Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: cran: ActiveDriver
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/ActiveDriver
Finding Cancer Driver Proteins with Enriched Mutations in
Post-Translational Modification Sites
1 version
Latest release: about 7 years ago
241 downloads last month
Papers Mentioning ActiveDriver 29
10.1186/s12864-017-4423-x
Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysisCited by: 31
Author(s): Claudia Cava, Gloria Bertoli, Antonio Colaprico, Catharina Olsen, Gianluca Bontempi, Isabella Castiglioni
Software Mentions: 12
Published: over 6 years ago
10.15252/msb.20177974
Systematic characterization of pan‐cancer mutation clustersCited by: 31
Author(s): Marija Buljan, Peter Blattmann, Ruedi Aebersold, Michael Boutros
Software Mentions: 6
Published: over 6 years ago
10.1371/journal.pcbi.1007520
A novel network control model for identifying personalized driver genes in cancerCited by: 39
Author(s): Weifeng Guo, Shao-Wu Zhang, Tao Zeng, Yan Li, Jianxi Gao, Luonan Chen
Software Mentions: 5
Published: almost 5 years ago
10.1016/j.cels.2020.06.005
PertInInt: An Integrative, Analytical Approach to Rapidly Uncover Cancer Driver Genes with Perturbed Interactions and FunctionalitiesCited by: 7
Author(s): Shilpa Nadimpalli Kobren, Bernard Chazelle, Mona Singh
Software Mentions: 5
Published: about 4 years ago
10.3389/fgene.2020.564839
FI-Net: Identification of Cancer Driver Genes by Using Functional Impact Prediction Neural NetworkCited by: 6
Author(s): Hong Gu, Xin Xu, Pan Qin, Jia Wang
Software Mentions: 4
Published: almost 4 years ago
10.3389/fmolb.2021.671309
Cancer-Associated circRNA–miRNA–mRNA Regulatory Networks: A Meta-AnalysisCited by: 21
Author(s): Shaheerah Khan, Atimukta Jha, Amaresh C. Panda, Anshuman Dixit
Software Mentions: 4
Published: over 3 years ago
10.3389/fmolb.2019.00044
Integration of Random Forest Classifiers and Deep Convolutional Neural Networks for Classification and Biomolecular Modeling of Cancer Driver MutationsCited by: 34
Author(s): Steve Agajanian, Oluyemi Odeyemi, Gennady M. Verkhivker
Software Mentions: 4
Published: over 5 years ago
10.1371/journal.pcbi.1007381
LOTUS: A single- and multitask machine learning algorithm for the prediction of cancer driver genesCited by: 25
Author(s): Olivier Collier, Véronique Stoven, Jean-Philippe Vert
Software Mentions: 3
Published: almost 5 years ago
10.1186/s13059-016-0989-x
MUFFINN: cancer gene discovery via network analysis of somatic mutation dataCited by: 118
Author(s): Ara Cho, Jung Eun Shim, Eiru Kim, Fran Supek, Ben Lehner, Insuk Lee
Software Mentions: 3
Published: about 8 years ago
10.1186/s13073-016-0390-0
iCAGES: integrated CAncer GEnome Score for comprehensively prioritizing driver genes in personal cancer genomesCited by: 46
Author(s): Chengliang Dong, Yunfei Guo, Hui Yang, Zhike He, Xiaoming Liu, Kai Wang
Software Mentions: 3
Published: almost 8 years ago
10.7150/thno.52670
Computational methods for cancer driver discovery: A surveyCited by: 16
Author(s): Vu Viet Hoang Pham, Lin Liu, Cameron P. Bracken, Gregory J. Goodall, Jiuyong Li, Thuc Duy Le
Software Mentions: 2
Published: over 3 years ago
10.1186/s12864-019-6425-3
Natural and pathogenic protein sequence variation affecting prion-like domains within and across human proteomesCited by: 5
Author(s): Sean M. Cascarina, Eric D. Ross
Software Mentions: 2
Published: over 4 years ago
10.1186/1471-2164-16-S8-S7
Computational methods and resources for the interpretation of genomic variants in cancerCited by: 18
Author(s): Rui Tian, Malay Kumar Basu, Emidio Capriotti
Software Mentions: 2
Published: about 9 years ago
10.1371/journal.pcbi.1007538
CBNA: A control theory based method for identifying coding and non-coding cancer driversCited by: 20
Author(s): Vu Viet Hoang Pham, Lin Liu, Cameron P. Bracken, Gregory J. Goodall, Qi Long, Jiuyong Li, Thuc Duy Le
Software Mentions: 2
Published: almost 5 years ago
