Olivier Harismendy

Olivier Harismendy

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Olivier Harismendy

Publications by authors named "Olivier Harismendy"

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59Publications

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HNRNPK maintains epidermal progenitor function through transcription of proliferation genes and degrading differentiation promoting mRNAs.

Nat Commun 2019 Sep 13;10(1):4198. Epub 2019 Sep 13.

Department of Dermatology, Department of Cellular and Molecular Medicine, UCSD Stem Cell Program, University of California, San Diego, La Jolla, CA, 92093, USA.

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http://dx.doi.org/10.1038/s41467-019-12238-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6744489PMC
September 2019

Evaluating and sharing global genetic ancestry in biomedical datasets.

J Am Med Inform Assoc 2019 May;26(5):457-461

Health Department of Biomedical Informatics, University of California, San Diego, La Jolla, California, USA.

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https://academic.oup.com/jamia/advance-article/doi/10.1093/j
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http://dx.doi.org/10.1093/jamia/ocy194DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6433181PMC
May 2019

Prognostic Importance of Age, Tumor Location, and Tumor Grade in Grade II Astrocytomas: An Integrated Analysis of the Cancer Genome Atlas and the Surveillance, Epidemiology, and End Results Database.

World Neurosurg 2019 Jan 26;121:e411-e418. Epub 2018 Sep 26.

Department of Neurosurgery, University of California San Diego, San Diego, California, USA; Moores Cancer Center, University of California San Diego, San Diego, California, USA; Department of Neurosurgery, University of Minnesota, Minneapolis, Minnesota, USA. Electronic address:

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http://dx.doi.org/10.1016/j.wneu.2018.09.124DOI Listing
January 2019

Nuclear respiratory factor 1 promotes spheroid survival and mesenchymal transition in mammary epithelial cells.

Oncogene 2018 11 11;37(47):6152-6165. Epub 2018 Jul 11.

CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences, Jiangsu, 215123, China.

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http://dx.doi.org/10.1038/s41388-018-0349-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6329670PMC
November 2018

ADAR1-mediated RNA-editing of 3'UTRs in breast cancer.

Biol Res 2018 Oct 5;51(1):36. Epub 2018 Oct 5.

Center of Excellence in Precision Medicine, Pfizer Chile, Obispo Arturo Espinoza Campos 2526, 7810305, Santiago, Chile.

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http://dx.doi.org/10.1186/s40659-018-0185-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6172785PMC
October 2018

Interaction Between the Contributions of Tumor Location, Tumor Grade, and Patient Age to the Survival Benefit Associated with Gross Total Resection.

World Neurosurg 2018 Mar 5;111:e790-e798. Epub 2018 Jan 5.

Department of Neurosurgery, University of California, San Diego, San Diego, California, USA; Moores Cancer Center, University of California, San Diego, San Diego, California, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S18788750183002
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http://dx.doi.org/10.1016/j.wneu.2017.12.165DOI Listing
March 2018

PinAPL-Py: A comprehensive web-application for the analysis of CRISPR/Cas9 screens.

Sci Rep 2017 Nov 20;7(1):15854. Epub 2017 Nov 20.

Division of Biomedical Informatics, University of California San Diego, La Jolla, CA, USA.

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http://dx.doi.org/10.1038/s41598-017-16193-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5696473PMC
November 2017

Haploinsufficiency networks identify targetable patterns of allelic deficiency in low mutation ovarian cancer.

Nat Commun 2017 02 15;8:14423. Epub 2017 Feb 15.

Division of Gynecologic Oncology, Department of Reproductive Medicine, UCSD School of Medicine and UCSD Moores Cancer Center, 3855 Health Sciences Drive, La Jolla, California 39216, USA.

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http://dx.doi.org/10.1038/ncomms14423DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5316854PMC
February 2017

Use of Liquid Biopsies in Clinical Oncology: Pilot Experience in 168 Patients.

