A citation-based method for searching scientific literature

Debyani Chakravarty, David B Solit. Nat Rev Genet 2021
Times Cited: 21







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



Times Cited
  Times     Co-cited
Similarity


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
9

The mutational footprints of cancer therapies.
Oriol Pich, Ferran Muiños, Martijn Paul Lolkema, Neeltje Steeghs, Abel Gonzalez-Perez, Nuria Lopez-Bigas. Nat Genet 2019
98
9

Accurate and efficient detection of gene fusions from RNA sequencing data.
Sebastian Uhrig, Julia Ellermann, Tatjana Walther, Pauline Burkhardt, Martina Fröhlich, Barbara Hutter, Umut H Toprak, Olaf Neumann, Albrecht Stenzinger, Claudia Scholl,[...]. Genome Res 2021
57
9

A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing.
Tyler S Alioto, Ivo Buchhalter, Sophia Derdak, Barbara Hutter, Matthew D Eldridge, Eivind Hovig, Lawrence E Heisler, Timothy A Beck, Jared T Simpson, Laurie Tonon,[...]. Nat Commun 2015
178
9

Conpair: concordance and contamination estimator for matched tumor-normal pairs.
Ewa A Bergmann, Bo-Juen Chen, Kanika Arora, Vladimir Vacic, Michael C Zody. Bioinformatics 2016
32
9

cgpCaVEManWrapper: Simple Execution of CaVEMan in Order to Detect Somatic Single Nucleotide Variants in NGS Data.
David Jones, Keiran M Raine, Helen Davies, Patrick S Tarpey, Adam P Butler, Jon W Teague, Serena Nik-Zainal, Peter J Campbell. Curr Protoc Bioinformatics 2016
92
9

Quantitative evidence for early metastatic seeding in colorectal cancer.
Zheng Hu, Jie Ding, Zhicheng Ma, Ruping Sun, Jose A Seoane, J Scott Shaffer, Carlos J Suarez, Anna S Berghoff, Chiara Cremolini, Alfredo Falcone,[...]. Nat Genet 2019
178
9

The cancer precision medicine knowledge base for structured clinical-grade mutations and interpretations.
Linda Huang, Helen Fernandes, Hamid Zia, Peyman Tavassoli, Hanna Rennert, David Pisapia, Marcin Imielinski, Andrea Sboner, Mark A Rubin, Michael Kluk,[...]. J Am Med Inform Assoc 2017
61
9

Molecular profiling of cancer patients enables personalized combination therapy: the I-PREDICT study.
Jason K Sicklick, Shumei Kato, Ryosuke Okamura, Maria Schwaederle, Michael E Hahn, Casey B Williams, Pradip De, Amy Krie, David E Piccioni, Vincent A Miller,[...]. Nat Med 2019
240
9

CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer.
Malachi Griffith, Nicholas C Spies, Kilannin Krysiak, Joshua F McMichael, Adam C Coffman, Arpad M Danos, Benjamin J Ainscough, Cody A Ramirez, Damian T Rieke, Lynzey Kujan,[...]. Nat Genet 2017
277
9

Accelerating Discovery of Functional Mutant Alleles in Cancer.
Matthew T Chang, Tripti Shrestha Bhattarai, Alison M Schram, Craig M Bielski, Mark T A Donoghue, Philip Jonsson, Debyani Chakravarty, Sarah Phillips, Cyriac Kandoth, Alexander Penson,[...]. Cancer Discov 2018
156
9

Accurate classification of BRCA1 variants with saturation genome editing.
Gregory M Findlay, Riza M Daza, Beth Martin, Melissa D Zhang, Anh P Leith, Molly Gasperini, Joseph D Janizek, Xingfan Huang, Lea M Starita, Jay Shendure. Nature 2018
296
9


Efficacy of Larotrectinib in TRK Fusion-Positive Cancers in Adults and Children.
Alexander Drilon, Theodore W Laetsch, Shivaani Kummar, Steven G DuBois, Ulrik N Lassen, George D Demetri, Michael Nathenson, Robert C Doebele, Anna F Farago, Alberto S Pappo,[...]. N Engl J Med 2018
9

Mutation Detection in Patients With Advanced Cancer by Universal Sequencing of Cancer-Related Genes in Tumor and Normal DNA vs Guideline-Based Germline Testing.
Diana Mandelker, Liying Zhang, Yelena Kemel, Zsofia K Stadler, Vijai Joseph, Ahmet Zehir, Nisha Pradhan, Angela Arnold, Michael F Walsh, Yirong Li,[...]. JAMA 2017
237
9

