Fabio Vandin

Fabio Vandin

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Fabio Vandin

Fabio Vandin

Publications by authors named "Fabio Vandin"

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Efficient algorithms to discover alterations with complementary functional association in cancer.

PLoS Comput Biol 2019 May 23;15(5):e1006802. Epub 2019 May 23.

Department of Information Engineering, University of Padova, Padova, Italy.

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http://dx.doi.org/10.1371/journal.pcbi.1006802DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6550413PMC
May 2019

Enriched power of disease-concordant twin-case-only design in detecting interactions in genome-wide association studies.

Eur J Hum Genet 2019 Apr 18;27(4):631-636. Epub 2019 Jan 18.

Epidemiology and Biostatistics, Department of Public Health, University of Southern Denmark, Odense, Denmark.

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http://dx.doi.org/10.1038/s41431-018-0320-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6460588PMC
April 2019

Differentially mutated subnetworks discovery.

Algorithms Mol Biol 2019 30;14:10. Epub 2019 Mar 30.

3Department of Information Engineering, University of Padova, Padova, Italy.

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https://almob.biomedcentral.com/articles/10.1186/s13015-019-
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http://dx.doi.org/10.1186/s13015-019-0146-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6441493PMC
March 2019

CoExpresso: assess the quantitative behavior of protein complexes in human cells.

BMC Bioinformatics 2019 Jan 9;20(1):17. Epub 2019 Jan 9.

Department of Biochemistry and Molecular Biology and VILLUM Center for Bioanalytical Sciences, University of Southern Denmark, Campusvej 55, Odense M, 5230, Denmark.

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http://dx.doi.org/10.1186/s12859-018-2573-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6327379PMC
January 2019

HIT'nDRIVE: patient-specific multidriver gene prioritization for precision oncology.

Genome Res 2017 09 18;27(9):1573-1588. Epub 2017 Jul 18.

Laboratory for Advanced Genome Analysis, Vancouver Prostate Centre, Vancouver, British Columbia, Canada V6H 3Z6.

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http://dx.doi.org/10.1101/gr.221218.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5580716PMC
September 2017

De novo pathway-based biomarker identification.

Nucleic Acids Res 2017 Sep;45(16):e151

Department of Mathematics and Computer Science, University of Southern Denmark, 5230 Odense, Denmark.

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http://dx.doi.org/10.1093/nar/gkx642DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5766193PMC
September 2017

Computational Methods for Characterizing Cancer Mutational Heterogeneity.

Authors:
Fabio Vandin

Front Genet 2017 14;8:83. Epub 2017 Jun 14.

Department of Information Engineering, University of PadovaPadova, Italy.

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http://dx.doi.org/10.3389/fgene.2017.00083DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5469877PMC
June 2017

Efficient detection of differentially methylated regions using DiMmeR.

Bioinformatics 2017 02;33(4):549-551

Department of Mathematics and Computer Science, University of Southern Denmark, 5230 Odense, Denmark.

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http://www.dei.unipd.it/~vandinfa/publications.html
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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btw657DOI Listing
February 2017

Disease-Concordant Twins Empower Genetic Association Studies.

Ann Hum Genet 2017 Jan 23;81(1):20-26. Epub 2016 Dec 23.

Department of Mathematics and Computer Science, University of Southern Denmark, Denmark.

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http://dx.doi.org/10.1111/ahg.12181DOI Listing
January 2017

Erratum to: CoMEt: a statistical approach to identify combinations of mutually exclusive alterations in cancer.

Genome Biol 2016 Aug 2;17(1):168. Epub 2016 Aug 2.

Department of Computer Science, Brown University, 115 Waterman Street, Providence, RI, 02912, USA.

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http://genomebiology.biomedcentral.com/articles/10.1186/s130
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http://dx.doi.org/10.1186/s13059-016-1034-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970302PMC
August 2016

Differentially Methylated Genomic Regions in Birth-Weight Discordant Twin Pairs.

Ann Hum Genet 2016 Mar 1;80(2):81-7. Epub 2016 Feb 1.

Epidemiology, Biostatistics and Biodemography, Department of Public Health, University of Southern Denmark, Odense, Denmark.

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http://dx.doi.org/10.1111/ahg.12146DOI Listing
March 2016

Reply: Co-occurrence of MYC amplification and TP53 mutations in human cancer.

Nat Genet 2016 Feb;48(2):106-8

Department of Computer Science, Brown University, Providence, Rhode Island, USA.

