The Stanley Center for Psychiatric Research
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Using Web-Based Annotation Tools for Bioinformatic Analyses of Proteomics Data
Using web-based annotation tools for bioinformatic analyses of proteomics data Kasper Lage, PhD Massachusetts General Hospital Harvard Medical School the Broad Institute Overview of this session 1) Biological networks 2) Annotating genetic and proteomic data using biological networks 3) Tissue-specific networks with disease resolution 4) Emerging resources at the Broad Institute What is a biological network? Jeong et al., Nature 2001 1) Gene expression correlations 2) Protein-protein interactions 3) Co-mentioning in text D 4) Synthetic lethality 5) TF binding 6) Pathway database mining 7) Epigenetic data 8) All of the above Building a human protein-protein interaction network - InWeb Email [email protected] if you want to use the data. Lage, Karlberg et al., Nat. Biotech., 2007 Lage, Hansen et al. PNAS, 2008 Lage et al., Mol Syst Biol, 2010 Rossin et al., PLoS Genetics, 2011 Lage et al., PNAS, 2012 Social human networks D are a good model for understanding biological networks Social networks People are represented by “nodes”, work related interactions by “edges” daily weekly monthly Social networks People that work together are close to each other in the network daily weekly monthly Social networks People that work together are close to each other in the network daily weekly monthly Social networks People that work together are close to each other in the network daily weekly monthly Lone< wolf Social networks People that work together are close to each other in the network Do loci connect more than a random expectation? Quantify -
Senior Counsel's Office
Senior Counsel’s Office In its fifth year, fiscal year 2004, the Senior Counsel’s Office is MIT’s central in‐house counsel’s office, providing comprehensive legal services and counseling on MIT matters in all areas of concern to the academy and the administration (except intellectual property law). The office represents MIT’s president, provost, executive vice president, and chancellor, as well as the deans, vice presidents, the departments, laboratories, and research centers, and administrative offices. We also arrange for and manage outside legal services when needed and oversee all litigation. Our office includes MIT’s senior counsel Jamie Lewis Keith, contracts counsel Margaret Brill, and litigation and risk management counsel Mark DiVincenzo, as well as a law clerk, Kathryn Johnson. (In FY2004 our office also included a part‐time environmental counsel. In FY2005 the office will include an associate counsel.) We are problem solvers and strategic‐thinking partners for our clients. We strive to be enablers, helping MIT’s senior officers, faculty, and staff to accomplish their mission‐critical objectives and to make informed decisions. Our office also brings the lessons learned from litigation, other disputes, and major transactions back to the MIT community through counseling and education. These lessons support management and faculty initiatives to minimize and avoid those reputational, financial, operational, and legal risks that can be appropriately managed, while still achieving MIT’s core mission. The Senior Counsel’s Office advises -
HBS Annual Report 2008
2 0 0 8 h a r v a r d u n i v harvard university e r s i t y f i financial report n a n c i a l r e p o r t fiscal year 2008 001215 We want all students who might dream of a Harvard “ education to know that it is a realistic and affordable option . Education is fundamental to the future of individuals and the nation, and we are determined to do our part to restore its place as an engine of opportunity, rather than a source An upperclass student in Kirkland House sketches during her free time. of financial stress…This is a huge investment for Harvard, but there is no more important commitment we could make. Excellence and opportunity must go hand in hand. ” —President Drew Gilpin Faust announcing the Middle Income Financial Aid Initiative, December 10, 2007 2 message from the president 3 financial highlights s t 8 annual report of the harvard n e t management company n o 15 report of independent auditors c f financial statements o 16 e l b 20 notes to financial statements a t Message from the President I am pleased to present Harvard University’s financial report for fiscal 2008. Under very challenging market conditions, we achieved endowment returns of 8.6%, raising the endowment to $36.9 billion. Income from the endowment contributed approximately one-third of the University’s operating budget, while also supporting substantial capital outlays. In addition, our alumni and friends contributed $690.1 million during fiscal 2008, the second highest level of fundraising receipts in the University’s history. -
