George Mcdonald Church (1954- ) [1]
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SIGN HERE: Informed Consent in Personalized Medicine P
SIGN HERE: Informed Consent in Personalized Medicine by Abdul-Kareem H. Ahmed B.S. Neuroscience B.A. History & Philosophy of Science University of Pittsburgh, 2012 SUBMITTED TO THE PROGRAM IN COMPARATIVE MEDIA STUDIES/WRITING IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF MASTER OF SCIENCE IN SCIENCE WRITING 4 AT THE ~AA~8f~ UUFTh NSTI 1JTE ~ MASSACHUSETTS INSTITUTE OF TECHNOLOGY SEPTEMBER 2013 p -~ , C 2013 Abdul-Kareem H. Ahmed. All rights reserved. The author hereby grants to MIT permission to reproduce and to distribute publically paper and electronic copies of this thesis document in whole or in part in any medium now known or hereafter created. Signature of Author: Department of Writing and Humanistic Studies May 17, 2013 AA Certified by: Alan Lightman Professor of the Practice of the Humanities, Creative Writing, Physics Graduate Program in Science Writing Accepted by: QSUhAA ki Assistant Professor of Science Writing Director, Graduate Program in Science Writing SIGN HERE: Informed Consent in Personalized Medicine by Abdul-Kareem H. Ahmed Submitted to the Program in Comparative Media Studies/Writing on May 17, 2013 in Partial Fulfillment of the Requirements for the Degree of Master of Science in Science Writing ABSTRACT The next era of medicine will be one of personalization, scientists and physicians promise. Personalized medicine is a refined clinical approach in which clinicians will utilize your genomic information to help you prevent disease, and tailor targeted therapies for you when you fall ill. This is the future science has slowly been approaching. However, the human genome is not enough, not unless we can decipher its language. -
Personal Genomes, Quantitative Dynamic Omics and Personalized Medicine
Quantitative Biology QB DOI 10.1007/s40484-013-0005-3 REVIEW Personal genomes, quantitative dynamic omics and personalized medicine George I. Mias and Michael Snyder* Department of Genetics, Stanford University School of Medicine, Stanford University, Stanford, CA 94305, USA * Correspondence: [email protected] Received November 1, 2012; Revised November 14, 2012; Accepted November 14, 2012 The rapid technological developments following the Human Genome Project have made possible the availability of personalized genomes. As the focus now shifts from characterizing genomes to making personalized disease associations, in combination with the availability of other omics technologies, the next big push will be not only to obtain a personalized genome, but to quantitatively follow other omics. This will include transcriptomes, proteomes, metabolomes, antibodyomes, and new emerging technologies, enabling the profiling of thousands of molecular components in individuals. Furthermore, omics profiling performed longitudinally can probe the temporal patterns associated with both molecular changes and associated physiological health and disease states. Such data necessitates the development of computational methodology to not only handle and descriptively assess such data, but also construct quantitative biological models. Here we describe the availability of personal genomes and developing omics technologies that can be brought together for personalized implementations and how these novel integrated approaches may effectively provide a precise -
Genomechronicler: the Personal Genome Project UK Genomic Report Generator Pipeline
bioRxiv preprint doi: https://doi.org/10.1101/2020.01.06.873026; this version posted September 2, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC 4.0 International license. GenomeChronicler: The Personal Genome Project UK Genomic Report Generator Pipeline José Afonso Guerra-Assunção1,2*, Lucia Conde2, Ismail Moghul3, Amy P. Webster3, Simone Ecker3, Olga Chervova3, Christina Chatzipantsiou4, Pablo P. Prieto4, Stephan Beck3, Javier Herrero2 1Infection and Immunity, University College London, London, United Kingdom 2Bill Lyons Informatics Centre, UCL Cancer Institute, University College London, London, United Kingdom 3Medical Genomics, UCL Cancer Institute, University College London, London, United Kingdom 4Lifebit, 9 Appold St, EC2A 2AP London, United Kingdom * Correspondence: Corresponding Author [email