A citation-based method for searching scientific literature

Rafael R Bravo, Etienne Baratchart, Jeffrey West, Ryan O Schenck, Anna K Miller, Jill Gallaher, Chandler D Gatenbee, David Basanta, Mark Robertson-Tessi, Alexander R A Anderson. PLoS Comput Biol 2020
Times Cited: 26







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



Times Cited
  Times     Co-cited
Similarity


PhysiCell: An open source physics-based cell simulator for 3-D multicellular systems.
Ahmadreza Ghaffarizadeh, Randy Heiland, Samuel H Friedman, Shannon M Mumenthaler, Paul Macklin. PLoS Comput Biol 2018
121
34

A Review of Cell-Based Computational Modeling in Cancer Biology.
John Metzcar, Yafei Wang, Randy Heiland, Paul Macklin. JCO Clin Cancer Inform 2019
111
23

Multi-scale modeling of tissues using CompuCell3D.
Maciej H Swat, Gilberto L Thomas, Julio M Belmonte, Abbas Shirinifard, Dimitrij Hmeljak, James A Glazier. Methods Cell Biol 2012
210
19

Impact of metabolic heterogeneity on tumor growth, invasion, and treatment outcomes.
Mark Robertson-Tessi, Robert J Gillies, Robert A Gatenby, Alexander R A Anderson. Cancer Res 2015
154
19

EvoFreq: visualization of the Evolutionary Frequencies of sequence and model data.
Chandler D Gatenbee, Ryan O Schenck, Rafael R Bravo, Alexander R A Anderson. BMC Bioinformatics 2019
9
55

Spatial Heterogeneity and Evolutionary Dynamics Modulate Time to Recurrence in Continuous and Adaptive Cancer Therapies.
Jill A Gallaher, Pedro M Enriquez-Navas, Kimberly A Luddy, Robert A Gatenby, Alexander R A Anderson. Cancer Res 2018
94
19

Spatial competition constrains resistance to targeted cancer therapy.
Katarina Bacevic, Robert Noble, Ahmed Soffar, Orchid Wael Ammar, Benjamin Boszonyik, Susana Prieto, Charles Vincent, Michael E Hochberg, Liliana Krasinska, Daniel Fisher. Nat Commun 2017
49
19

Defining Cancer Subpopulations by Adaptive Strategies Rather Than Molecular Properties Provides Novel Insights into Intratumoral Evolution.
Arig Ibrahim-Hashim, Mark Robertson-Tessi, Pedro M Enriquez-Navas, Mehdi Damaghi, Yoganand Balagurunathan, Jonathan W Wojtkowiak, Shonagh Russell, Kam Yoonseok, Mark C Lloyd, Marilyn M Bui,[...]. Cancer Res 2017
65
15

Chaste: an open source C++ library for computational physiology and biology.
Gary R Mirams, Christopher J Arthurs, Miguel O Bernabeu, Rafel Bordas, Jonathan Cooper, Alberto Corrias, Yohan Davit, Sara-Jane Dunn, Alexander G Fletcher, Daniel G Harvey,[...]. PLoS Comput Biol 2013
181
15

Morpheus: a user-friendly modeling environment for multiscale and multicellular systems biology.
Jörn Starruß, Walter de Back, Lutz Brusch, Andreas Deutsch. Bioinformatics 2014
116
15

A Big Bang model of human colorectal tumor growth.
Andrea Sottoriva, Haeyoun Kang, Zhicheng Ma, Trevor A Graham, Matthew P Salomon, Junsong Zhao, Paul Marjoram, Kimberly Siegmund, Michael F Press, Darryl Shibata,[...]. Nat Genet 2015
609
15

Comparing individual-based approaches to modelling the self-organization of multicellular tissues.
James M Osborne, Alexander G Fletcher, Joe M Pitt-Francis, Philip K Maini, David J Gavaghan. PLoS Comput Biol 2017
83
15

Towards Multidrug Adaptive Therapy.
Jeffrey West, Li You, Jingsong Zhang, Robert A Gatenby, Joel S Brown, Paul K Newton, Alexander R A Anderson. Cancer Res 2020
66
15

