A citation-based method for searching scientific literature

Andrew McPherson, Andrew Roth, Emma Laks, Tehmina Masud, Ali Bashashati, Allen W Zhang, Gavin Ha, Justina Biele, Damian Yap, Adrian Wan, Leah M Prentice, Jaswinder Khattra, Maia A Smith, Cydney B Nielsen, Sarah C Mullaly, Steve Kalloger, Anthony Karnezis, Karey Shumansky, Celia Siu, Jamie Rosner, Hector Li Chan, Julie Ho, Nataliya Melnyk, Janine Senz, Winnie Yang, Richard Moore, Andrew J Mungall, Marco A Marra, Alexandre Bouchard-Côté, C Blake Gilks, David G Huntsman, Jessica N McAlpine, Samuel Aparicio, Sohrab P Shah. Nat Genet 2016
Times Cited: 181







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



Times Cited
  Times     Co-cited
Similarity


PyClone: statistical inference of clonal population structure in cancer.
Andrew Roth, Jaswinder Khattra, Damian Yap, Adrian Wan, Emma Laks, Justina Biele, Gavin Ha, Samuel Aparicio, Alexandre Bouchard-Côté, Sohrab P Shah. Nat Methods 2014
531
26

Tracking the Evolution of Non-Small-Cell Lung Cancer.
Mariam Jamal-Hanjani, Gareth A Wilson, Nicholas McGranahan, Nicolai J Birkbak, Thomas B K Watkins, Selvaraju Veeriah, Seema Shafi, Diana H Johnson, Richard Mitter, Rachel Rosenthal,[...]. N Engl J Med 2017
25

The evolutionary history of lethal metastatic prostate cancer.
Gunes Gundem, Peter Van Loo, Barbara Kremeyer, Ludmil B Alexandrov, Jose M C Tubio, Elli Papaemmanuil, Daniel S Brewer, Heini M L Kallio, Gunilla Högnäs, Matti Annala,[...]. Nature 2015
820
23

Intratumor heterogeneity and branched evolution revealed by multiregion sequencing.
Marco Gerlinger, Andrew J Rowan, Stuart Horswell, M Math, James Larkin, David Endesfelder, Eva Gronroos, Pierre Martinez, Nicholas Matthews, Aengus Stewart,[...]. N Engl J Med 2012
22


The life history of 21 breast cancers.
Serena Nik-Zainal, Peter Van Loo, David C Wedge, Ludmil B Alexandrov, Christopher D Greenman, King Wai Lau, Keiran Raine, David Jones, John Marshall, Manasa Ramakrishna,[...]. Cell 2012
875
20


PhyloWGS: reconstructing subclonal composition and evolution from whole-genome sequencing of tumors.
Amit G Deshwar, Shankar Vembu, Christina K Yung, Gun Ho Jang, Lincoln Stein, Quaid Morris. Genome Biol 2015
204
18

Clonal evolution in breast cancer revealed by single nucleus genome sequencing.
Yong Wang, Jill Waters, Marco L Leung, Anna Unruh, Whijae Roh, Xiuqing Shi, Ken Chen, Paul Scheet, Selina Vattathil, Han Liang,[...]. Nature 2014
635
17

Whole-genome characterization of chemoresistant ovarian cancer.
Ann-Marie Patch, Elizabeth L Christie, Dariush Etemadmoghadam, Dale W Garsed, Joshy George, Sian Fereday, Katia Nones, Prue Cowin, Kathryn Alsop, Peter J Bailey,[...]. Nature 2015
842
16

Subclonal diversification of primary breast cancer revealed by multiregion sequencing.
Lucy R Yates, Moritz Gerstung, Stian Knappskog, Christine Desmedt, Gunes Gundem, Peter Van Loo, Turid Aas, Ludmil B Alexandrov, Denis Larsimont, Helen Davies,[...]. Nat Med 2015
483
15


Tree inference for single-cell data.
Katharina Jahn, Jack Kuipers, Niko Beerenwinkel. Genome Biol 2016
130
15

Clonal evolution in cancer.
Mel Greaves, Carlo C Maley. Nature 2012
14

The evolutionary history of 2,658 cancers.
Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C Dentro, Santiago Gonzalez, Daniel Rosebrock, Thomas J Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu,[...]. Nature 2020
304
14

Spatial and temporal heterogeneity in high-grade serous ovarian cancer: a phylogenetic analysis.
Roland F Schwarz, Charlotte K Y Ng, Susanna L Cooke, Scott Newman, Jillian Temple, Anna M Piskorz, Davina Gale, Karen Sayal, Muhammed Murtaza, Peter J Baldwin,[...]. PLoS Med 2015
217
13

