California Institute of Technology Biology and Biological Engineering Annual Report 2019 Introduction
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Functional Effects Detailed Research Plan
GeCIP Detailed Research Plan Form Background The Genomics England Clinical Interpretation Partnership (GeCIP) brings together researchers, clinicians and trainees from both academia and the NHS to analyse, refine and make new discoveries from the data from the 100,000 Genomes Project. The aims of the partnerships are: 1. To optimise: • clinical data and sample collection • clinical reporting • data validation and interpretation. 2. To improve understanding of the implications of genomic findings and improve the accuracy and reliability of information fed back to patients. To add to knowledge of the genetic basis of disease. 3. To provide a sustainable thriving training environment. The initial wave of GeCIP domains was announced in June 2015 following a first round of applications in January 2015. On the 18th June 2015 we invited the inaugurated GeCIP domains to develop more detailed research plans working closely with Genomics England. These will be used to ensure that the plans are complimentary and add real value across the GeCIP portfolio and address the aims and objectives of the 100,000 Genomes Project. They will be shared with the MRC, Wellcome Trust, NIHR and Cancer Research UK as existing members of the GeCIP Board to give advance warning and manage funding requests to maximise the funds available to each domain. However, formal applications will then be required to be submitted to individual funders. They will allow Genomics England to plan shared core analyses and the required research and computing infrastructure to support the proposed research. They will also form the basis of assessment by the Project’s Access Review Committee, to permit access to data. -
AHMED H. ZEWAIL 26 February 1946 . 2 August 2016
AHMED H. ZEWAIL 26 february 1946 . 2 august 2016 PROCEEDINGS OF THE AMERICAN PHILOSOPHICAL SOCIETY VOL. 162, NO. 2, JUNE 2018 biographical memoirs t is often proclaimed that a stylist is someone who does and says things in memorable ways. From an analysis of his experimental Iprowess, his written contributions, his lectures, and even from the details of the illustrations he used in his published papers or during his lectures to scientific and other audiences, Ahmed Zewail, by this or any other definition, was a stylist par excellence. For more than a quarter of a century, I interacted with Ahmed (and members of his family) very regularly. Sometimes he and I spoke several times a week during long-distance calls. Despite our totally different backgrounds we became the strongest of friends, and we got on with one another like the proverbial house on fire. We collaborated scientifi- cally and we adjudicated one another’s work, as well as that of others. We frequently exchanged culturally interesting stories. We each relished the challenge of delivering popular lectures. In common with very many others, I deem him to be unforgettable, for a variety of different reasons. He was one of the intellectually ablest persons that I have ever met. He possessed elemental energy. He executed a succession of brilliant experiments. And, almost single-handedly, he created the subject of femtochemistry, with all its magnificent manifestations and ramifications. From the time we first began to exchange ideas, I felt a growing affinity for his personality and attitude. This was reinforced when I told him that, ever since I was a teenager, I had developed a deep interest in Egyptology and a love for modern Egypt. -
Using Rule-Based Reasoning for RDF Validation
Using Rule-Based Reasoning for RDF Validation Dörthe Arndt, Ben De Meester, Anastasia Dimou, Ruben Verborgh, and Erik Mannens Ghent University - imec - IDLab Sint-Pietersnieuwstraat 41, B-9000 Ghent, Belgium [email protected] Abstract. The success of the Semantic Web highly depends on its in- gredients. If we want to fully realize the vision of a machine-readable Web, it is crucial that Linked Data are actually useful for machines con- suming them. On this background it is not surprising that (Linked) Data validation is an ongoing research topic in the community. However, most approaches so far either do not consider reasoning, and thereby miss the chance of detecting implicit constraint violations, or they base them- selves on a combination of dierent formalisms, eg Description Logics combined with SPARQL. In this paper, we propose using Rule-Based Web Logics for RDF validation focusing on the concepts needed to sup- port the most common validation constraints, such as Scoped Negation As Failure (SNAF), and the predicates dened in the Rule Interchange Format (RIF). We prove the feasibility of the approach by providing an implementation in Notation3 Logic. As such, we show that rule logic can cover both validation and reasoning if it is expressive enough. Keywords: N3, RDF Validation, Rule-Based Reasoning 1 Introduction The amount of publicly available Linked Open Data (LOD) sets is constantly growing1, however, the diversity of the data employed in applications is mostly very limited: only a handful of RDF data is used frequently [27]. One of the reasons for this is that the datasets' quality and consistency varies signicantly, ranging from expensively curated to relatively low quality data [33], and thus need to be validated carefully before use. -