Yield and Utility of Germline Testing Following Tumor Sequencing in Patients With Cancer.
Stephen E Lincoln, Robert L Nussbaum, Allison W Kurian, Sarah M Nielsen, Kingshuk Das, Scott Michalski, Shan Yang, Nhu Ngo, Amie Blanco, Edward D Esplin. JAMA Netw Open 2020
32
9

Cancer genome landscapes.
Bert Vogelstein, Nickolas Papadopoulos, Victor E Velculescu, Shibin Zhou, Luis A Diaz, Kenneth W Kinzler. Science 2013
9


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
9

The emerging clinical relevance of genomics in cancer medicine.
Michael F Berger, Elaine R Mardis. Nat Rev Clin Oncol 2018
180
9

Enhanced specificity of clinical high-sensitivity tumor mutation profiling in cell-free DNA via paired normal sequencing using MSK-ACCESS.
A Rose Brannon, Gowtham Jayakumaran, Monica Diosdado, Juber Patel, Anna Razumova, Yu Hu, Fanli Meng, Mohammad Haque, Justyna Sadowska, Brian J Murphy,[...]. Nat Commun 2021
17
11

Clinical impact of subclonal EGFR T790M mutations in advanced-stage EGFR-mutant non-small-cell lung cancers.
Tereza Vaclova, Ursula Grazini, Lewis Ward, Daniel O'Neill, Aleksandra Markovets, Xiangning Huang, Juliann Chmielecki, Ryan Hartmaier, Kenneth S Thress, Paul D Smith,[...]. Nat Commun 2021
13
15

Crizotinib in ROS1-rearranged non-small-cell lung cancer.
Alice T Shaw, Sai-Hong I Ou, Yung-Jue Bang, D Ross Camidge, Benjamin J Solomon, Ravi Salgia, Gregory J Riely, Marileila Varella-Garcia, Geoffrey I Shapiro, Daniel B Costa,[...]. N Engl J Med 2014
9

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
9

Association of tumour mutational burden with outcomes in patients with advanced solid tumours treated with pembrolizumab: prospective biomarker analysis of the multicohort, open-label, phase 2 KEYNOTE-158 study.
Aurélien Marabelle, Marwan Fakih, Juanita Lopez, Manisha Shah, Ronnie Shapira-Frommer, Kazuhiko Nakagawa, Hyun Cheol Chung, Hedy L Kindler, Jose A Lopez-Martin, Wilson H Miller,[...]. Lancet Oncol 2020
579
9



NCCN Guidelines Insights: Prostate Cancer, Version 1.2021.
Edward Schaeffer, Sandy Srinivas, Emmanuel S Antonarakis, Andrew J Armstrong, Justin E Bekelman, Heather Cheng, Anthony Victor D'Amico, Brian J Davis, Neil Desai, Tanya Dorff,[...]. J Natl Compr Canc Netw 2021
98
9

Assessment of Clinical Benefit of Integrative Genomic Profiling in Advanced Solid Tumors.
Erin F Cobain, Yi-Mi Wu, Pankaj Vats, Rashmi Chugh, Francis Worden, David C Smith, Scott M Schuetze, Mark M Zalupski, Vaibhav Sahai, Ajjai Alva,[...]. JAMA Oncol 2021
35
9

Validation of a Plasma-Based Comprehensive Cancer Genotyping Assay Utilizing Orthogonal Tissue- and Plasma-Based Methodologies.
Justin I Odegaard, John J Vincent, Stefanie Mortimer, James V Vowles, Bryan C Ulrich, Kimberly C Banks, Stephen R Fairclough, Oliver A Zill, Marcin Sikora, Reza Mokhtari,[...]. Clin Cancer Res 2018
214
9

A Blood-based Assay for Assessment of Tumor Mutational Burden in First-line Metastatic NSCLC Treatment: Results from the MYSTIC Study.
Han Si, Michael Kuziora, Katie J Quinn, Elena Helman, Jiabu Ye, Feng Liu, Urban Scheuring, Solange Peters, Naiyer A Rizvi, Philip Z Brohawn,[...]. Clin Cancer Res 2021
32
9

White blood cell and cell-free DNA analyses for detection of residual disease in gastric cancer.
Alessandro Leal, Nicole C T van Grieken, Doreen N Palsgrove, Jillian Phallen, Jamie E Medina, Carolyn Hruban, Mark A M Broeckaert, Valsamo Anagnostou, Vilmos Adleff, Daniel C Bruhm,[...]. Nat Commun 2020
72
9

Integrative single-cell analysis.
Tim Stuart, Rahul Satija. Nat Rev Genet 2019
455
9

High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants.
Pedram Razavi, Bob T Li, David N Brown, Byoungsok Jung, Earl Hubbell, Ronglai Shen, Wassim Abida, Krishna Juluru, Ino De Bruijn, Chenlu Hou,[...]. Nat Med 2019
280
9