SciClone: inferring clonal architecture and tracking the spatial and temporal patterns of tumor evolution.
Christopher A Miller, Brian S White, Nathan D Dees, Malachi Griffith, John S Welch, Obi L Griffith, Ravi Vij, Michael H Tomasson, Timothy A Graubert, Matthew J Walter,[...]. PLoS Comput Biol 2014
272
13

Signatures of mutational processes in human cancer.
Ludmil B Alexandrov, Serena Nik-Zainal, David C Wedge, Samuel A J R Aparicio, Sam Behjati, Andrew V Biankin, Graham R Bignell, Niccolò Bolli, Ake Borg, Anne-Lise Børresen-Dale,[...]. Nature 2013
13

Tracking Cancer Evolution Reveals Constrained Routes to Metastases: TRACERx Renal.
Samra Turajlic, Hang Xu, Kevin Litchfield, Andrew Rowan, Tim Chambers, Jose I Lopez, David Nicol, Tim O'Brien, James Larkin, Stuart Horswell,[...]. Cell 2018
365
13

Deterministic Evolutionary Trajectories Influence Primary Tumor Growth: TRACERx Renal.
Samra Turajlic, Hang Xu, Kevin Litchfield, Andrew Rowan, Stuart Horswell, Tim Chambers, Tim O'Brien, Jose I Lopez, Thomas B K Watkins, David Nicol,[...]. Cell 2018
275
13

Tumour evolution inferred by single-cell sequencing.
Nicholas Navin, Jude Kendall, Jennifer Troge, Peter Andrews, Linda Rodgers, Jeanne McIndoo, Kerry Cook, Asya Stepansky, Dan Levy, Diane Esposito,[...]. Nature 2011
13

OncoNEM: inferring tumor evolution from single-cell sequencing data.
Edith M Ross, Florian Markowetz. Genome Biol 2016
117
13

Distinct evolutionary trajectories of primary high-grade serous ovarian cancers revealed through spatial mutational profiling.
Ali Bashashati, Gavin Ha, Alicia Tone, Jiarui Ding, Leah M Prentice, Andrew Roth, Jamie Rosner, Karey Shumansky, Steve Kalloger, Janine Senz,[...]. J Pathol 2013
277
12

Distant metastasis occurs late during the genetic evolution of pancreatic cancer.
Shinichi Yachida, Siân Jones, Ivana Bozic, Tibor Antal, Rebecca Leary, Baojin Fu, Mihoko Kamiyama, Ralph H Hruban, James R Eshleman, Martin A Nowak,[...]. Nature 2010
12

Spatial and temporal diversity in genomic instability processes defines lung cancer evolution.
Elza C de Bruin, Nicholas McGranahan, Richard Mitter, Max Salm, David C Wedge, Lucy Yates, Mariam Jamal-Hanjani, Seema Shafi, Nirupa Murugaesu, Andrew J Rowan,[...]. Science 2014
715
12

Dissecting the clonal origins of childhood acute lymphoblastic leukemia by single-cell genomics.
Charles Gawad, Winston Koh, Stephen R Quake. Proc Natl Acad Sci U S A 2014
171
12

The causes and consequences of genetic heterogeneity in cancer evolution.
Rebecca A Burrell, Nicholas McGranahan, Jiri Bartek, Charles Swanton. Nature 2013
11

Pan-cancer analysis of the extent and consequences of intratumor heterogeneity.
Noemi Andor, Trevor A Graham, Marnix Jansen, Li C Xia, C Athena Aktipis, Claudia Petritsch, Hanlee P Ji, Carlo C Maley. Nat Med 2016
438
11

Single-cell genome sequencing: current state of the science.
Charles Gawad, Winston Koh, Stephen R Quake. Nat Rev Genet 2016
639
11


Fast and scalable inference of multi-sample cancer lineages.
Victoria Popic, Raheleh Salari, Iman Hajirasouliha, Dorna Kashef-Haghighi, Robert B West, Serafim Batzoglou. Genome Biol 2015
110
10

Multiclonal Invasion in Breast Tumors Identified by Topographic Single Cell Sequencing.
Anna K Casasent, Aislyn Schalck, Ruli Gao, Emi Sei, Annalyssa Long, William Pangburn, Tod Casasent, Funda Meric-Bernstam, Mary E Edgerton, Nicholas E Navin. Cell 2018
188
10

Clonal genotype and population structure inference from single-cell tumor sequencing.
Andrew Roth, Andrew McPherson, Emma Laks, Justina Biele, Damian Yap, Adrian Wan, Maia A Smith, Cydney B Nielsen, Jessica N McAlpine, Samuel Aparicio,[...]. Nat Methods 2016
61
16