protected] Keywords: Personal Genomics, PGP-UK, Genomic Report, Open Consent, Participant Engagement, Open Source, Cloud Computing. Abstract In recent years, there has been a significant increase in whole genome sequencing data of individual genomes produced by research projects as well as direct to consumer service providers. While many of these sources provide their users with an interpretation of the data, there is a lack of free, open tools for generating reports exploring the data in an easy to understand manner. GenomeChronicler was developed as part of the Personal Genome Project UK (PGP-UK) to address this need. PGP-UK provides genomic, transcriptomic, epigenomic and self-reported phenotypic data under an open-access model with full ethical approval. -
Personal Genomes: Accessing
Name: Personal Genomes: Accessing, Sharing and Interpretation Wellcome Genome Campus Conference Centre, Hinxton, Cambridge, UK 11-12 April 2019 Scientific Programme Committee: Stephan Beck University College London, UK Mad Price Ball Open Humans Foundation, USA Manuel Corpas Cambridge Precision Medicine, UK Mahsa Shabani University of Leuven, Belgium Tweet about it: #PersGen19 @ACSCevents /ACSCevents /c/WellcomeGenomeCampusCoursesandConferences 1 Wellcome Genome Campus Scientific Conferences Team: Rebecca Twells Treasa Creavin Nicole Schatlowski Head of Advanced Courses and Scientific Programme Scientific Programme Scientific Conferences Manager Officer Jemma Beard Lucy Criddle Laura Hubbard Conference and Events Conference and Events Conference and Events Manager Organiser Organiser Sarah Offord Zoey Willard Conference and Events Office Conference and Events Administrator Organiser 2 Dear colleague, I would like to offer you a warm welcome to the Wellcome Genome Campus Advanced Courses and Scientific Conferences: Personal Genomes: Accessing, Sharing and Interpretation. I hope you will find the talks interesting and stimulating, and find opportunities for networking throughout the schedule. The Wellcome Genome Campus Advanced Courses and Scientific Conferences programme is run on a not-for-profit basis, heavily subsidised by the Wellcome Trust. We organise around 50 events a year on the latest biomedical science for research, diagnostics and therapeutic applications for human and animal health, with world-renowned scientists and clinicians involved as scientific programme committees, speakers and instructors. We offer a range of conferences and laboratory-, IT- and discussion-based courses, which enable the dissemination of knowledge and discussion in an intimate setting. We also organise invitation-only retreats for high-level discussion on emerging science, technologies and strategic direction for select groups and policy makers. -
Personal Genetics and Law Enforcement: Improving Public Safety, Ensuring Justice, and Balancing Civil Rights
Personal genetics and law enforcement: Improving public safety, ensuring justice, and balancing civil rights A Congressional briefing Organized by the Personal Genetics Education Project, Harvard Medical School In cooperation with the offices of Congresswoman Louise M. Slaughter and Senator Elizabeth Warren March 19, 2015, 12:00 – 1:30 p.m. Rayburn House Office Building Washington, D.C. Personal genetics and law enforcement: Improving public safety, ensuring justice, and balancing civil rights This briefing is the third in a series about personal genetics, as the advances in technology and research that inspired President Obama’s announcement of the Precision Medicine Initiative are bringing exciting opportunities and new challenges for health, law, business, and beyond. The briefing will begin by highlighting research that illustrates how scientists are utilizing cutting-edge tools that probe the hidden world of microbes to improve health and increase public safety. Then, a panel of experts will address the uses of DNA in the criminal justice system and emerging policy questions surrounding the acquisition, interpretation, and storage of DNA samples. The panel will explore technologies that are creating new possibilities for law enforcement to protect individuals and the implications for privacy and racial justice. These issues are central to an on-going dialogue about a safe and fair integration of genetics into society. We are very pleased to welcome the Honorable Louise M. Slaughter, House of Representatives to lend her remarks to this discussion. The panelists for this briefing will be: Claire M. Fraser, PhD, Director, Institute for Genome Sciences, University of Maryland School of Medicine Duana Fullwiley, PhD, Associate Professor of Anthropology, Stanford University Henry T. -
