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Divisions of Genetics and Rheumatology Department Of MARÍA GUTIÉRREZ-ARCELUS 77 Avenue Louis Pasteur, Suite 255 Divisions of Genetics and Rheumatology Boston, MA, 02115, USA Department of Medicine +1 617 525 4056 Brigham and Women’s Hospital [email protected] Harvard Medical School, Broad Institute EDUCATION 2009-2014 University of Geneva, Geneva, Switzerland PhD in Bioinformatics • Highest Mention “Très bien” • Thesis title: Mechanisms and Tissue Specificity of the Genetic and Epigenetic Variation in Gene Regulation • Advisor: Emmanouil T. Dermitzakis, PhD 2005-2009 National Autonomous University of Mexico (UNAM), Cuernavaca, Mexico Bachelor of Science in Genomic Sciences • Honorific Mention • Top 3 in class diplomas in four consecutive years • GPA 9.7/10 ACADEMIC APPOINTMENTS July 2019 - Harvard Medical School, Brigham and Women’s Hospital, Boston, USA present Instructor of Medicine May 2019 - Single Cell Genomics Core, Brigham and Women’s Hospital, Boston USA present Director of Computational Biology GRANTS/FELLOWSHIPS 2014 - 2015 Early Postdoc Mobility Fellowship Granted by: Swiss National Science Foundation $71,850 for 18 months 2009 - 2011 PhD Fellowship Granted by: National Center for Competence in Research, Swiss National Science Foundation 2 years of PhD student salary RESEARCH EXPERIENCE July 2014- Immunogenomics - Harvard Medical School, Brigham and Women’s Hospital: Boston, USA present Postdoctoral Research Fellow Mentored by Dr. Soumya Raychaudhuri • Applied machine learning tools to low-input and single-cell RNA-seq datasets to find new functional features of innate and adaptive human T cells • Developed a statistical modeling framework and used high-depth RNA-seq to identify dynamic allele-specific expression during T cell activation across the genome • Developed a new bioinformatics algorithm to robustly quantify expression in highly polymorphic HLA genes, revealing regulatory variant associated with autoimmunity 1 July 2010- Functional Population Genomics - University of Geneva: Geneva, Switzerland Feb 2014 Graduate Research Scientist Mentored by Dr. Emmanouil T Dermitzakis • Applied machine learning tools to integrate genetic variation, DNA methylation and transcriptome high-throughput large-scale datasets for the understanding of gene regulation in T cells, fibroblasts and B cell lines (LCLs) • Set up experimental technique to assess nascent transcriptomes in LCLs (GRO-seq) May-July System Genetics in Flies - Ecole Politechnique Fédéral de Lausanne: Lausanne, 2010 Switzerland Rotation Student Mentored by Dr. Bart Deplancke • Developed bioinformatics algorithms to study structural variation and expression data Feb-March The Mammalian Circadian Timing System - University of Geneva: Geneva, Switzerland 2010 Rotation Student Mentored by Dr. Ueli Schibler • Performed electrophoretic mobility shift assays to identify a circadian transcription factor Oct 2009-Jan Functional Population Genomics - University of Geneva: Geneva, Switzerland 2010 Rotation Student Mentored by Dr. Emmanouil T Dermitzakis • Developed bioinformatics algorithms and applied statistical analysis to study genetic variation and gene expression data from the 1000 genomes project Feb-June Structural Genomic Variation - Center for Genomic Sciences, UNAM: Cuernavaca, 2009 Mexico Undergraduate Research Scientist Mentored by Dr. Rafael Palacios • Developed bioinformatics algorithms and applied statistical analysis for genome sequencing data to characterize copy number variants and repeated sequences Aug-Nov Population Genomics of Gene Expression - Welcome Trust Sanger Institute: Hinxton, UK 2008 Undergraduate Research Scientist Mentored by Dr. Emmanouil T Dermitzakis • Developed bioinformatics algorithms and applied statistical analysis for associations between genome-wide SNP and gene expression across populations and cell types Summer Structural Variation in Primate Genomes - Harvard Medical School: Boston, USA 2007 Undergraduate Research Scientist Mentored by Dr. Charles Lee • Performed data analysis and experimental validations of copy number variants 2005-2007 Genomic Rearrangements - Center for Genomic Sciences, UNAM: Cuernavaca, Mexico Undergraduate Research Scientist Mentored by Dr. Rafael Palacios • Developed bioinformatics algorithms to support project research 2 INVITED TALKS AND LECTURES 2020 Joint Biology Consortium, Brigham and Women’s Hospital: Boston USA Invited Speaker for Seminar Series What inter-individual differences in T cell activation can tell us about autoimmune disease mechanisms 2019 Department of Immunology, Harvard Medical School: Boston USA Invited Speaker for Bioinformatics Seminar Series What transcriptomics can tell us about human adaptive and innate T cell function 2019 Center