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Paul C. Boutros
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2020 – today
- 2024
- [j28]Yash Patel
, Arpi Beshlikyan, Madison Jordan, Gina Kim, Aaron Holmes
PipeVal: light-weight extensible tool for file validation. Bioinform. 40(2) (2024) - [j27]Yash Patel
NFTest: automated testing of Nextflow pipelines. Bioinform. 40(2) (2024) - 2023
- [i2]Awan Afiaz, Andrey Ivanov, John Chamberlin, David Hanauer, Candace Savonen, Mary J. Goldman, Martin Morgan, Michael Reich, Alexander Getka, Aaron Holmes
Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful? CoRR abs/2306.03255 (2023) - [i1]Gustavo Stolovitzky, Julio Saez-Rodriguez, Julie Bletz, Jacob Albrecht, Gaia Andreoletti, James C. Costello, Paul C. Boutros:
AI Competitions and Benchmarks: The life cycle of challenges and benchmarks. CoRR abs/2312.05296 (2023) - 2020
- [j26]Xihui Lin
Optimization and expansion of non-negative matrix factorization. BMC Bioinform. 21(1): 7 (2020) - [j25]Esther Rheinbay, Morten Muhlig Nielsen, Federico Abascal, Jeremiah Wala, Ofer Shapira, Grace Tiao, Henrik Hornshøj, Julian M. Hess, Randi Istrup Juul, Ziao Lin, Lars Feuerbach, Radhakrishnan Sabarinathan, Tobias Madsen, Jaegil Kim, Loris Mularoni, Shimin Shuai, Andrés Lanzós, Carl Herrmann
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nat. 578(7793): 102-111 (2020) - [j24]Moritz Gerstung
The evolutionary history of 2,658 cancers. Nat. 578(7793): 122-128 (2020)
2010 – 2019
- 2019
- [j23]Christine P'ng, Jeffrey Green, Lauren C. Chong, Daryl Waggott, Stephenie D. Prokopec, Mehrdad Shamsi, Francis Nguyen, Denise Y. F. Mak, Felix Lam, Marco A. Albuquerque, Ying Wu, Esther H. Jung, Maud H. W. Starmans, Michelle A. Chan-Seng-Yue
BPG: Seamless, automated and interactive visualization of scientific data. BMC Bioinform. 20(1): 42:1-42:5 (2019) - 2018
- [j22]Dorota H. Sendorek, Emilie Lalonde
NanoStringNormCNV: pre-processing of NanoString CNV data. Bioinform. 34(6): 1034-1036 (2018) - [j21]Dorota H. Sendorek, Cristian Caloian, Kyle Ellrott
Germline contamination and leakage in whole genome somatic single nucleotide variant detection. BMC Bioinform. 19(1): 28:1-28:9 (2018) - [j20]Christopher I Cooper, Delia Yao, Dorota H. Sendorek, Takafumi N. Yamaguchi
Valection: design optimization for validation and verification studies. BMC Bioinform. 19(1): 339:1-339:11 (2018) - [j19]Michal R. Grzadkowski, Dorota H. Sendorek, Christine P'ng, Vincent Huang
A comparative study of survival models for breast cancer prognostication revisited: the benefits of multi-gene models. BMC Bioinform. 19(1): 400:1-400:9 (2018) - 2017
- [j18]Matei David, L. J. Dursi, Delia Yao, Paul C. Boutros
Nanocall: an open source basecaller for Oxford Nanopore sequencing data. Bioinform. 33(1): 49-55 (2017) - [j17]Yu-Jia Shiah, Michael Fraser, Robert G. Bristow
Comparison of pre-processing methods for Infinium HumanMethylation450 BeadChip array. Bioinform. 33(20): 3151-3157 (2017) - [j16]Syed Haider, Daryl Waggott, Emilie Lalonde, Clement Fung, Fei-Fei Liu
Erratum to: A bedr way of genomic interval processing. Source Code Biol. Medicine 12(1): 1 (2017) - 2016
- [j15]Andre P. Masella, Christopher M. Lalansingh, Pragash Sivasundaram, Michael Fraser, Robert G. Bristow
BAMQL: a query language for extracting reads from BAM files. BMC Bioinform. 17: 305 (2016) - [j14]Barbara F. F. Huang, Paul C. Boutros
The parameter sensitivity of random forests. BMC Bioinform. 17: 331 (2016) - [j13]Felix Lam, Christopher M. Lalansingh, Holly E. Babaran, Zhiyuan Wang, Stephenie D. Prokopec, Natalie S. Fox, Paul C. Boutros
VennDiagramWeb: a web application for the generation of highly customizable Venn and Euler diagrams. BMC Bioinform. 17: 401 (2016) - [j12]David Noren, Byron Long, Raquel Norel, Kahn Rhrissorrakrai, Kenneth R. Hess, Chenyue W. Hu, Alex Bisberg, André Schultz, Erik Engquist, Li Liu, Xihui Lin, Gregory M. Chen, Honglei Xie, Geoffrey A. M. Hunter, Paul C. Boutros
A Crowdsourcing Approach to Developing and Assessing Prediction Algorithms for AML Prognosis. PLoS Comput. Biol. 12(6) (2016) - [j11]John M. Macdonald, Paul C. Boutros
Log: : ProgramInfo: A Perl module to collect and log data for bioinformatics pipelines. Source Code Biol. Medicine 11(1): 9 (2016) - [j10]Syed Haider, Daryl Waggott, Emilie Lalonde
A bedr way of genomic interval processing. Source Code Biol. Medicine 11(1): 14 (2016) - 2015
- [j9]Catalina V. Anghel
ISOpureR: an R implementation of a computational purification algorithm of mixed tumour profiles. BMC Bioinform. 16: 156:1-156:11 (2015) - 2014
- [j8]Shaylan K. Govind, Amin Zia
ShatterProof: operational detection and quantification of chromothripsis. BMC Bioinform. 15: 78 (2014) - [j7]Natalie S. Fox, Maud H. W. Starmans, Syed Haider, Philippe Lambin
Ensemble analyses improve signatures of tumour hypoxia and reveal inter-platform differences. BMC Bioinform. 15: 170 (2014) - 2012
- [j6]Daryl Waggott, Kenneth C. Chu, Shaoming Yin, Bradly G. Wouters
NanoStringNorm: an extensible R package for the pre-processing of NanoString mRNA and miRNA data. Bioinform. 28(11): 1546-1548 (2012) - 2011
- [j5]Rui Yan, Paul C. Boutros
A tree-based approach for motif discovery and sequence classification. Bioinform. 27(15): 2054-2061 (2011) - [j4]Anna Goldenberg, Sara Mostafavi, Gerald T. Quon
Unsupervised detection of genes of influence in lung cancer using biological networks. Bioinform. 27(22): 3166-3172 (2011) - [j3]Hanbo Chen, Paul C. Boutros
VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R. BMC Bioinform. 12: 35 (2011)
2000 – 2009
- 2007
- [c1]Rui Yan, Paul C. Boutros, Igor Jurisica, Linda Z. Penn
Comparison of Machine Learning and Pattern Discovery Algorithms for the Prediction of Human Single Nucleotide Polymorphisms. GrC 2007: 452-457 - 2005
- [j2]Paul C. Boutros
Unsupervised pattern recognition: An introduction to the whys and wherefores of clustering microarray data. Briefings Bioinform. 6(4): 331-343 (2005) - 2004
- [j1]Paul C. Boutros
PUNS: transcriptomic- and genomic-in silico PCR for enhanced primer design. Bioinform. 20(15): 2399-2400 (2004)
Coauthor Index
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