NIH Public Access Author Manuscript Per Med
NIH Public Access Author Manuscript Per Med. Author manuscript; available in PMC 2012 February 9. NIH-PA Author ManuscriptPublished NIH-PA Author Manuscript in final edited NIH-PA Author Manuscript form as: Per Med. 2009 November ; 6(6): 691±699. doi:10.2217/pme.09.48. Eyes wide open: the personal genome project, citizen science and veracity in informed consent Misha Angrist Duke University Institute for Genome Sciences & Policy, 450 Research Drive, Room B321A, Durham, NC 27708–21009, USA, Tel.: +1 919 684 2872, Fax: +1 919 613 6448 Misha Angrist: [email protected] Abstract I am a close observer of the Personal Genome Project (PGP) and one of the original ten participants. The PGP was originally conceived as a way to test novel DNA sequencing technologies on human samples and to begin to build a database of human genomes and traits. However, its founder, Harvard geneticist George Church, was concerned about the fact that DNA is the ultimate digital identifier – individuals and many of their traits can be identified. Therefore, he believed that promising participants privacy and confidentiality would be impractical and disingenuous. Moreover, deidentification of samples would impoverish both genotypic and phenotypic data. As a result, the PGP has arguably become best known for its unprecedented approach to informed consent. All participants must pass an exam testing their knowledge of genomic science and privacy issues and agree to forgo the privacy and confidentiality of their genomic data and personal health records. Church aims to scale up to 100,000 participants. This special report discusses the impetus for the project, its early history and its potential to have a lasting impact on the treatment of human subjects in biomedical research. -
Pardis Sabeti
Advances in personal genetics and GINA: Expanding options and protecting civil rights A Congressional briefing Organized by the Personal Genetics Education Project, Harvard Medical School In cooperation with the offices of Congresswoman Louise M. Slaughter and Senator Elizabeth Warren October 3, 2014, 12:00 – 1:30 p.m. Rayburn House Office Building Washington, D.C. Advances in personal genetics and GINA: Expanding options and protecting civil rights A safe and fair integration of genetics into society will require an informed public, in which all individuals are aware of the benefits and implications of personal genetics. This briefing, the second in a series that pgEd has been invited to organize, will begin with an update on recent advances in genetic technologies (see schedule below) and then feature the latest research from the front lines of the Ebola outbreak, highlighting how scientists are using sequencing as a tool towards curbing this epidemic. It will then focus on the Genetic Information Nondiscrimination Act (GINA), wherein a panel of experts will look ahead to new challenges arising from developments in technology, medicine, genetics, neuroscience, and beyond, highlighting the opportunities and implications for civil rights brought about by the era of personal genetics and the memory of the country’s earlier experience with eugenics. The panelists for this briefing will be: Mildred Cho, PhD, Associate Director, Stanford Center for Biomedical Ethics; Professor of Pediatrics, Stanford University James P. Evans, MD, PhD, Bryson Distinguished Professor of Genetics and Medicine, UNC School of Medicine; Director of Clincal Cancer Genetics, UNC Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill Nita Farahany, JD, PhD, Member, Presidential Commission for the Study of Bioethical Issues; Director, Duke Science and Society; Director, Duke MA in Bioethics & Science Policy; Professor of Law and Philosophy, Duke University Jessica L. -
Understanding Information Practices of Interactive Personal Genomics Users
