Ali Bashashati

Ali Bashashati

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Ali Bashashati

Ali Bashashati

Publications by authors named "Ali Bashashati"

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57Publications

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The coming 15 years in gynaecological pathology: digitisation, artificial intelligence, and new technologies.

Histopathology 2020 Jan;76(1):171-177

Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada.

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http://dx.doi.org/10.1111/his.13991DOI Listing
January 2020

Regulation of pH by Carbonic Anhydrase 9 Mediates Survival of Pancreatic Cancer Cells With Activated KRAS in Response to Hypoxia.

Gastroenterology 2019 09 9;157(3):823-837. Epub 2019 May 9.

Department of Integrative Oncology, BC Cancer Research Centre, Vancouver, British Columbia, Canada; Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC, Canada. Electronic address:

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http://dx.doi.org/10.1053/j.gastro.2019.05.004DOI Listing
September 2019

Pharmacological systems analysis defines EIF4A3 functions in cell-cycle and RNA stress granule formation.

Commun Biol 2019 3;2:165. Epub 2019 May 3.

1Department of Molecular Oncology, BC Cancer, part of the Provincial Health Services Authority, 675 West 10th Avenue, Vancouver, BC V5Z 1L3 Canada.

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http://dx.doi.org/10.1038/s42003-019-0391-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6499833PMC
May 2019

Integrated structural variation and point mutation signatures in cancer genomes using correlated topic models.

PLoS Comput Biol 2019 02 22;15(2):e1006799. Epub 2019 Feb 22.

Department of Epidemiology & Biostatistics, Memorial Sloan Kettering Cancer Center, New York, New York, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1006799DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6402697PMC
February 2019

LINE-1 retrotransposon-mediated DNA transductions in endometriosis associated ovarian cancers.

Gynecol Oncol 2017 12 9;147(3):642-647. Epub 2017 Oct 9.

Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada; Department of Molecular Oncology, BC Cancer Agency, Vancouver, BC, Canada. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00908258173135
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http://dx.doi.org/10.1016/j.ygyno.2017.09.032DOI Listing
December 2017

Kronos: a workflow assembler for genome analytics and informatics.

Gigascience 2017 07;6(7):1-10

Department of Molecular Oncology, British Columbia Cancer Agency, 675 West 10th Ave, V5Z 1L3 Vancouver, BC, Canada.

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http://dx.doi.org/10.1093/gigascience/gix042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5569921PMC
July 2017

Robust high-performance nanoliter-volume single-cell multiple displacement amplification on planar substrates.

Proc Natl Acad Sci U S A 2016 07 13;113(30):8484-9. Epub 2016 Jul 13.

Michael Smith Laboratories, University of British Columbia, Vancouver, BC, Canada V6T 1Z4; Department of Physics and Astronomy, University of British Columbia, Vancouver, BC, Canada V6T 1Z4

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http://dx.doi.org/10.1073/pnas.1520964113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968760PMC
July 2016

Synchronous Endometrial and Ovarian Carcinomas: Evidence of Clonality.

J Natl Cancer Inst 2016 Jun 1;108(6):djv428. Epub 2016 Feb 1.

Department of Pathology and Laboratory Medicine, (MSA, HMH, JS, HLC, ANK, BSS, MKM, CBG, SK, DGH) and Department of Obstetrics and Gynaecology (MSA, DGH), University of British Columbia, Vancouver, Canada; Department of Molecular Oncology, British Columbia Cancer Agency Cancer Research Centre, Vancouver, Canada (YKW, AB, RM, DSG, SPS); Department of Women's Health, University Hospital Tuebingen, Tuebingen, Germany (MM, FAT, DW, SB, SK); Division of Anatomic Pathology, Synlab MVZ, Institute of Pathology, Mannheim, Germany (FK); Division of Gynecologic Pathology, Institute of Pathology and Neuropathology, University Hospital Tuebingen, Tuebingen, Germany (AS); Department of Anatomical Pathology, Vancouver General Hospital, Vancouver, Canada (CBG).

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http://dx.doi.org/10.1093/jnci/djv428DOI Listing
June 2016

Comparing Different Classifiers in Sensory Motor Brain Computer Interfaces.

PLoS One 2015 19;10(6):e0129435. Epub 2015 Jun 19.

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

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0129435PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4474725PMC
April 2016

User-customized brain computer interfaces using Bayesian optimization.

J Neural Eng 2016 Apr 29;13(2):026001. Epub 2016 Jan 29.

Electrical and Computer Engineering Department, University of British Columbia, Vancouver, BC, Canada.

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http://stacks.iop.org/1741-2552/13/i=2/a=026001?key=crossref
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http://dx.doi.org/10.1088/1741-2560/13/2/026001DOI Listing
April 2016

The genomic landscape of epithelioid sarcoma cell lines and tumours.

J Pathol 2016 Jan 19;238(1):63-73. Epub 2015 Oct 19.

Genetic Pathology Evaluation Centre, Vancouver, BC, Canada.

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http://dx.doi.org/10.1002/path.4636DOI Listing
January 2016

Systematic analysis of somatic mutations impacting gene expression in 12 tumour types.

Nat Commun 2015 Oct 5;6:8554. Epub 2015 Oct 5.

Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia, Canada V5Z 1L3.

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http://dx.doi.org/10.1038/ncomms9554DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4600750PMC
October 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

TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data.

Genome Res 2014 Nov 24;24(11):1881-93. Epub 2014 Jul 24.