Clin Cancer Res 2016 Nov 16;22(22):5497-5505. Epub 2016 May 16.

Center for Personalized Cancer Therapy and Division of Hematology and Oncology, UCSD Moores Cancer Center, La Jolla, California.

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http://dx.doi.org/10.1158/1078-0432.CCR-16-0318DOI Listing
November 2016

Nrf2 Induces IL-17D to Mediate Tumor and Virus Surveillance.

Cell Rep 2016 08 18;16(9):2348-58. Epub 2016 Aug 18.

Department of Pathology, University of California, San Diego, San Diego, CA 92093, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.07.075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5007173PMC
August 2016

Immune DNA signature of T-cell infiltration in breast tumor exomes.

Sci Rep 2016 07 25;6:30064. Epub 2016 Jul 25.

Division of Biomedical Informatics, Department of Medicine, University of California San Diego, United States.

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http://dx.doi.org/10.1038/srep30064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4958917PMC
July 2016

Both GLUT-1 and GLUT-14 are Independent Prognostic Factors in Gastric Adenocarcinoma.

Ann Surg Oncol 2015 Dec 17;22 Suppl 3:S822-31. Epub 2015 Jul 17.

Department of General, Visceral and Cancer Surgery, University of Cologne, Cologne, Germany.

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http://dx.doi.org/10.1245/s10434-015-4730-xDOI Listing
December 2015

BAP1 mutation is a frequent somatic event in peritoneal malignant mesothelioma.

J Transl Med 2015 Apr 16;13:122. Epub 2015 Apr 16.

Moores UCSD Cancer Center, 3855 Health Science Drive, Maildrop 0820, 92093, La Jolla, USA.

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http://dx.doi.org/10.1186/s12967-015-0485-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4422481PMC
April 2015

Network-based analysis identifies epigenetic biomarkers of esophageal squamous cell carcinoma progression.

Bioinformatics 2014 Nov 10;30(21):3054-61. Epub 2014 Jul 10.

Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan 701, Taiwan, Moores Cancer Center, University of California San Diego, La Jolla, CA 92093, USA, Institute of Basic Medical Sciences, National Cheng Kung University, Tainan 701, Taiwan, Department of Pediatrics and Rady Children's Hospital, University of California San Diego, La Jolla, CA 92093, USA, Department of General, Visceral and Cancer Surgery, University of Cologne, Köln, Germany, Institute for Genomic Medicine, University of California San Diego, La Jolla, CA 92093, USA, Department of Pharmacology and Institute of Medical Informatics, National Cheng Kung University, Tainan 701, Taiwan Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan 701, Taiwan, Moores Cancer Center, University of California San Diego, La Jolla, CA 92093, USA, Institute of Basic Medical Sciences, National Cheng Kung University, Tainan 701, Taiwan, Department of Pediatrics and Rady Children's Hospital, University of California San Diego, La Jolla, CA 92093, USA, Department of General, Visceral and Cancer Surgery, University of Cologne, Köln, Germany, Institute for Genomic Medicine, University of California San Diego, La Jolla, CA 92093, USA, Department of Pharmacology and Institute of Medical Informatics, National Cheng Kung University, Tainan 701, Taiwan.

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http://dx.doi.org/10.1093/bioinformatics/btu433DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4609006PMC
November 2014

Correction: Genome-wide mutational landscape of mucinous carcinomatosis peritonei of appendiceal origin.

Genome Med 2014 26;6(7):53. Epub 2014 Jul 26.

Division of Genome Information Sciences, Department of Pediatrics and Rady Children's Hospital, University of California San Diego, La Jolla, CA USA ; Moores UCSD Cancer Center, University of California San Diego, La Jolla, CA USA ; Clinical and Translational Science Institute, University of California San Diego, La Jolla, CA USA.

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http://dx.doi.org/10.1186/s13073-014-0053-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165363PMC
September 2014

Genome-wide mutational landscape of mucinous carcinomatosis peritonei of appendiceal origin.