Diversity Data Report 2019 Diversity Data Report 2019 Issued: November 2020 DES6507
Diversity data report 2019 Diversity data report 2019 Issued: November 2020 DES6507 The text of this work is licensed under the terms of the Creative Commons Attribution License which permits unrestricted use, provided the original author and source are credited. The license is available at: creativecommons.org/licenses/by/4.0 Images are not covered by this license. This report can be viewed online at: royalsociety.org/diversity Contents Introduction .....................................................4 The Fellowship ..................................................11 Committees, panels and working groups ..........................19 Research Fellowship Grants ......................................26 Scientific programmes ...........................................38 Public engagement .............................................50 Publishing ......................................................62 Schools engagement ............................................67 Royal Society staff ..............................................72 Gender pay gap .................................................75 Definitions .....................................................77 DIVERSITY DATA REPORT 2019 3 Introduction The Royal Society is a Fellowship of many of the world’s most eminent scientists and is the oldest scientific academy in continuous existence. The Society is committed to increasing sections of this report such as organisers, diversity in science, technology, engineering chairs and speakers at scientific meetings, and mathematics (‘STEM’) -
INPUT CONTRIBUTION Group Name:* MAS WG Title:* Semantic Web Best Practices
Semantic Web best practices INPUT CONTRIBUTION Group Name:* MAS WG Title:* Semantic Web best practices. Semantic Web Guidelines for domain knowledge interoperability to build the Semantic Web of Things Source:* Eurecom, Amelie Gyrard, Christian Bonnet Contact: Amelie Gyrard, [email protected], Christian Bonnet, [email protected] Date:* 2014-04-07 Abstract:* This contribution proposes to describe the semantic web best practices, semantic web tools, and existing domain ontologies for uses cases (smart home and health). Agenda Item:* Tbd Work item(s): MAS Document(s) Study of Existing Abstraction & Semantic Capability Enablement Impacted* Technologies for consideration by oneM2M. Intended purpose of Decision document:* Discussion Information Other <specify> Decision requested or This is an informative paper proposed by the French Eurecom institute as a recommendation:* guideline to MAS contributors on Semantic web best practices, as it was suggested during MAS#9.3 call. Amélie Gyrard is a new member in oneM2M (via ETSI PT1). oneM2M IPR STATEMENT Participation in, or attendance at, any activity of oneM2M, constitutes acceptance of and agreement to be bound by all provisions of IPR policy of the admitting Partner Type 1 and permission that all communications and statements, oral or written, or other information disclosed or presented, and any translation or derivative thereof, may without compensation, and to the extent such participant or attendee may legally and freely grant such copyright rights, be distributed, published, and posted on oneM2M’s web site, in whole or in part, on a non- exclusive basis by oneM2M or oneM2M Partners Type 1 or their licensees or assignees, or as oneM2M SC directs. -
Development of a Genetic Multicolor Cell Labeling Approach for Neural
Development of a genetic multicolor cell labeling approach for neural circuit analysis in Drosophila Dafni Hadjieconomou January 2013 Division of Molecular Neurobiology MRC National Institute for Medical Research The Ridgeway Mill Hill, London NW7 1AA U.K. Department of Cell and Developmental Biology University College London A thesis submitted to the University College London for the degree of Doctor of Philosophy Declaration of authenticity This work has been completed in the laboratory of Iris Salecker, in the Division of Molecular Neurobiology at the MRC National Institute for Medical Research. I, Dafni Hadjieconomou, declare that the work presented in this thesis is the result of my own independent work. Any collaborative work or data provided by others have been indicated at respective chapters. Chapters 3 and 5 include data generated and kindly provided by Shay Rotkopf and Iris Salecker as indicated. 2 Acknowledgements I would like to express my utmost gratitude to my supervisor, Iris Salecker, for her valuable guidance and support throughout the entire course of this PhD. Working with you taught me to work with determination and channel my enthusiasm in a productive manner. Thank you for sharing your passion for science and for introducing me to the colourful world of Drosophilists. Finally, I must particularly express my appreciation for you being very understanding when times were difficult, and for your trust in my successful achieving. Many thanks to my thesis committee, Alex Gould, James Briscoe and Vassilis Pachnis for their quidance during this the course of this PhD. I am greatly thankful to all my colleagues and friends in the lab. -
