo,[...]. Cancer Discov 2014
885
5

Putative DNA/RNA helicase Schlafen-11 (SLFN11) sensitizes cancer cells to DNA-damaging agents.
Gabriele Zoppoli, Marie Regairaz, Elisabetta Leo, William C Reinhold, Sudhir Varma, Alberto Ballestrero, James H Doroshow, Yves Pommier. Proc Natl Acad Sci U S A 2012
160
5

Predicting Anticancer Drug Responses Using a Dual-Layer Integrated Cell Line-Drug Network Model.
Naiqian Zhang, Haiyun Wang, Yun Fang, Jun Wang, Xiaoqi Zheng, X Shirley Liu. PLoS Comput Biol 2015
76
6

Improved survival with vemurafenib in melanoma with BRAF V600E mutation.
Paul B Chapman, Axel Hauschild, Caroline Robert, John B Haanen, Paolo Ascierto, James Larkin, Reinhard Dummer, Claus Garbe, Alessandro Testori, Michele Maio,[...]. N Engl J Med 2011
5

Patient-derived models of acquired resistance can identify effective drug combinations for cancer.
Adam S Crystal, Alice T Shaw, Lecia V Sequist, Luc Friboulet, Matthew J Niederst, Elizabeth L Lockerman, Rosa L Frias, Justin F Gainor, Arnaud Amzallag, Patricia Greninger,[...]. Science 2014
466
5

SLFN11 Is a Transcriptional Target of EWS-FLI1 and a Determinant of Drug Response in Ewing Sarcoma.
Sai-Wen Tang, Sven Bilke, Liang Cao, Junko Murai, Fabricio G Sousa, Mihoko Yamade, Vinodh Rajapakse, Sudhir Varma, Lee J Helman, Javed Khan,[...]. Clin Cancer Res 2015
62
8


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.