CURRICULUM VITAE – June 13, 2017
Chris Cotsapas PhD CURRICULUM VITAE – June 13, 2017 Education ARCS Imperial College, London UK (Biochemistry) 2000 BSc Imperial College, London UK (Biochemistry) 2000 PhD University of New South Wales, Sydney, Australia (Biochemistry & Molecular Genetics) 2007 Career/Academic Appointments: 2005-2007 Research Associate, Center for Human Genetics Research, MGH (Boston, MA) 2007-2010 Research Fellow, Center for Human Genetics Research, MGH (Boston, MA) 2005-present Research Affiliate, Broad Institute of MIT and Harvard (Cambridge, MA) 2010-present Visiting Faculty, Analytical/Translational Genetics Unit, MGH (Boston, MA) 2010-2016 Assistant Professor, Dept. of Neurology, Yale School of Medicine (New Haven, CT) 2011-2016 Assistant Professor, Dept. of Genetics, Yale School of Medicine (New Haven, CT) 2011-present Research Affiliate, Stanley Center for Psychiatric Research (Boston, MA) 2016-present Associate Professor, Dept. of Neurology, Yale School of Medicine (New Haven, CT) 2016-present Associate Professor, Dept. of Genetics, Yale School of Medicine (New Haven, CT) Funding Record Current Grants Agency: NIH/NIAID I.D.# R01 AI122220 Title: “Genomics of NFkB-mediated gene regulation in multiple sclerosis” P.I.: Chris Cotsapas PhD Percent effort: 12% Total costs for project period: $1,827,500 Project period: 09/01/2015 – 08/31/2020 Agency: European Commission (Horizon 2020 program) I.D.#: 733161 Title: “MultipleMS: Multiple manifestations of genetic and non-genetic factors in multiple sclerosis disentangled with a multi-omics approach to accelerate -
Untangling Schizophrenia the Genetics of Mental Illness
Poetic Voices • Commencement • Liberal-Arts MakeoverMakeover JULY-AUGUST 2017 • $4.95 Untangling Schizophrenia The genetics of mental illness Reprinted from Harvard Magazine. For more information, contact Harvard Magazine, Inc. at 617-495-5746 S:7” S:9.25” MERCK INVENTS TO KEEP JOY ALIVE So today, on Claudia’s wedding day, her grandfather Eduardo is there for the milestone event. Creating another special memory for the both of them. For more than a century, Merck has been inventing medicines and vaccines for many of the world’s most challenging diseases. Today, we’re exploring entirely new approaches in our search to prevent Alzheimer’s. So people remain healthy and present, able to share every precious moment with the ones they love. Learn more at Merck.com/InventingForLife Keep Joy Alive Copyright ©2017 Merck Sharp & Dohme Corp., a subsidiary of Merck & Co., Inc., Kenilworth, NJ USA. All Rights Reserved. CORP-1210605-0005 06/17 Reprinted from Harvard Magazine. For more information, contact Harvard Magazine, Inc. at 617-495-5746 170701_Merck.indd 1 5/17/17 3:31 PM JULY-AUGUST 2017, VOLUME 119, NUMBER 6 FEATURES 32 Poetry, Voiced | by Sophia Nguyen Preserving the treasures of the Woodberry Poetry Room 38 Vita: Blanche Ames | by Laura J. Snyder Brief life of an intrepid botanical illustrator: 1878-1969 p. 32 40 Probing Psychoses | by Courtney Humphries Genetic and genomic clues to understanding schizophrenia p. 15 47 An Educated Core | by John S. Rosenberg Three bold attempts to redesign the liberal arts JOHN HARVARD’S JOURNAL 14 Abdi, Biden…Zuckerberg: the 366th Commencement, animated, academic—and political. -
The Next Generation of Biomedical and Behavioral Sciences Researchers: Breaking Through