Understanding Information Practices of Interactive Personal Genomics Users Orit Shaer Anne West Abstract Computer Science Department Wellesley College The dramatic growth in the availability of personal Wellesley College Wellesley, MA, 02481 USA genomic data to non-experts, and the use of digital Wellesley, MA, 02481 USA [email protected] media for delivering personal genomic information, [email protected] raise important HCI questions. We seek to advance the Diana Eastman theory and practice of HCI by investigating fundamental Oded Nov Computer Science Department issues concerning non-expert interaction with complex Polytechnic School of Engineering Wellesley College scientific information. Specifically, we explore how New York University Wellesley, MA, 02481 USA people use interactive tools to engage with their 5 Metrotech Center, Brooklyn, NY personal genomic information. 11201 USA [email protected] We present findings from a study of 63 early adopters of personal genomics, which highlight users’ motivations, information practices, and needs. Author Keywords Personal genomics; information practices; ACM Classification Keywords H.5.m. Information interfaces and presentation (e.g., Permission to make digital or hard copies of part or all of this work for personal or classroom use is granted without fee provided that HCI): Miscellaneous. copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on Introduction the first page. Copyrights for third-party components of this work Recent years are seeing a dramatic growth in the must be honored. For all other uses, contact the Owner/Author. availability of personal genomic data to non-experts, Copyright is held by the owner/author(s). -
The Personal Genome Project UK Genomic Report
bioRxiv preprint doi: https://doi.org/10.1101/2020.01.06.873026; this version posted January 6, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC 4.0 International license. 1 GenomeChronicler: The Personal Genome Project UK Genomic 2 Report Generator Pipeline 3 José Afonso Guerra-Assunção1*, Lúcia Conde2, Ismail Moghul3, Amy P. Webster3, Simone 4 Ecker3, Olga Chervova3, Christina Chatzipantsiou4, Pablo P. Prieto4, Stephan Beck3, Javier 5 Herrero2 6 1Infection and Immunity, University College London, London, United Kingdom 7 2Bill Lyons Informatics Centre, UCL Cancer Institute, University College London, London, United 8 Kingdom 9 3Medical Genomics, UCL Cancer Institute, University College London, London, United Kingdom 10 4Lifebit, The Bower, 207 Old Street, London, United Kingdom 11 * Correspondence: 12 Corresponding Author 13 [email protected] 14 Keywords: Personal Genomics, PGP-UK, Genomic Report, Open Consent, Participant 15 Engagement, Open Source, Cloud Computing. 16 Abstract 17 In recent years, there has been a significant increase in whole genome sequencing data of individual 18 genomes produced by research projects as well as direct to consumer service providers. While many 19 of these sources provide their users with an interpretation of the data, there is a lack of free, open 20 tools for generating similar reports exploring the data in an easy to understand manner. 21 GenomeChronicler was written as part of the Personal Genome Project UK (PGP-UK) project to 22 address this need. -
Acuity Spatial Genomics Announces Formation to Open up New Frontiers for in Situ, Spatial 3D Genomics
NEWS RELEASE Acuity Spatial Genomics Announces Formation to Open up New Frontiers for in situ, Spatial 3D Genomics 3/18/2021 Acuity Technology Enables the Possibility to See the 3D Genome in situ and at Single-Cell and Sub-Cellular Resolution SAN JOSE, Calif. & BOSTON--(BUSINESS WIRE)-- Acuity Spatial Genomics, Inc. today announced the completion of a majority investment by Bruker Corporation (Nasdaq: BRKR). Acuity is a new venture focused on opening a new frontier in spatial 3D genomics and multiomic analyses for discovery. The novel technology platform of Acuity Spatial Genomics, enabled by an exclusive license to innovations from Harvard University, allows progress in genome-wide visualization of spatially resolved 3D chromatin architecture in individual cells and cell populations in situ. The company’s single-cell technology of OligoFISSEQ™ and accelerated super-resolution technology of OligoFISSEQ HD™ will make it possible for researchers to make a range of in situ discoveries—gaining insight into the 3D relationships between chromosomes, gene identities and their spatial position in the nucleus; physical gene positioning on chromosomes; chromosome 