Genome Med 2014 29;6(5):43. Epub 2014 May 29.

Division of Genome Information Sciences, Department of Pediatrics and Rady Children's Hospital, University of California San Diego, La Jolla, CA, USA ; Moores UCSD Cancer Center, University of California San Diego, La Jolla, CA, USA ; Clinical and Translational Science Institute, University of California San Diego, La Jolla, CA, USA.

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http://dx.doi.org/10.1186/gm559DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4062050PMC
June 2014

Whole transcriptome sequencing enables discovery and analysis of viruses in archived primary central nervous system lymphomas.

PLoS One 2013 4;8(9):e73956. Epub 2013 Sep 4.

Moores Cancer Center, University of California San Diego, La Jolla, California, United States of America ; Bioinformatics and Systems Biology Graduate Program, University of California San Diego, La Jolla, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0073956PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762708PMC
April 2014

High-resolution mutational profiling suggests the genetic validity of glioblastoma patient-derived pre-clinical models.

PLoS One 2013 18;8(2):e56185. Epub 2013 Feb 18.

Bioinformatics and Systems Biology Graduate Program, University of California San Diego, La Jolla, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0056185PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3575368PMC
August 2013

Mutascope: sensitive detection of somatic mutations from deep amplicon sequencing.

Bioinformatics 2013 Aug 27;29(15):1908-9. Epub 2013 May 27.

Bioinformatics Graduate Program, University of California San Diego, 9500 Gilman Drive, La Jolla, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt305DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3712217PMC
August 2013

Identification of high-confidence somatic mutations in whole genome sequence of formalin-fixed breast cancer specimens.

Nucleic Acids Res 2012 Aug 6;40(14):e107. Epub 2012 Apr 6.

Moores UCSD Cancer Center, Bioinformatics and Systems Biology Graduate Program, Department of Pediatrics and Rady Children's Hospital, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/nar/gks299DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3413110PMC
August 2012

Sensitive gene fusion detection using ambiguously mapping RNA-Seq read pairs.

Bioinformatics 2011 Apr 16;27(8):1068-75. Epub 2011 Feb 16.

Bioinformatics and Systems Biology Program, Moores UCSD Cancer Center, Department of Pediatrics, University of California San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr085DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3072550PMC
April 2011

9p21 DNA variants associated with coronary artery disease impair interferon-γ signalling response.

Nature 2011 Feb;470(7333):264-8

Department of Pediatrics and Rady's Children's Hospital, University of California at San Diego, School of Medicine, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature09753DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3079517PMC
February 2011

A covering method for detecting genetic associations between rare variants and common phenotypes.

PLoS Comput Biol 2010 Oct 14;6(10):e1000954. Epub 2010 Oct 14.

Department of Computer Science and Engineering, University of California San Diego, La Jolla, California, USA.

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http://dx.doi.org/10.1371/journal.pcbi.1000954DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2954823PMC
October 2010

Accurate detection and genotyping of SNPs utilizing population sequencing data.

Genome Res 2010 Apr 11;20(4):537-45. Epub 2010 Feb 11.

Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA 92037, USA.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.100040.109
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http://dx.doi.org/10.1101/gr.100040.109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2847757PMC
April 2010

Enrichment of sequencing targets from the human genome by solution hybridization.

Genome Biol 2009 16;10(10):R116. Epub 2009 Oct 16.

Scripps Genomic Medicine, Scripps Translational Science Institute, The Scripps Research Institute, 3344 N Torrey Pines Court, La Jolla, CA 92037, USA.

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http://genomebiology.biomedcentral.com/articles/10.1186/gb-2
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http://dx.doi.org/10.1186/gb-2009-10-10-r116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2784331PMC
January 2010

Biomarkers of endocannabinoid system activation in severe obesity.

PLoS One 2010 Jan 20;5(1):e8792. Epub 2010 Jan 20.