Scalable whole-genome single-cell library preparation without preamplification.
Hans Zahn, Adi Steif, Emma Laks, Peter Eirew, Michael VanInsberghe, Sohrab P Shah, Samuel Aparicio, Carl L Hansen. Nat Methods 2017
78
12

Interfaces of Malignant and Immunologic Clonal Dynamics in Ovarian Cancer.
Allen W Zhang, Andrew McPherson, Katy Milne, David R Kroeger, Phineas T Hamilton, Alex Miranda, Tyler Funnell, Nicole Little, Camila P E de Souza, Sonya Laan,[...]. Cell 2018
166
10

Inferring parsimonious migration histories for metastatic cancers.
Mohammed El-Kebir, Gryte Satas, Benjamin J Raphael. Nat Genet 2018
51
19

Reconstruction of clonal trees and tumor composition from multi-sample sequencing data.
Mohammed El-Kebir, Layla Oesper, Hannah Acheson-Field, Benjamin J Raphael. Bioinformatics 2015
89
11

SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models.
Hamim Zafar, Anthony Tzen, Nicholas Navin, Ken Chen, Luay Nakhleh. Genome Biol 2017
68
14

Single-cell DNA sequencing reveals a late-dissemination model in metastatic colorectal cancer.
Marco L Leung, Alexander Davis, Ruli Gao, Anna Casasent, Yong Wang, Emi Sei, Eduardo Vilar, Dipen Maru, Scott Kopetz, Nicholas E Navin. Genome Res 2017
113
10

Clonal Decomposition and DNA Replication States Defined by Scaled Single-Cell Genome Sequencing.
Emma Laks, Andrew McPherson, Hans Zahn, Daniel Lai, Adi Steif, Jazmine Brimhall, Justina Biele, Beixi Wang, Tehmina Masud, Jerome Ting,[...]. Cell 2019
64
15

Single-cell sequencing data reveal widespread recurrence and loss of mutational hits in the life histories of tumors.
Jack Kuipers, Katharina Jahn, Benjamin J Raphael, Niko Beerenwinkel. Genome Res 2017
56
17

Absolute quantification of somatic DNA alterations in human cancer.
Scott L Carter, Kristian Cibulskis, Elena Helman, Aaron McKenna, Hui Shen, Travis Zack, Peter W Laird, Robert C Onofrio, Wendy Winckler, Barbara A Weir,[...]. Nat Biotechnol 2012
9

Metastasis as an evolutionary process.
Samra Turajlic, Charles Swanton. Science 2016
312
9

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples.
Kristian Cibulskis, Michael S Lawrence, Scott L Carter, Andrey Sivachenko, David Jaffe, Carrie Sougnez, Stacey Gabriel, Matthew Meyerson, Eric S Lander, Gad Getz. Nat Biotechnol 2013
9

Reconstructing metastatic seeding patterns of human cancers.
Johannes G Reiter, Alvin P Makohon-Moore, Jeffrey M Gerold, Ivana Bozic, Krishnendu Chatterjee, Christine A Iacobuzio-Donahue, Bert Vogelstein, Martin A Nowak. Nat Commun 2017
72
12

TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data.
Gavin Ha, Andrew Roth, Jaswinder Khattra, Julie Ho, Damian Yap, Leah M Prentice, Nataliya Melnyk, Andrew McPherson, Ali Bashashati, Emma Laks,[...]. Genome Res 2014
182
9

Genomic architecture and evolution of clear cell renal cell carcinomas defined by multiregion sequencing.
Marco Gerlinger, Stuart Horswell, James Larkin, Andrew J Rowan, Max P Salm, Ignacio Varela, Rosalie Fisher, Nicholas McGranahan, Nicholas Matthews, Claudio R Santos,[...]. Nat Genet 2014
836
9

Single-cell exome sequencing reveals single-nucleotide mutation characteristics of a kidney tumor.
Xun Xu, Yong Hou, Xuyang Yin, Li Bao, Aifa Tang, Luting Song, Fuqiang Li, Shirley Tsang, Kui Wu, Hanjie Wu,[...]. Cell 2012
438
9

Identification of neutral tumor evolution across cancer types.
Marc J Williams, Benjamin Werner, Chris P Barnes, Trevor A Graham, Andrea Sottoriva. Nat Genet 2016
313
9

High-definition reconstruction of clonal composition in cancer.
Andrej Fischer, Ignacio Vázquez-García, Christopher J R Illingworth, Ville Mustonen. Cell Rep 2014
106
9


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.