for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School: Boston USA Invited Speaker for Seminar Series What transcriptomics can tell us about human adaptive and innate T cell functions 2018 International Laboratory for Human Genome Research, UNAM: Queretaro, Mexico Invited Speaker for Seminar Series Gene regulation and autoimmune disease 2017 Horizons in Genomic Sciences Meeting: Cancun, Mexico Invited Speaker Dynamic allelic expression in response to human T cell activation 2012 Center for Genomic Sciences, UNAM: Cuernavaca, Mexico Invited Lecture (by teleconference) Transcriptomics 2011 Center for Genomic Sciences, UNAM: Cuernavaca, Mexico Invited Lecture Transcriptomics EDITORIAL ACTIVITY Ad hoc eLife Reviewer Plos Genetics Nature Reviews Rheumatology Scientific Reports Annals of the Rheumatic Diseases Clinical Immunology PUBLICATIONS h-index: 19 citations: 4,396 (Google Scholar) F indicates >100 citations, * indicates equal contribution First-authored Gutierrez-Arcelus M*, Baglaenko Y*, Arora J, Hannes S, Luo Y, Amariuta T, Teslovich N, Research Rao DA, Ermann J, Jonsson AH, NHLBI Trans-Omics for Precision Medicine (TOPMed) Articles Consortium, Navarrete C, Rich SS, Taylor KD, Rotter JI, Gregersen PK, Esko T, Brenner MB, Raychaudhuri S. Allele-specific expression changes dynamically during T cell activation in HLA and other autoimmune loci. Nat Genet. 2020 Mar;52(3):247-253. Gutierrez-Arcelus M, Teslovich N, Mola AR, Polidoro RB, Nathan A, Hannes S, Slowikowski K, Watts GFM, Korsunsky I, Brenner MB, Raychaudhuri S, Brenner PJ. Lymphocyte innateness defined by transcriptional states reflects a balance between proliferation and effector functions. Nat Commun. 2019 Feb 8;10(1):687 3 F Gutierrez-Arcelus M*, Ongen H*, Lappalainen T*, Montgomery SB*, Buil A, Yurovsky A, Bryois J, Giger T , Romano L, Planchon A, Falconnet E, Bielser D, Gagnebin M, Padioleau I, Borel C, Letourneau A, Makrythanasis P, Guipponi M, Gehrig C, Antonarakis SE, Dermitzakis ET. Tissue-specific effects of genetic and epigenetic variation on gene regulation and splicing. Plos Genet. 2015 Jan 29;11(1):e1004958 Popadin K*, Gutierrez-Arcelus M*, Dermitzakis ET, Antonarakis SE. Genetic and Epigenetic Regulation of Human lincRNA Gene Expression. Am J Hum Genet. 2013 Dec 5;93(6):1015-26 F Gutierrez-Arcelus M, Lappalainen T, Montgomery SB, Buil A, Ongen H, Yurovsky A, Bryois J, Giger T, Romano L, Planchon A, Falconnet E, Bielser D, Gagnebin M, Padioleau I, Borel C, Letourneau A, Makrythanasis P, Guipponi M, Gehrig C, Antonarakis SE, Dermitzakis ET. Passive and active DNA methylation and the interplay with genetic variation in gene regulation. eLife 2013;2:e00523 Research Highlight in Nature Review Genetics: http://www.nature.com/nrg/journal/v14/n8/full/nrg3535.html Research Highlight in Genome Biology: http://genomebiology.com/2013/14/7/126 Co-authored Luo Y, Suliman S, Asgari S, Amariuta T, Baglaenko Y, Martínez-Bonet M, Research Ishigaki K, Gutierrez-Arcelus M, Calderon R, Lecca L, León SR, Jimenez J, Yataco Articles R, Contreras C, Galea JT, Becerra M, Nejentsev S, Nigrovic PA, Moody DB, Murray MB, Raychaudhuri S. Early progression to active tuberculosis is a highly heritable trait driven by 3q23 in Peruvians. Nat Commun. 2019 Aug 21;10(1):3765 Zhang F*, Wei K*, Slowikowski K*, Fonseka CY*, Rao DA*, Kelly S, Goodman SM, Tabechian D, Hughes LB, Salomon-Escoto K, Watts GFM, Jonsson AH, Rangel-Moreno J, Meednu N, Rozo C, Apruzzese W, Eisenhaure TM, Lieb DJ, Boyle DL, Mandelin AM 2nd; Accelerating Medicines Partnership Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Consortium [which includes Gutierrez-Arcelus M], Boyce BF, DiCarlo E, Gravallese EM, Gregersen PK, Moreland L, Firestein GS, Hacohen N, Nusbaum C, Lederer JA, Perlman H, Pitzalis C, Filer A, Holers VM, Bykerk VP, Donlin LT, Anolik JH, Brenner MB, Raychaudhuri S. Defining inflammatory cell states in rheumatoid arthritis joint synovial tissues by integrating single-cell transcriptomics and mass cytometry. Nat Immunol. 2019 May 6 Davenport EE, Amariuta T, Gutierrez-Arcelus M, Slowikowski K, Westra HJ, Luo Y, Shen C, Rao DA, Zhang Y, Pearson S, von Schack D, Beebe JS, Bing N, John S, Vincent MS, Zhang B, Raychaudhuri S. Discovering in vivo cytokine-eQTL interactions from a lupus clinical trial. Genome Biol. 2018 Oct 19;19(1):168 Donlin LT, Rao DA, Wei K, Slowikowski K, McGeachy MJ, Turner JD, Meednu N, Mizoguchi F, Gutierrez-Arcelus M, Lieb DJ, Keegan J, Muskat K, Hillman J, Rozo C, Ricker E, Eisenhaure TM, Li S, Browne EP, Chicoine A, Sutherby D, Noma A; Accelerating Medicines Partnership RA/SLE Network, Nusbaum C, Kelly S, Pernis AB, Ivashkiv LB, Goodman SM, Robinson WH, Utz PJ, Lederer JA, Gravallese EM, Boyce BF, Hacohen N, Pitzalis C, Gregersen PK, Firestein GS, Raychaudhuri S, Moreland LW, Holers
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