Department of Chemistry
Department of Chemistry In the 2005–2006 academic year, the Department of Chemistry continued its strong programs in undergraduate and graduate education. Currently there are 245 graduate students, 93 postdoctoral researchers, and 92 undergraduate chemistry majors. As of July 1, 2006, the Department faculty will comprise 32 full-time faculty members including 5 assistant, 4 associate, and 23 full professors, one an Institute Professor. In the fall, Professor Joseph P. Sadighi was promoted to associate professor without tenure, effective July 1, 2006; in the spring, Professor Timothy F. Jamison was promoted to associate professor with tenure, also effective July 1, 2006. In September 2005, Professor Arup K. Chakraborty took up a joint senior appointment as the Robert T. Haslam professor of chemical engineering, professor of chemistry, and professor of biological engineering. Professor Chakraborty obtained his PhD in chemical engineering at the University of Delaware. He came to MIT from the University of California at Berkeley, where he served as the Warren and Katherine Schlinger distinguished professor and chair of chemical engineering, and professor of chemistry from 2001 to 2005. Highlights The Department of Chemistry had a wonderful year. On October 2, 2005, we learned that Professor Richard R. Schrock, Frederick G. Keyes professor of chemistry, had won the 2005 Nobel Prize in chemistry for the development of a chemical reaction now used daily in the chemical industry for the efficient and more environmentally friendly production of important pharmaceuticals, fuels, synthetic fibers, and many other products. Schrock Professor Richard R. Schrock speaking at a press shared the prize with Yves Chauvin of the conference at MIT on October 5, 2005. -
TWIM Spring 2015
SPRING 2015 No. 7 16 Ruth and Uri Arnon A legacy of scientific discovery 10 Spotlight on Dimitris Chorafas 40 Major league magnets From the President Dear Friends, This is a special issue of Weizmann Magazine as it has a new “app” that will allow you to read issue after issue by pulling it from a virtual bookshelf on your device. It is also a special issue because our cover story high- lights the quintessential Weizmann Institute couple: Prof. Ruth and Dr. Uriel Arnon, who recently gave a transformational gift for the establishment of the Ruth and Uriel Arnon Science Education Campus adjacent to the Weizmann Institute. Ruth’s career in science touches so many aspects of what the best possible science is all about—discovery and commercializa- tion, a commitment to the next generation of scientific leaders, and investment at a national level to ensure the vibrancy of science and technology for all of Israel. In this issue, you will also read about a major area of new emphasis, nuclear magnetic resonance research. This area is enabling scientists from a variety of fields to watch biological processes in action at super-high resolution, and examine and refine non-biological phenomena such as artificial nano-materials like never before. It is a new horizon and The Weizmann Institute has historically led in this field and recently recruited several young scientists who will enable us to move forward, in a dramatic way, in NMR. Last but not least: This year we are celebrating 50 years Credits since the establishment of diplomatic relations between Israel and Germany, a relationship that was, in great part, an A publication of the Department of Resource outgrowth of scientific ties between the Weizmann Institute Development and the Department of Media Relations and the Max Planck Society. -
CHEMISTRY Life in an RNA World
wint'00.html Vol. I U · C H E M I S T R Y Life in an RNA World by Donald H. Burke, Assistant Professor of Chemistry Donald Burke joined the chemistry department as an assistant professor after receiving a PhD at the University of Califormia, Berkeley, and postdoctoral studies at the University of Colorado. We are indebted to him for this summary of the ongoing efforts in his and others' laborotories in this exciting research area. The Editors RNA-based life? It is the sort of thing they might have used on Star Trek, if they could have found a way to work it into the plot. They had creatures made from gigantic crystals, swarms of microscopic robots with a collective consciousness, and creatures that floated through outer space. Vulcan biochemistry was different enough that it used copper in place of iron to carry oxygen. Why not a cellular life form devoid of proteins, that used RNA molecules to perform catalysis and maintain genetic information? For the most part, if a macromolecule is doing work in a cell here on earth, that molecule is a protein, with a few notable, but isolated exceptions. Does it have to be that way? Can RNA replace proteins or even repair metabolic damage wrought by proteins that misbehave? The question lies at the heart of some avenues of biomedical and microbial engineering, and the answer may reveal much about the earliest forms of life on earth. The last four decades have seen a steady shift in the perception of RNA's role in biology. -
2020 Stanford Bio-X Fellowship Brochure