Department of Molecular and Experimental Medicine, The Scripps Research Institute, La Jolla, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0008792PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808340PMC
January 2010

Microdroplet-based PCR enrichment for large-scale targeted sequencing.

Nat Biotechnol 2009 Nov 1;27(11):1025-31. Epub 2009 Nov 1.

Scripps Genomic Medicine, Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, California, USA.

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http://dx.doi.org/10.1038/nbt.1583DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2779736PMC
November 2009

Elucidating the role of 8q24 in colorectal cancer.

Nat Genet 2009 Aug;41(8):868-9

Scripps Genomic Medicine, Scripps Translational Science Institute and the Scripps Research Institute, La Jolla, California, USA.

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http://dx.doi.org/10.1038/ng0809-868DOI Listing
August 2009

Evaluation of next generation sequencing platforms for population targeted sequencing studies.

Genome Biol 2009 27;10(3):R32. Epub 2009 Mar 27.

Scripps Genomic Medicine, Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA 92037, USA.

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http://dx.doi.org/10.1186/gb-2009-10-3-r32DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2691003PMC
July 2009

Method for improving sequence coverage uniformity of targeted genomic intervals amplified by LR-PCR using Illumina GA sequencing-by-synthesis technology.

Biotechniques 2009 Mar;46(3):229-31

Scripps Genomic Medicine, Scripps Translational Science Institute, Scripps Research Institute, La Jolla, CA, USA.

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http://dx.doi.org/10.2144/000113082DOI Listing
March 2009

Genetic determinants of phenotypic diversity in humans.

Genome Biol 2008 Apr 24;9(4):215. Epub 2008 Apr 24.

Scripps Genomic Medicine, The Scripps Research Institute, North Torrey Pines Road MEM 275, La Jolla, CA 92037, USA.

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http://dx.doi.org/10.1186/gb-2008-9-4-215DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2643926PMC
April 2008

Maf1 is involved in coupling carbon metabolism to RNA polymerase III transcription.

Mol Cell Biol 2007 Nov 4;27(21):7693-702. Epub 2007 Sep 4.

Department of Genetics, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106 Warsaw, Poland.

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http://dx.doi.org/10.1128/MCB.01051-07DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2169064PMC
November 2007

Nucleosome depletion activates poised RNA polymerase III at unconventional transcription sites in Saccharomyces cerevisiae.

J Biol Chem 2006 Sep 2;281(39):29155-64. Epub 2006 Jul 2.

Dipartimento di Biochimica e Biologia Molecolare, Università degli Studi di Parma, 43100 Parma, Italy.

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http://dx.doi.org/10.1074/jbc.M600387200DOI Listing
September 2006

A minimal promoter for TFIIIC-dependent in vitro transcription of snoRNA and tRNA genes by RNA polymerase III.

J Biol Chem 2006 Aug 19;281(33):23945-57. Epub 2006 Jun 19.

Dipartimento di Biochimica e Biologia Molecolare, Università degli Studi di Parma, 43100 Parma, Italy.

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http://www.jbc.org/lookup/doi/10.1074/jbc.M513814200
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http://dx.doi.org/10.1074/jbc.M513814200DOI Listing
August 2006

General repression of RNA polymerase III transcription is triggered by protein phosphatase type 2A-mediated dephosphorylation of Maf1.

Mol Cell 2006 Jun;22(5):623-32

Laboratoire de Transcription des Gènes, Service de Biochimie et Génétique Moléculaire, CEA/Saclay, 91191 Gif-sur-Yvette Cedex, France.

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http://dx.doi.org/10.1016/j.molcel.2006.04.008DOI Listing
June 2006

Genome-wide location of yeast RNA polymerase III transcription machinery.

EMBO J 2003 Sep;22(18):4738-47

Service de Biochimie et de Génétique Moléculaire, Bâtiment 144, CEA/Saclay, 91191 Gif-sur-Yvette Cedex, France.

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http://dx.doi.org/10.1093/emboj/cdg466DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC212732PMC
September 2003