10.1371/journal.pone.0156665
Computational Identification of Novel Stage-Specific Biomarkers in Colorectal Cancer ProgressionCited by: 53
Author(s): Ashok Palaniappan, Karthick Ramar, Satish Ramalingam
Software Mentions: 2
Published: over 8 years ago
10.3389/fcell.2021.626821
ActiveDriverDB: Interpreting Genetic Variation in Human and Cancer Genomes Using Post-translational Modification Sites and Signaling Networks (2021 Update)Cited by: 12
Author(s): Michal Krassowski, Diogo Vieira da Silva Pellegrina, Miles W Mee, Amélie Fradet-Turcotte, Mamatha Bhat, Jüri Reimand
Software Mentions: 2
Published: over 3 years ago
10.1186/s13073-021-00830-0
Pan-cancer detection of driver genes at the single-patient resolutionCited by: 12
Author(s): Joel Nulsen, Hrvoje Mišetić, Christopher Yau, Francesca D. Ciccarelli
Software Mentions: 2
Published: over 3 years ago
10.1038/srep10204
Evaluation and integration of cancer gene classifiers: identification and ranking of plausible driversCited by: 20
Author(s): Yang Liu, Feng Tian, Zhenjun Hu, Charles DeLisi
Software Mentions: 2
Published: over 9 years ago
10.1038/srep38988
Driver gene classification reveals a substantial overrepresentation of tumor suppressors among very large chromatin-regulating proteinsCited by: 18
Author(s): Zeev Waks, Omer Weissbrod, Boaz Carmeli, Raquel Norel, Filippo Utro, Yaara Goldschmidt
Software Mentions: 2
Published: over 7 years ago
10.1186/s12859-015-0555-7
SomInaClust: detection of cancer genes based on somatic mutation patterns of inactivation and clusteringCited by: 35
Author(s): Jimmy Van den Eynden, Ana Carolina Fierro, Lieven P. C. Verbeke, Kathleen Marchal
Software Mentions: 2
Published: over 9 years ago
10.3390/molecules23051114
Identifying Cancer Specific Driver Modules Using a Network-Based MethodCited by: 5
Author(s): Feng Li, Lin Gao, Peizhuo Wang, Yuxuan Hu
Software Mentions: 1
Published: over 6 years ago
10.1186/gm563
DOTS-Finder: a comprehensive tool for assessing driver genes in cancer genomesCited by: 26
Author(s): Giorgio Melloni, Alessandro G. E. Ogier, Stefano de Pretis, Luca Mazzarella, Mattia Pelizzola, Pier Giuseppe Pelicci, Laura Riva
Software Mentions: 1
Published: over 10 years ago
10.1186/s13073-016-0311-2
Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancerCited by: 38
Author(s): Soumil Narayan, Gary D. Bader, Jüri Reimand
Software Mentions: 1
Published: over 8 years ago
10.1186/s12864-020-06895-2
KSP: an integrated method for predicting catalyzing kinases of phosphorylation sites in proteinsCited by: 6
Author(s): Hongli Ma, Guojun Li, Zhengchang Su
Software Mentions: 1
Published: about 4 years ago
10.1038/srep02651
The mutational landscape of phosphorylation signaling in cancerCited by: 139
Author(s): Jüri Reimand, Omar Wagih, Gary D. Bader
Software Mentions: 1
Published: almost 11 years ago
10.3389/fcell.2020.593661
PTMsnp: A Web Server for the Identification of Driver Mutations That Affect Protein Post-translational ModificationCited by: 5
Author(s): Di Peng, Huiqin Li, Bosu Hu, Hongwan Zhang, Li Chen, Shaofeng Lin, Zhixiang Zuo, Yu Xue, Yubin Xie
Software Mentions: 1
Published: almost 4 years ago
10.3389/fgene.2019.00013
deepDriver: Predicting Cancer Driver Genes Based on Somatic Mutations Using Deep Convolutional Neural NetworksCited by: 63
Author(s): Ping Luo, Yulian Ding, Xiujuan Lei, Fang‐Xiang Wu
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pgen.1004919
Evolutionary Constraint and Disease Associations of Post-Translational Modification Sites in Human GenomesCited by: 65
Author(s): Jüri Reimand, Omar Wagih, Gary D. Bader
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pcbi.1004497
A Gene Gravity Model for the Evolution of Cancer Genomes: A Study of 3,000 Cancer Genomes across 9 Cancer TypesCited by: 68
Author(s): Feixiong Cheng, Chuang Liu, Lin Chen, Junfei Zhao, Peilin Jia, Wen-Hsiung Li, Zhongming Zhao
Software Mentions: 1
Published: about 9 years ago