Identification of neutral tumor evolution across cancer types.
Marc J Williams, Benjamin Werner, Chris P Barnes, Trevor A Graham, Andrea Sottoriva. Nat Genet 2016
330
15

Quantification of subclonal selection in cancer from bulk sequencing data.
Marc J Williams, Benjamin Werner, Timon Heide, Christina Curtis, Chris P Barnes, Andrea Sottoriva, Trevor A Graham. Nat Genet 2018
124
15


Normal tissue architecture determines the evolutionary course of cancer.
Jeffrey West, Ryan O Schenck, Chandler Gatenbee, Mark Robertson-Tessi, Alexander R A Anderson. Nat Commun 2021
22
18

Spatial competition shapes the dynamic mutational landscape of normal esophageal epithelium.
Bartomeu Colom, Maria P Alcolea, Gabriel Piedrafita, Michael W J Hall, Agnieszka Wabik, Stefan C Dentro, Joanna C Fowler, Albert Herms, Charlotte King, Swee Hoe Ong,[...]. Nat Genet 2020
58
15

PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling.
Gaelle Letort, Arnau Montagud, Gautier Stoll, Randy Heiland, Emmanuel Barillot, Paul Macklin, Andrei Zinovyev, Laurence Calzone. Bioinformatics 2019
39
11

Inferring Growth Control Mechanisms in Growing Multi-cellular Spheroids of NSCLC Cells from Spatial-Temporal Image Data.
Nick Jagiella, Benedikt Müller, Margareta Müller, Irene E Vignon-Clementel, Dirk Drasdo. PLoS Comput Biol 2016
41
11

Integrative mathematical oncology.
Alexander R A Anderson, Vito Quaranta. Nat Rev Cancer 2008
229
11

Multiscale cancer modeling.
Thomas S Deisboeck, Zhihui Wang, Paul Macklin, Vittorio Cristini. Annu Rev Biomed Eng 2011
204
11

BioFVM: an efficient, parallelized diffusive transport solver for 3-D biological simulations.
Ahmadreza Ghaffarizadeh, Samuel H Friedman, Paul Macklin. Bioinformatics 2016
29
11

The 2019 mathematical oncology roadmap.
Russell C Rockne, Andrea Hawkins-Daarud, Kristin R Swanson, James P Sluka, James A Glazier, Paul Macklin, David A Hormuth, Angela M Jarrett, Ernesto A B F Lima, J Tinsley Oden,[...]. Phys Biol 2019
69
11

Intratumor Heterogeneity: The Rosetta Stone of Therapy Resistance.
Andriy Marusyk, Michalina Janiszewska, Kornelia Polyak. Cancer Cell 2020
212
11

A spatial model predicts that dispersal and cell turnover limit intratumour heterogeneity.
Bartlomiej Waclaw, Ivana Bozic, Meredith E Pittman, Ralph H Hruban, Bert Vogelstein, Martin A Nowak. Nature 2015
285
11

The impact of proliferation-migration tradeoffs on phenotypic evolution in cancer.
Jill A Gallaher, Joel S Brown, Alexander R A Anderson. Sci Rep 2019
41
11

Currently available bulk sequencing data do not necessarily support a model of neutral tumor evolution.
Thomas O McDonald, Shaon Chakrabarti, Franziska Michor. Nat Genet 2018
22
13

A computational multiscale agent-based model for simulating spatio-temporal tumour immune response to PD1 and PDL1 inhibition.
Chang Gong, Oleg Milberg, Bing Wang, Paolo Vicini, Rajesh Narwal, Lorin Roskos, Aleksander S Popel. J R Soc Interface 2017
69
11

Agent-based modeling of morphogenetic systems: Advantages and challenges.
Chad M Glen, Melissa L Kemp, Eberhard O Voit. PLoS Comput Biol 2019
35
11

Tumor evolution. High burden and pervasive positive selection of somatic mutations in normal human skin.
Iñigo Martincorena, Amit Roshan, Moritz Gerstung, Peter Ellis, Peter Van Loo, Stuart McLaren, David C Wedge, Anthony Fullam, Ludmil B Alexandrov, Jose M Tubio,[...]. Science 2015
955
11