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http://dx.doi.org/10.1038/ng.3491DOI Listing
February 2016

On the Sample Complexity of Cancer Pathways Identification.

J Comput Biol 2016 Jan 8;23(1):30-41. Epub 2015 Dec 8.

2 Department of Computer Science, Brown University , Providence, Rhode Island.

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http://dx.doi.org/10.1089/cmb.2015.0100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4700400PMC
January 2016

CoMEt: a statistical approach to identify combinations of mutually exclusive alterations in cancer.

Genome Biol 2015 Aug 8;16:160. Epub 2015 Aug 8.

Department of Computer Science, Brown University, 115 Waterman Street, Providence, 02912, RI, USA.

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http://genomebiology.biomedcentral.com/articles/10.1186/s130
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http://dx.doi.org/10.1186/s13059-015-0700-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4531541PMC
August 2015

Simultaneous inference of cancer pathways and tumor progression from cross-sectional mutation data.

J Comput Biol 2015 Jun 18;22(6):510-27. Epub 2015 Mar 18.

1Department of Computer Science and Center for Computational Molecular Biology, Brown University, Providence, Rhode Island.

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http://dx.doi.org/10.1089/cmb.2014.0161DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4449706PMC
June 2015

Accurate computation of survival statistics in genome-wide studies.

PLoS Comput Biol 2015 May 7;11(5):e1004071. Epub 2015 May 7.

Department of Computer Science, Brown University, Providence, Rhode Island, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1004071DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4423942PMC
May 2015

Identifying driver mutations in sequenced cancer genomes: computational approaches to enable precision medicine.

Genome Med 2014 30;6(1). Epub 2014 Jan 30.

Department of Computer Science, Brown University, 115 Waterman Street, Providence, RI 02912, USA ; Center for Computational Molecular Biology, Brown University, 115 Waterman Street, Providence, RI 02912, USA.

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http://dx.doi.org/10.1186/gm524DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3978567PMC
June 2014

Discovery of mutated subnetworks associated with clinical data in cancer.

Pac Symp Biocomput 2012 :55-66

Department of Computer Science, and Center for Computational Molecular Biology, Brown University, Providence, RI 02912, USA.

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http://psb.stanford.edu/psb-online/proceedings/psb12/vandin.
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December 2013

Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia.

N Engl J Med 2013 05 1;368(22):2059-74. Epub 2013 May 1.

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http://dx.doi.org/10.1056/NEJMoa1301689DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3767041PMC
May 2013

Ballast: a ball-based algorithm for structural motifs.

J Comput Biol 2013 Feb;20(2):137-51

Department of Computer Science, Dartmouth College, Hanover, NH 03755, USA.

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http://dx.doi.org/10.1089/cmb.2012.0246DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3576911PMC
February 2013

Finding driver pathways in cancer: models and algorithms.

Algorithms Mol Biol 2012 Sep 6;7(1):23. Epub 2012 Sep 6.

Department of Computer Science, and Center for Computational Molecular Biology Brown University, 115 Waterman St,, 4th Flr, Providence, RI 02912, USA.

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http://dx.doi.org/10.1186/1748-7188-7-23DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3544164PMC
September 2012

De novo discovery of mutated driver pathways in cancer.

Genome Res 2012 Feb 7;22(2):375-85. Epub 2011 Jun 7.

Department of Computer Science and Center for Computational Molecular Biology, Brown University, Providence, Rhode Island 02912, USA.

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http://dx.doi.org/10.1101/gr.120477.111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3266044PMC
February 2012

MADMX: a strategy for maximal dense motif extraction.

J Comput Biol 2011 Apr 21;18(4):535-45. Epub 2011 Mar 21.

Dipartimento di Informatica, Università di Pisa, Italy.

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http://www.dei.unipd.it/~vandinfa/papers/GrossiPPPUV_JCB2011
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http://www.liebertonline.com/doi/abs/10.1089/cmb.2010.0177
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http://dx.doi.org/10.1089/cmb.2010.0177DOI Listing
April 2011

Algorithms for detecting significantly mutated pathways in cancer.

J Comput Biol 2011 Mar;18(3):507-22

Department of Computer Science, Brown University, Providence, Rhode Island, USA.

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http://www.liebertpub.com/doi/10.1089/cmb.2010.0265
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http://dx.doi.org/10.1089/cmb.2010.0265DOI Listing
March 2011