3D conformation; chromosome and gene copy number variation; chromosomal compartments, TADs and loops; and spatially resolved enhancer-promoter interactions. These unique spatially resolved genomic measurements and their relationships to information in the transcriptome and proteome provide critical context in understanding the complete multiomic picture. Acuity Spatial Genomics leverages patented innovations developed in the lab of Ting Wu, PhD, Professor of Genetics in the Blavatnik Institute at Harvard Medical School (HMS). Wu’s lab and her collaborators developed innovations that multiplex Oligopaint pipeline protocols and reagent methods and analysis techniques to create a shorter time-to-result and more cost-eective approach to directly visualize the genome—spatially and in situ. -
2018 Summer Reading Reader's Guide
“Charlie Numbers and the Man in the Moon” 2018 Summer Reading Reader’s Guide Name: ___________________________ Boston Public Schools 2018 Generously sponsored by Vertex Pharmaceuticals, Inc. Dear Reader: “WOW! I can’t tell you how much I enjoyed reading the book! I totally didn’t expect it to end the way it did. I couldn’t stop reading it! I can definitely see this being an animated movie someday!” - Daniel Miller, Fox News We hope that Summer Reading Together will engage you and your classmates in the same grade as you share the experience of reading and talking about the same book over the summer and at the beginning of the school year. This reading guide has been put together by the Boston Public Schools, in collaboration with STEAM (science, technology, engineering, art, and math) experts from across Boston. Vocabulary: While reading we know you may encounter some new words. Some are scientific terms like tensile, which means capable of being stretched out. You may stumble over others as you read this novel. If it’s really confusing you could ask someone to explain the meaning of the word or you can Google the word. Listed below are a few words that you will encounter in Chapter One. We looked them up for you. Atrium: a n opened roof entrance hall. Predicament: a difficult, unpleasant or embarrassing situation. Vertigo: feeling as if you are spinning when you are standing still. Inadvertently: a ccidentally Knack: a natural skill for completing a task. Your Assignment: This summer, read your text for about 20 minutes per session for about three to four times per week. -
Effects of Chromosomal Rearrangements on Transvection at the Yellow Gene of Drosophila Melanogaster
Genetics: Published Articles Ahead of Print, published on August 10, 2009 as 10.1534/genetics.109.106559 Effects of chromosomal rearrangements on transvection at the yellow gene of Drosophila melanogaster Sharon A. Ou*, Elaine Chang†, Szexian Lee†, Katherine So†, C.-ting Wu*1, James R. Morris*†1 *Department of Genetics, Harvard Medical School, Boston, MA 02115, †Department of Biology, Brandeis University, Waltham, MA 02453 1Corresponding authors 1 Running head: Somatic homologue pairing in Drosophila Key words or phrases: Chromosomes, homology, nuclear organization, somatic pairing, transvection 1Corresponding authors: C.-ting Wu Department of Genetics 77 Avenue Louis Pasteur, NRB 264 Boston, MA 02115 (617) 432-4431 Office (617) 432-7663 FAX [email protected] James R. Morris Department of Biology Brandeis University Waltham, MA 02453 (781) 736-3119 Office (781) 736-3107 FAX [email protected] 2 ABSTRACT Homologous chromosomes are paired in somatic cells of Drosophila melanogaster. This pairing can lead to transvection, which is a process by which the proximity of homologous genes can lead to a change in gene expression. At the yellow gene, transvection is the basis for several examples of intragenic complementation involving the enhancers of one allele acting in trans on the promoter of a paired second allele. Using complementation as our assay, we explored the chromosomal requirements for pairing and transvection at yellow. Following a protocol established by ED LEWIS, we generated and characterized chromosomal rearrangements to define a region in cis to yellow that must remain intact in order for complementation to occur. Our data indicate that homologue pairing at yellow is efficient, as complementation was disrupted only in the presence of chromosomal rearrangements that break ≤650 kbp from yellow.