THE NATIONAL ACADEMIES PRESS This PDF is available at http://nap.edu/25008 SHARE The Next Generation of Biomedical and Behavioral Sciences Researchers: Breaking Through DETAILS 162 pages | 6 x 9 | PAPERBACK ISBN 978-0-309-47137-4 | DOI 10.17226/25008 CONTRIBUTORS GET THIS BOOK Committee on the Next Generation Initiative; Board on Higher Education and Workforce; Policy and Global Affairs; National Academies of Sciences, Engineering, and Medicine FIND RELATED TITLES Visit the National Academies Press at NAP.edu and login or register to get: – Access to free PDF downloads of thousands of scientific reports – 10% off the price of print titles – Email or social media notifications of new titles related to your interests – Special offers and discounts Distribution, posting, or copying of this PDF is strictly prohibited without written permission of the National Academies Press. (Request Permission) Unless otherwise indicated, all materials in this PDF are copyrighted by the National Academy of Sciences. Copyright © National Academy of Sciences. All rights reserved. The Next Generation of Biomedical and Behavioral Sciences Researchers: Breaking Through THE NEXT GENERATION OF BIOMEDICAL AND BEHAVIORAL SCIENCES RESEARCHERS: BREAKING THROUGH Committee on the Next Generation Initiative Board on Higher Education and Workforce Policy and Global Affairs A Consensus Study Report of PREPUBLICATION COPY—UNEDITED PROOFS Copyright National Academy of Sciences. All rights reserved. The Next Generation of Biomedical and Behavioral Sciences Researchers: Breaking Through THE NATIONAL ACADEMIES PRESS 500 Fifth Street, NW Washington, DC 20001 This activity was supported by contracts between the National Academy of Sciences and The National Institutes of Health (#HHSN263201200074I, Order No. -
Boston Tech Hub Faculty Working Group Annual Report: 2019-2020
BOSTON TECH HUB FACULTY WORKING GROUP Annual Report 2019–2020 Technology and Public Purpose Project Belfer Center for Science and International Affairs Harvard Kennedy School 79 JFK Street Cambridge, MA 02138 www.belfercenter.org/TAPP Harvard John A. Paulson School of Engineering and Applied Sciences 29 Oxford St., Cambridge, MA 02138 www.seas.harvard.edu Statements and views expressed in this report are solely those of the authors and do not imply endorsement by Harvard University, Harvard Kennedy School, Harvard Paulson School, or the Belfer Center for Science and International Affairs. Design and Layout by Andrew Facini Copyright 2020, President and Fellows of Harvard College Printed in the United States of America BOSTON TECH HUB FACULTY WORKING GROUP Annual Report 2019-2020 Table of Contents Foreword ........................................................................................................................1 FWG Members and Guests .........................................................................................5 Introduction ................................................................................................................ 13 Summary ..................................................................................................................... 14 FWG Session Briefs: Fall 2019 ................................................................................19 FWG Session Briefs: Spring 2020 ..........................................................................31 Carol Rose, Executive Director -
Angela N. Koehler
Angela N. Koehler Broad Institute of MIT and Harvard Office: 617-714-7364 Chemical Biology Program Fax: 617-714-8943 7 Cambridge Center Email: [email protected] Cambridge, MA 02142 Website: www.broadinstitute.org/node/2445 Education Ph.D. Chemistry, Harvard University, 2003 B.A. Biochemistry and Molecular Biology, Reed College, 1997 Research Experience Investigator, Chemical Biology Program, Broad Institute 2009-present Project & Center Manager, Broad NCI Cancer Target Discovery and Development (CTD2) Center 2010-2012 Institute Fellow, Chemical Biology Program, Broad Institute 2003-2009 Director, Ligand Discovery, NCI Initiative for Chemical Genetics (ICG) at Harvard 2003-2009 Graduate Student, Department of Chemistry and Chemical Biology, Harvard University 1998-2003 Laboratory of Professor Stuart L. Schreiber Thesis: Small molecule microarrays: A high-throughput tool for discovering protein-small molecule interactions Researcher, Department of Chemistry, California Institute of Technology 1997-1998 Laboratory of Professor Barbara Imperiali Project: Biochemical reconstitution of the oligosaccharyltransferase (OST) complex Undergraduate Researcher, Department of Chemistry, Reed