Department of Molecular Oncology, British Columbia Cancer Agency, Vancouver, BC V5Z 1L3, Canada; Department of Computer Science, University of British Columbia, Vancouver, BC V6T 1Z4, Canada; Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC V6T 2B5, Canada;

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http://dx.doi.org/10.1101/gr.180281.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4216928PMC
November 2014

Merging mixture components for cell population identification in flow cytometry.

Adv Bioinformatics 2009 12:247646. Epub 2009 Nov 12.

Computational Biology Unit, Clinical Research Institute of Montreal, 110 Pine Avenue West, Montreal, QC, Canada H2W1R7.

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http://www.hindawi.com/journals/abi/2009/247646/
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http://dx.doi.org/10.1155/2009/247646DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2798116PMC
July 2011

A survey of flow cytometry data analysis methods.

Adv Bioinformatics 2009 6:584603. Epub 2009 Dec 6.

Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, BC, Canada V5Z 1L3.

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http://dx.doi.org/10.1155/2009/584603DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2798157PMC
July 2011

Pairwise network mechanisms in the host signaling response to coxsackievirus B3 infection.

Proc Natl Acad Sci U S A 2010 Sep 10;107(39):17053-8. Epub 2010 Sep 10.

The James Hogg iCAPTURE Centre for Cardiovascular and Pulmonary Research, Providence Heart and Lung Institute at St. Paul's Hospital, University of British Columbia, Vancouver, BC, Canada.

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http://dx.doi.org/10.1073/pnas.1006478107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2947887PMC
September 2010

Towards development of a 3-state self-paced brain-computer interface.

Comput Intell Neurosci 2007 :84386

Electrical and Computer Engineering Department, University of British Columbia, Vancouver, BC, Canada V6T 1Z4.

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http://dx.doi.org/10.1155/2007/84386DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2234253PMC
May 2010

A pipeline for automated analysis of flow cytometry data: preliminary results on lymphoma sub-type diagnosis.

Conf Proc IEEE Eng Med Biol Soc 2009 ;2009:4945-8

British Columbia Cancer Research Center, Vancouver, Canada.

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http://dx.doi.org/10.1109/IEMBS.2009.5332710DOI Listing
March 2010

Reduction in multi-lineage and erythroid progenitors distinguishes myelodysplastic syndromes from non-malignant cytopenias.

Leuk Res 2009 Dec 2;33(12):1636-42. Epub 2009 May 2.

Department of Pathology and Laboratory Medicine, Vancouver General Hospital, Vancouver, Canada.

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http://linkinghub.elsevier.com/retrieve/pii/S014521260900142
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http://dx.doi.org/10.1016/j.leukres.2009.03.019DOI Listing
December 2009

Effect of eye-blinks on a self-paced brain interface design.

Clin Neurophysiol 2007 Jul 26;118(7):1639-47. Epub 2007 Apr 26.

Department of Electrical and Computer Engineering, University of British Columbia, 2332 Main Mall, Vancouver, BC, Canada.

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http://dx.doi.org/10.1016/j.clinph.2007.03.020DOI Listing
July 2007

A survey of signal processing algorithms in brain-computer interfaces based on electrical brain signals.

J Neural Eng 2007 Jun 27;4(2):R32-57. Epub 2007 Mar 27.

Department of Electrical and Computer Engineering, The University of British Columbia, 2356 Main Mall, Vancouver, V6T 1Z4, Canada.

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http://dx.doi.org/10.1088/1741-2560/4/2/R03DOI Listing
June 2007

EMG and EOG artifacts in brain computer interface systems: A survey.

Clin Neurophysiol 2007 Mar 13;118(3):480-94. Epub 2006 Dec 13.

Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, Canada V6T 1Z4.

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http://dx.doi.org/10.1016/j.clinph.2006.10.019DOI Listing
March 2007

A comparative study on generating training-data for self-paced brain interfaces.

IEEE Trans Neural Syst Rehabil Eng 2007 Mar;15(1):59-66

Electrical and Computer Engineering Department, University of British Columbia, Vancouver, Canada.

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http://dx.doi.org/10.1109/TNSRE.2007.891382DOI Listing
March 2007

Automatic user customization for improving the performance of a self-paced brain interface system.

Med Biol Eng Comput 2006 Dec 17;44(12):1093-104. Epub 2006 Nov 17.

Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, Canada V6T 1Z4.

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http://dx.doi.org/10.1007/s11517-006-0125-2DOI Listing
December 2006

An improved asynchronous brain interface: making use of the temporal history of the LF-ASD feature vectors.

J Neural Eng 2006 Jun 11;3(2):87-94. Epub 2006 Apr 11.

Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada.

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http://dx.doi.org/10.1088/1741-2560/3/2/002DOI Listing
June 2006

User customization of the feature generator of an asynchronous brain interface.

Ann Biomed Eng 2006 Jun 5;34(6):1051-60. Epub 2006 May 5.

Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, BC, Canada, V6T 1Z4.

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http://dx.doi.org/10.1007/s10439-006-9097-5DOI Listing
June 2006

An experimental study to investigate the effects of a motion tracking electromagnetic sensor during EEG data acquisition.

IEEE Trans Biomed Eng 2006 Mar;53(3):559-63

Electrical and Computer Engineering Department, University of British Columbia, Vancouver, BC V6T 1Z4, Canada.

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http://dx.doi.org/10.1109/TBME.2005.869656DOI Listing
March 2006

Brain-computer interface design for asynchronous control applications: improvements to the LF-ASD asynchronous brain switch.

IEEE Trans Biomed Eng 2004 Jun;51(6):985-92

Neil Squire Foundation, Burnaby, BC V5M 3Z3, Canada.

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http://dx.doi.org/10.1109/TBME.2004.827078DOI Listing
June 2004