Liquid biopsy enters the clinic - implementation issues and future challenges.
Michail Ignatiadis, George W Sledge, Stefanie S Jeffrey. Nat Rev Clin Oncol 2021
188
9

GRIDSS: sensitive and specific genomic rearrangement detection using positional de Bruijn graph assembly.
Daniel L Cameron, Jan Schröder, Jocelyn Sietsma Penington, Hongdo Do, Ramyar Molania, Alexander Dobrovic, Terence P Speed, Anthony T Papenfuss. Genome Res 2017
116
9

Genome-wide cell-free DNA fragmentation in patients with cancer.
Stephen Cristiano, Alessandro Leal, Jillian Phallen, Jacob Fiksel, Vilmos Adleff, Daniel C Bruhm, Sarah Østrup Jensen, Jamie E Medina, Carolyn Hruban, James R White,[...]. Nature 2019
351
9

Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA.
Muhammed Murtaza, Sarah-Jane Dawson, Dana W Y Tsui, Davina Gale, Tim Forshew, Anna M Piskorz, Christine Parkinson, Suet-Feung Chin, Zoya Kingsbury, Alvin S C Wong,[...]. Nature 2013
9

Detection and localization of surgically resectable cancers with a multi-analyte blood test.
Joshua D Cohen, Lu Li, Yuxuan Wang, Christopher Thoburn, Bahman Afsari, Ludmila Danilova, Christopher Douville, Ammar A Javed, Fay Wong, Austin Mattox,[...]. Science 2018
9

Integrated digital error suppression for improved detection of circulating tumor DNA.
Aaron M Newman, Alexander F Lovejoy, Daniel M Klass, David M Kurtz, Jacob J Chabon, Florian Scherer, Henning Stehr, Chih Long Liu, Scott V Bratman, Carmen Say,[...]. Nat Biotechnol 2016
568
9

Genome Sequencing as an Alternative to Cytogenetic Analysis in Myeloid Cancers.
Eric J Duncavage, Molly C Schroeder, Michele O'Laughlin, Roxanne Wilson, Sandra MacMillan, Andrew Bohannon, Scott Kruchowski, John Garza, Feiyu Du, Andrew E O Hughes,[...]. N Engl J Med 2021
51
9

Genome Sequencing during a Patient's Journey through Cancer.
Jyoti Nangalia, Peter J Campbell. N Engl J Med 2019
34
9

Analytical Validation of Clinical Whole-Genome and Transcriptome Sequencing of Patient-Derived Tumors for Reporting Targetable Variants in Cancer.
Kazimierz O Wrzeszczynski, Vanessa Felice, Avinash Abhyankar, Lukasz Kozon, Heather Geiger, Dina Manaa, Ferrah London, Dino Robinson, Xiaolan Fang, David Lin,[...]. J Mol Diagn 2018
15
13

Clinical cancer genomic profiling by three-platform sequencing of whole genome, whole exome and transcriptome.
Michael Rusch, Joy Nakitandwe, Sheila Shurtleff, Scott Newman, Zhaojie Zhang, Michael N Edmonson, Matthew Parker, Yuannian Jiao, Xiaotu Ma, Yanling Liu,[...]. Nat Commun 2018
87
9

Clinical Validation of Whole Genome Sequencing for Cancer Diagnostics.
Paul Roepman, Ewart de Bruijn, Stef van Lieshout, Lieke Schoenmaker, Mirjam C Boelens, Hendrikus J Dubbink, Willemina R R Geurts-Giele, Floris H Groenendijk, Manon M H Huibers, Mariëtte E G Kranendonk,[...]. J Mol Diagn 2021
18
11

Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing.
Scott Newman, Joy Nakitandwe, Chimene A Kesserwan, Elizabeth M Azzato, David A Wheeler, Michael Rusch, Sheila Shurtleff, Dale J Hedges, Kayla V Hamilton, Scott G Foy,[...]. Cancer Discov 2021
22
9

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.
Sue Richards, Nazneen Aziz, Sherri Bale, David Bick, Soma Das, Julie Gastier-Foster, Wayne W Grody, Madhuri Hegde, Elaine Lyon, Elaine Spector,[...]. Genet Med 2015
9

Detection of circulating tumor DNA in early- and late-stage human malignancies.
Chetan Bettegowda, Mark Sausen, Rebecca J Leary, Isaac Kinde, Yuxuan Wang, Nishant Agrawal, Bjarne R Bartlett, Hao Wang, Brandon Luber, Rhoda M Alani,[...]. Sci Transl Med 2014
9

MALAT1 regulates miR-34a expression in melanoma cells.
Fei Li, Xinji Li, Li Qiao, Wen Liu, Chengshan Xu, Xiaogang Wang. Cell Death Dis 2019
27
4



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.