College 1995-1997 Laboratory of Professor Arthur Glasfeld Co-mentored by Professor Richard G. Brennan at Oregon Health Sciences University Thesis: Biochemical and structural characterization of the tRNA-modifying enzyme QueA from Escherichia coli Teaching Experience Research Advisor to postdoctoral fellows, undergraduates, high school students, and staff scientists 2003-present Broad Institute of MIT and Harvard Instructor, Biochemical Sciences Research (BS91r) 2004-2006, 2010-2011 Harvard University Associated Instructor, Experimental Research in the Life Sciences (LS100r) 2009 Harvard University Associated Instructor, Experimental Molecular and Cellular Biology (MCB100) 2004-2006 Harvard University Teaching Fellow, Chemical Biology (Chem 170) 1999, 2000 Harvard University, Professor David R. -
BIOGRAPHICAL SKETCH NAME: Arlene H. Sharpe Era COMMONS
OMB No. 0925-0001 and 0925-0002 (Rev. 12/2020 Approved Through 02/28/2023) BIOGRAPHICAL SKETCH Provide the following information for the Senior/key personnel and other significant contributors. Follow this format for each person. DO NOT EXCEED FIVE PAGES. NAME: Arlene H. Sharpe eRA COMMONS USER NAME (credential, e.g., agency login): asharpe POSITION TITLE: George Fabyan Professor of Comparative Pathology EDUCATION/TRAINING (Begin with baccalaureate or other initial professional education, such as nursing, include postdoctoral training and residency training if applicable. Add/delete rows as necessary.) DEGREE Completion (if Date FIELD OF STUDY INSTITUTION AND LOCATION applicable) MM/YYYY Radcliffe College, Cambridge, MA AB 05/1975 Biochemistry Harvard University, Cambridge, MA PhD 05/1981 Microbiology Harvard Medical School, Boston, MA MD 05/1982 Medicine A. Personal Statement My laboratory investigates T cell costimulation and its immunoregulatory functions. My laboratory focUses on the roles of T cell costimUlatory and coinhibitory pathways in regUlating immUne responses needed for the indUction and maintenance of T cell tolerance and effective antimicrobial and antitumor immunity. My laboratory has been at the forefront of this field for two decades. We have discovered T cell costimulatory pathways, and elucidated their functions, inclUding the functions of B7-1 and B7-2, CTLA-4, ICOS, PD-1 and PD-1 ligands. We are also involved in stUdies aimed at translating fUndamental Understanding of T cell costimUlation into new therapies for autoimmune diseases, viral infections, and cancer. Understanding how costimulatory pathways regulate tissUe inflammation, tolerance and anti-tumor immUnity is an important aspect of my cUrrent research. -
Hypr-Seq: Single-Cell Quantification of Chosen Rnas Via Hybridization and Sequencing of DNA Probes
HyPR-seq: Single-cell quantification of chosen RNAs via hybridization and sequencing of DNA probes Jamie L. Marshalla,1, Benjamin R. Doughtya,1, Vidya Subramaniana, Philine Guckelbergera,b, Qingbo Wanga,c,d, Linlin M. Chena, Samuel G. Rodriquesa,e,f,2, Kaite Zhanga, Charles P. Fulcoa,3, Joseph Nassera, Elizabeth J. Grinkevicha, Teia Noela, Sarah Mangiamelia, Drew T. Bergmana, Anna Grekaa,g, Eric S. Landera,h,i,4,5, Fei Chena,4,5, and Jesse M. Engreitza,j,k,4,5 aBroad Institute of MIT and Harvard, Cambridge, MA 02142; bDepartment of Biology, Chemistry, and Pharmacy, Freie Universität Berlin, 14195 Berlin, Germany; cAnalytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA 02114; dProgram in Bioinformatics and Integrative Genomics, Harvard Medical School, Boston, MA 02115; eDepartment of Physics, Massachusetts Institute of Technology, Cambridge, MA 02139; fMIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA 02139; gDepartment of Medicine, Brigham and Women’s Hospital and Harvard Medical School, Boston, MA 02115; hDepartment of Systems Biology, Harvard Medical School, Boston, MA 02115; iDepartment of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139; jDepartment of Genetics, Stanford University School of Medicine, Stanford, CA 94305; and kBasic Science and Engineering Initiative, Betty Irene Moore Children’s Heart Center, Lucile Packard Children’s Hospital, Stanford University School of Medicine, Stanford, CA 94305 Contributed by Eric S. Lander, November 9, 2020 (sent for review May 29, 2020; reviewed by Alexander Meissner, Kathrin Plath, and Chun J. Ye) Single-cell quantification of RNAs is important for understanding and quantify specific transcripts in single cells, for example using cellular heterogeneity and gene regulation, yet current approaches target-specific reverse transcription of RNA during library prep- suffer from low sensitivity for individual transcripts, limiting their aration (13–15) or hybrid selection, PCR, or linear amplification utility for many applications. -