Multidrug Cancer Therapy in Metastatic Castrate-Resistant Prostate Cancer: An Evolution-Based Strategy.
Jeffrey B West, Mina N Dinh, Joel S Brown, Jingsong Zhang, Alexander R Anderson, Robert A Gatenby. Clin Cancer Res 2019
43
11

Exploiting evolutionary principles to prolong tumor control in preclinical models of breast cancer.
Pedro M Enriquez-Navas, Yoonseok Kam, Tuhin Das, Sabrina Hassan, Ariosto Silva, Parastou Foroutan, Epifanio Ruiz, Gary Martinez, Susan Minton, Robert J Gillies,[...]. Sci Transl Med 2016
179
11

Adaptive Therapy for Metastatic Melanoma: Predictions from Patient Calibrated Mathematical Models.
Eunjung Kim, Joel S Brown, Zeynep Eroglu, Alexander R A Anderson. Cancers (Basel) 2021
12
25

Integrating evolutionary dynamics into treatment of metastatic castrate-resistant prostate cancer.
Jingsong Zhang, Jessica J Cunningham, Joel S Brown, Robert A Gatenby. Nat Commun 2017
219
11

Turnover Modulates the Need for a Cost of Resistance in Adaptive Therapy.
Maximilian A R Strobl, Jeffrey West, Yannick Viossat, Mehdi Damaghi, Mark Robertson-Tessi, Joel S Brown, Robert A Gatenby, Philip K Maini, Alexander R A Anderson. Cancer Res 2021
22
13

A change of strategy in the war on cancer.
Robert A Gatenby. Nature 2009
216
11

A theoretical analysis of tumour containment.
Yannick Viossat, Robert Noble. Nat Ecol Evol 2021
17
17

Adaptive therapy.
Robert A Gatenby, Ariosto S Silva, Robert J Gillies, B Roy Frieden. Cancer Res 2009
445
11

Spatial structure governs the mode of tumour evolution.
Robert Noble, Dominik Burri, Cécile Le Sueur, Jeanne Lemant, Yannick Viossat, Jakob Nikolas Kather, Niko Beerenwinkel. Nat Ecol Evol 2022
20
15

Prostate-specific antigen dynamics predict individual responses to intermittent androgen deprivation.
Renee Brady-Nicholls, John D Nagy, Travis A Gerke, Tian Zhang, Andrew Z Wang, Jingsong Zhang, Robert A Gatenby, Heiko Enderling. Nat Commun 2020
34
11

Spatial structure impacts adaptive therapy by shaping intra-tumoral competition.
Maximilian A R Strobl, Jill Gallaher, Jeffrey West, Mark Robertson-Tessi, Philip K Maini, Alexander R A Anderson. Commun Med (Lond) 2022
8
37

Gattaca: Base-Pair Resolution Mutation Tracking for Somatic Evolution Studies using Agent-based Models.
Ryan O Schenck, Gabriel Brosula, Jeffrey West, Simon Leedham, Darryl Shibata, Alexander R A Anderson. Mol Biol Evol 2022
3
100


In Silico Modeling of Immunotherapy and Stroma-Targeting Therapies in Human Colorectal Cancer.
Jakob Nikolas Kather, Jan Poleszczuk, Meggy Suarez-Carmona, Johannes Krisam, Pornpimol Charoentong, Nektarios A Valous, Cleo-Aron Weis, Luca Tavernar, Florian Leiss, Esther Herpel,[...]. Cancer Res 2017
53
7

Tumor morphology and phenotypic evolution driven by selective pressure from the microenvironment.
Alexander R A Anderson, Alissa M Weaver, Peter T Cummings, Vito Quaranta. Cell 2006
441
7


Intra-tumour heterogeneity: a looking glass for cancer?
Andriy Marusyk, Vanessa Almendro, Kornelia Polyak. Nat Rev Cancer 2012
7

Stochastic state transitions give rise to phenotypic equilibrium in populations of cancer cells.
Piyush B Gupta, Christine M Fillmore, Guozhi Jiang, Sagi D Shapira, Kai Tao, Charlotte Kuperwasser, Eric S Lander. Cell 2011
980
7

Clonal evolution in cancer.
Mel Greaves, Carlo C Maley. Nature 2012
7


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.