STANFORD BIO-X PHD FELLOWSHIPS 2020 Stanford Bio-X Fellows Group Photo 2019 The Stanford Bio-X Graduate Fellowships The mission of the Stanford Bio-X Program is to catalyze discovery by crossing the boundaries between disciplines to bring interdisciplinary solutions, to create new knowl- edge of biological systems, and to benefit human health. Since it was established in 1998, Stanford Bio-X has charted a new approach to life science research by bringing together clinical experts, life scientists, engineers, and others to tackle the complexity of the human body. Currently over 980 Stanford Faculty and over 8,000 students, postdocs, researchers, etc. are affiliated with Stanford Bio-X. The generous support from donors, including the Bowes Foundation, enables the program to remain successful—at any given time, Stanford Bio-X is training at least 60 Ph.D fellows, and Fall 2020 brings 21 new fellows to the program. The Stanford Bio-X Graduate Fellowship Program was started to answer the need for training a new breed of visionary science leaders capable of crossing the bound- aries between disciplines in order to bring novel research endeavors to fruition. Since its inception in 2004, the three-year fellowships, including the Stanford Bio-X Bowes Fellowships and the Bio-X Stanford Interdisciplinary Graduate Fellowships (Bio-X SIGFs), have provided 318 graduate students with awards to pursue interdisciplinary research and to collaborate with multiple mentors, enhancing their potential to gen- erate profound transformative discoveries. Stanford Bio-X Fellows become part of a larger Stanford Bio-X community of learning that encourages their further networking and development. -
Mosher History
VI. PROFESSORS, BRIEF BIOGRAPHICAL SUMMARIES 1976-2000 These brief biographical summaries, listed in the order of their appointments to the faculty, are not intended to be complete and will of course become out of date after the year 2000. The reader is referred to contemporary volumes of American Men and Women of Science for more information and to the ACS Directory of Graduate Research for publication lists. JAMES MURRAY LUCK. Biochem. B.S. Toronto, Ph.D. Cambridge, England, 1925. Student of J.B.S. Haldane and Sir Gowland Hopkins. Demonstrator Toronto, 1925-26; Asst. Prof. to Prof., Stanford 1926-34, Prof. 1934-65; Emeritus 1965. “1856 Exhibitor Research Scholarship”. Founding editor of Annual Reviews of Biochemistry and the many subsequent Annual Reviews Series in other fields. Fellow AAAS, Fellow Calif. Acad. Sci. Born Paris, Ontario, Canada 1898. Died Stanford 8/26/1993. WILLIAM ANDREW BONNER. Org. Chem. A.B. Harvard, Ph.D. Northwestern, 1944. Student of C.D. Hurd. Instr. to Prof., Stanford 1946-59, Prof. 1959-83, Emeritus 1983. Guggenheim Fellow ETH, Zurich, Switzerland 1953. Born Chicago 1919. RICHARD HALLENBECK EASTMAN. Org. Chem. A.B. Princeton, Ph.D. Harvard, 1944. Student of R.B. Woodward. Asst. Harvard 1944-46; Instr. to Prof., Stanford 1946-59; Prof. 1959-83, Emeritus 1983. NSF Fellow, U. Marburg 1958-59. Born Erie, PA 1918. Died Stanford 6/18/2000. HARRY STONE MOSHER. Org. Chem. A.B. Willamette U., M.S. Ore. State Coll., Ph.D. Penn. State Coll. 1942. Student of F.C. Whitmore. Asst. Prof. Willamette 1939-40; Penn. State Coll.1942-47; Asst. -
158273472.Pdf
ANNUAL .2003REPCOLD SPRING HARBOR LABORATORY .1; ANNUAL REPORT 2003 © 2004 by Cold Spring Harbor Laboratory Cold Spring Harbor Laboratory One Bungtown Road Cold Spring Harbor, New York 11724 Web Site: www.cshl.edu Managing Editors Jeff Picarello, Lisa Becker Production Editor Rena Steuer Copy Editor Dorothy Brown Development Manager Jan Argentine Project Coordinators Maria Falasca, Nora Rice Production Manager Denise Weiss Desktop Editor Susan Schaefer Nonscientific Photography Miriam Chua, Bill Geddes Cover Designer Denise Weiss Book Designer Emily Harste Front cover: McClintock Laboratory (right) and Carnegie Library (left) (photos by Miriam Chua) Back cover: Magnolia Kobus on grounds of Cold Spring Harbor Laboratory (photo by Bruce Stillman) Section title pages: Miriam Chua Contents Officers of the Corporation/Board of Trusteesiv-v Governancevi Committees vii Edwin Marks (1926-2003) viii PRESIDENT'S REPORT Highlights5 CHIEF OPERATING OFFICER'S REPORT 25 50TH ANNIVERSARY OF THE DOUBLE HELIX 29 RESEARCH 47 Cancer: Gene Expression 49 Cancer: Genetics 74 Cancer: Cell Biology 106 Bioinformatics and Genomics 134 Neuroscience152 Plant Development and Genetics 199 CSHL Fellows 212 Author Index 217 WATSON SCHOOL OF BIOLOGICAL SCIENCES 219 Dean's Report 221 Courses 238 Undergraduate Research Program245 Partners for the Future 248 Nature Study 249 COLD SPRING HARBOR LABORATORY MEETINGS AND COURSES 251 Academic Affairs253 Symposium on Quantitative Biology 255 Meetings 258 Postgraduate Courses295 Seminars 353 BANBURY CENTER 355 Director's Report357 Meetings 365 DOLAN DNA LEARNING CENTER 403 Director's Report 405 Workshops, Meetings, and Collaborations 418 COLD SPRING HARBOR LABORATORY PRESS 425 Publications 426 Executive Director's Report 427 FINANCE 431 History of the CSHL Endowment 433 Financial Statements 444 Financial Support448 Grants448 Institutional Advancement 457 Capital and Program Contributions 458 Watson School of Biological Sciences Capital Campaign 459 Annual Contributions 460 LABORATORY STAFF 474 III Officers of the Corporation William R.