Publications by authors named "Cydney Nielsen"

29Publications

E-scape: interactive visualization of single-cell phylogenetics and cancer evolution.

Nat Methods 2017 05;14(6):549-550

Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, British Columbia, Canada.

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http://dx.doi.org/10.1038/nmeth.4303DOI Listing
May 2017

ChAsE: chromatin analysis and exploration tool.

Bioinformatics 2016 11 4;32(21):3324-3326. Epub 2016 Jul 4.

Graphics Usability and Visualization Lab, Simon Fraser University, Burnaby, Canada Visualization and Data Analysis Lab, Faculty of Computer Science, University of Vienna, Wien, Austria.

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http://dx.doi.org/10.1093/bioinformatics/btw382DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5079470PMC
November 2016

Clonal genotype and population structure inference from single-cell tumor sequencing.

Nat Methods 2016 07 16;13(7):573-6. Epub 2016 May 16.

Department of Molecular Oncology, BC Cancer Agency, Vancouver, British Columbia, Canada.

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http://dx.doi.org/10.1038/nmeth.3867DOI Listing
July 2016

Visualization: A Mind-Machine Interface for Discovery.

Authors:
Cydney B Nielsen

Trends Genet 2016 Feb 28;32(2):73-75. Epub 2015 Dec 28.

Department of Pathology and Laboratory Medicine, University of British Columbia, British Columbia Cancer Agency, 675 West 10th Avenue, 4th floor, Vancouver, BC, V5Z 1L3, Canada. Electronic address:

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http://dx.doi.org/10.1016/j.tig.2015.12.002DOI Listing
February 2016

Highlights from the 5th Symposium on Biological Data Visualization: Part 2.

BMC Proc 2015 13;9(Suppl 6 Proceedings of the 5th Symposium on Biological Data):S1. Epub 2015 Aug 13.

VISUS, University of Stuttgart, Allmandring 19, 70569 Stuttgart, Germany.

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http://dx.doi.org/10.1186/1753-6561-9-S6-S1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4547172PMC
September 2015

Dynamics of genomic clones in breast cancer patient xenografts at single-cell resolution.

Nature 2015 Feb 26;518(7539):422-6. Epub 2014 Nov 26.

1] Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada [2] Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada [3] Michael Smith Genome Sciences Centre, Vancouver, British Columbia V5Z 1L3, Canada [4] Centre for Translational and Applied Genomics, BC Cancer Agency, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada.

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http://dx.doi.org/10.1038/nature13952DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4864027PMC
February 2015

Variant view: visualizing sequence variants in their gene context.

IEEE Trans Vis Comput Graph 2013 Dec;19(12):2546-55

University of British Columbia.

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http://dx.doi.org/10.1109/TVCG.2013.214DOI Listing
December 2013

Spark: a navigational paradigm for genomic data exploration.

Genome Res 2012 Nov 7;22(11):2262-9. Epub 2012 Sep 7.

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, British Columbia, V5Z 4S6, Canada.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.140665.112
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http://dx.doi.org/10.1101/gr.140665.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483555PMC
November 2012

Points of view: Representing genomic structural variation.

Nat Methods 2012 Jul;9(7):631

British Columbia Cancer Agency, Vancouver.

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http://dx.doi.org/10.1038/nmeth.2018DOI Listing
July 2012

Points of view: Managing deep data in genome browsers.

Nat Methods 2012 Jun;9(6):521

Canadian Institutes of Health Research, Canada.

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http://dx.doi.org/10.1038/nmeth.2049DOI Listing
June 2012

Points of view: Representing the genome.

Nat Methods 2012 May;9(5):423

British Columbia Cancer Agency, Vancouver.

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http://dx.doi.org/10.1038/nmeth.1992DOI Listing
May 2012

Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs.

Nat Struct Mol Biol 2011 Feb 23;18(2):237-44. Epub 2011 Jan 23.

The Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.1991DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3078052PMC
February 2011

Visualizing genomes: techniques and challenges.

Nat Methods 2010 Mar 25;7(3 Suppl):S5-S15. Epub 2010 Feb 25.

British Columbia Cancer Agency, Genome Sciences Centre, Vancouver, Canada.

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http://dx.doi.org/10.1038/nmeth.1422DOI Listing
March 2010

Biased chromatin signatures around polyadenylation sites and exons.

Mol Cell 2009 Oct;36(2):245-54

Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S10972765090074
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http://dx.doi.org/10.1016/j.molcel.2009.10.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2786773PMC
October 2009

ABySS-Explorer: visualizing genome sequence assemblies.

IEEE Trans Vis Comput Graph 2009 Nov-Dec;15(6):881-8

BC Cancer Agency, Genome Sciences Centre.

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http://dx.doi.org/10.1109/TVCG.2009.116DOI Listing
January 2010

Patterns of intron gain and loss in fungi.

PLoS Biol 2004 Dec 30;2(12):e422. Epub 2004 Nov 30.

Department of Biology, Massachusetts Institute of Technology Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1371/journal.pbio.0020422DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC532390PMC
December 2004

DNA polymerase gene sequences indicate western and forest tent caterpillar viruses form a new taxonomic group within baculoviruses.

J Invertebr Pathol 2002 Nov;81(3):131-47

Department of Microbiology and Immunology, University of British Columbia, BC, V6T 1Z4, Vancouver, Canada.

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http://dx.doi.org/10.1016/s0022-2011(02)00191-xDOI Listing
November 2002