Human Molecular Genetics and Genomics — Important Advances and Exciting Possibilities Francis S
The NEW ENGLAND JOURNAL of MEDICINE Perspective January 7, 2021 A Half-Century of Progress in Health: The National Academy of Medicine at 50 Human Molecular Genetics and Genomics — Important Advances and Exciting Possibilities Francis S. Collins, M.D., Ph.D., Jennifer A. Doudna, Ph.D., Eric S. Lander, Ph.D., and Charles N. Rotimi, Ph.D. Human Molecular Genetics and Genomic he breathtaking progress in molecular genet- ing to understand the fundamen- ics that has occurred over the past five decades tals of the human genetic code to examining the ways in which Tand the transition to genomic medicine would this code varies among people, have been difficult to imagine in 1970, when the and then applying this knowl- edge to interventions that are Institute of Medicine (IOM), now quence the human genome seemed tailored to target, with precision, the National Academy of Medicine radical. the underlying causes of disease. (NAM), was formed. The term In 1987, the New York Times Mag- The development of genomic “genomics” hadn’t yet been coined, azine characterized the Human tools and data sets has trans- the tools and technologies that are Genome Project as the “biggest, formed the nature of medical the foundation of modern biotech- costliest, most provocative bio- discovery, enabling scientists to nology were in their infancy, and medical research project in his- undertake comprehensive and methods for sequencing even a few tory.”2 But in the years between powerful explorations rather than nucleotides were barely workable.1 the project’s launch in 1990 and being confined to testing hypoth- The IOM’s early years coincided its completion in 2003, genomic eses focused on candidate path- with paradigm-shifting discover- technology advanced dramatically. -
Alumni Director Cover Page.Pub
Harvard University Program in Neuroscience History of Enrollment in The Program in Neuroscience July 2018 Updated each July Nicholas Spitzer, M.D./Ph.D. B.A., Harvard College Entered 1966 * Defended May 14, 1969 Advisor: David Poer A Physiological and Histological Invesgaon of the Intercellular Transfer of Small Molecules _____________ Professor of Neurobiology University of California at San Diego Eric Frank, Ph.D. B.A., Reed College Entered 1967 * Defended January 17, 1972 Advisor: Edwin J. Furshpan The Control of Facilitaon at the Neuromuscular Juncon of the Lobster _______________ Professor Emeritus of Physiology Tus University School of Medicine Albert Hudspeth, M.D./Ph.D. B.A., Harvard College Entered 1967 * Defended April 30, 1973 Advisor: David Poer Intercellular Juncons in Epithelia _______________ Professor of Neuroscience The Rockefeller University David Van Essen, Ph.D. B.S., California Instute of Technology Entered 1967 * Defended October 22, 1971 Advisor: John Nicholls Effects of an Electronic Pump on Signaling by Leech Sensory Neurons ______________ Professor of Anatomy and Neurobiology Washington University David Van Essen, Eric Frank, and Albert Hudspeth At the 50th Anniversary celebraon for the creaon of the Harvard Department of Neurobiology October 7, 2016 Richard Mains, Ph.D. Sc.B., M.S., Brown University Entered 1968 * Defended April 24, 1973 Advisor: David Poer Tissue Culture of Dissociated Primary Rat Sympathec Neurons: Studies of Growth, Neurotransmier Metabolism, and Maturaon _______________ Professor of Neuroscience University of Conneccut Health Center Peter MacLeish, Ph.D. B.E.Sc., University of Western Ontario Entered 1969 * Defended December 29, 1976 Advisor: David Poer Synapse Formaon in Cultures of Dissociated Rat Sympathec Neurons Grown on Dissociated Rat Heart Cells _______________ Professor and Director of the Neuroscience Instute Morehouse School of Medicine Peter Sargent, Ph.D.