MECHANISMS of DEVELOPMENT Now Continued As Cells & Development
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Dynamical Gene Regulatory Networks Are Tuned by Transcriptional Autoregulation with Microrna Feedback Thomas G
www.nature.com/scientificreports OPEN Dynamical gene regulatory networks are tuned by transcriptional autoregulation with microRNA feedback Thomas G. Minchington1, Sam Grifths‑Jones2* & Nancy Papalopulu1* Concepts from dynamical systems theory, including multi‑stability, oscillations, robustness and stochasticity, are critical for understanding gene regulation during cell fate decisions, infammation and stem cell heterogeneity. However, the prevalence of the structures within gene networks that drive these dynamical behaviours, such as autoregulation or feedback by microRNAs, is unknown. We integrate transcription factor binding site (TFBS) and microRNA target data to generate a gene interaction network across 28 human tissues. This network was analysed for motifs capable of driving dynamical gene expression, including oscillations. Identifed autoregulatory motifs involve 56% of transcription factors (TFs) studied. TFs that autoregulate have more interactions with microRNAs than non‑autoregulatory genes and 89% of autoregulatory TFs were found in dual feedback motifs with a microRNA. Both autoregulatory and dual feedback motifs were enriched in the network. TFs that autoregulate were highly conserved between tissues. Dual feedback motifs with microRNAs were also conserved between tissues, but less so, and TFs regulate diferent combinations of microRNAs in a tissue‑dependent manner. The study of these motifs highlights ever more genes that have complex regulatory dynamics. These data provide a resource for the identifcation of TFs which regulate the dynamical properties of human gene expression. Cell fate changes are a key feature of development, regeneration and cancer, and are ofen thought of as a “land- scape” that cells move through1,2. Cell fate changes are driven by changes in gene expression: turning genes on or of, or changing their levels above or below a threshold where a cell fate change occurs. -
Mothers in Science
The aim of this book is to illustrate, graphically, that it is perfectly possible to combine a successful and fulfilling career in research science with motherhood, and that there are no rules about how to do this. On each page you will find a timeline showing on one side, the career path of a research group leader in academic science, and on the other side, important events in her family life. Each contributor has also provided a brief text about their research and about how they have combined their career and family commitments. This project was funded by a Rosalind Franklin Award from the Royal Society 1 Foreword It is well known that women are under-represented in careers in These rules are part of a much wider mythology among scientists of science. In academia, considerable attention has been focused on the both genders at the PhD and post-doctoral stages in their careers. paucity of women at lecturer level, and the even more lamentable The myths bubble up from the combination of two aspects of the state of affairs at more senior levels. The academic career path has academic science environment. First, a quick look at the numbers a long apprenticeship. Typically there is an undergraduate degree, immediately shows that there are far fewer lectureship positions followed by a PhD, then some post-doctoral research contracts and than qualified candidates to fill them. Second, the mentors of early research fellowships, and then finally a more stable lectureship or career researchers are academic scientists who have successfully permanent research leader position, with promotion on up the made the transition to lectureships and beyond. -
BSCB Newsletter 2017D
2017 BSCB Newsletter BRITISH SOCIETY FOR CELL BIOLOGY Meet the new BSCB President Royal Opening of the Crick Meeting reports 2017 CONTENTS BSCB Newsletter News 2 Book reviews 7 Features 8 Meeting Reports 24 Summer students 30 Society Business 33 Editorial Welcome to the 2017 BSCB newsletter. After several meeting hosted several well received events for our Front cover: years of excellent service, Kate Nobes has stepped PhD and Postdoc members, which we discuss on The head of a Drosophila pupa. The developing down and handed the reins over to me. I’ve enjoyed page 5. Our PhD and Postdoc reps are working hard compound eye (green) is putting together this years’ newsletter. It’s been great to make the event bigger and better for next year! The composed of several hundred simple units called ommatidia to hear what our members have been up to, and I social events were well attended including the now arranged in an extremely hope you will enjoy reading it. infamous annual “Pub Quiz” and disco after the regular array. The giant conference dinner. Members will be relieved to know polyploidy cells of the fat body (red), the fly equivalent of the The 2016 BSCB/DB spring meeting, organised by our we aren’t including any photos from that here. mammalian liver and adipose committee members Buzz Baum (UCL), Silke tissue, occupy a big area of the Robatzek and Steve Royle, had a particular focus on In this issue, we highlight the great work the BSCB head. Cells and Tissue Architecture, Growth & Cell Division, has been doing to engage young scientists. -
BIOCHIMIE an International Journal of Biochemistry and Molecular Biology
BIOCHIMIE An International Journal of Biochemistry and Molecular Biology AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.1 • Impact Factor p.1 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.4 ISSN: 0300-9084 DESCRIPTION . Published under the auspices of the Société Française de Biochimie et Biologie Moléculaire. Biochimie publishes original research articles, short communications, review articles, graphical reviews, mini-reviews, and hypotheses in the broad areas of biology, including biochemistry, enzymology, molecular and cell biology, metabolic regulation, genetics, immunology, microbiology, structural biology, genomics, proteomics, and molecular mechanisms of disease. Biochimie publishes exclusively in English. Articles are subject to peer review, and must satisfy the requirements of originality, high scientific integrity and general interest to a broad range of readers. Submissions that are judged to be of sound scientific and technical quality but do not fully satisfy the requirements for publication in Biochimie may benefit from a transfer service to a more suitable journal within the same subject area. AUDIENCE . Biochemists, Biophysicists, Molecular Biologists, Geneticists, Immunologists, Microbiologists, Cytologists. IMPACT FACTOR . 2020: 4.079 © Clarivate Analytics Journal Citation Reports 2021 AUTHOR INFORMATION PACK 24 Sep 2021 www.elsevier.com/locate/biochi 1 ABSTRACTING AND INDEXING . Current Contents - Life Sciences EMBiology BIOSIS Citation Index Chemical Abstracts Pascal Francis Embase PubMed/Medline Science Citation Index Elsevier BIOBASE Scopus EDITORIAL BOARD . Chief Editor Bertrand Friguet, Sorbonne University, Paris, France Editors Xavier Coumoul, University of Paris, Paris, France Olga A. Dontsova, Lomonosov Moscow State University, Moscow, Russia Russian Federation Claude Forest, Institute of Development Research, Marseille, France Jeffrey M. -
Analysis of Murine Homeobox Genes Anthony Graham
ANALYSIS OF MURINE HOMEOBOX GENES ANTHONY GRAHAM Thesis for the Degree of Doctor of Philosophy Division of Eukaryotic Molecular Genetics National In s titu te fo r Medical Research The Ridgeway, M ill H ill London NW7 1AA Univeristy College London Gower Street London WC1E 6BT November, 1989 ProQuest Number: 10611102 All rights reserved INFORMATION TO ALL USERS The quality of this reproduction is dependent upon the quality of the copy submitted. In the unlikely event that the author did not send a com plete manuscript and there are missing pages, these will be noted. Also, if material had to be removed, a note will indicate the deletion. uest ProQuest 10611102 Published by ProQuest LLC(2017). Copyright of the Dissertation is held by the Author. All rights reserved. This work is protected against unauthorized copying under Title 17, United States C ode Microform Edition © ProQuest LLC. ProQuest LLC. 789 East Eisenhower Parkway P.O. Box 1346 Ann Arbor, Ml 48106- 1346 This thesis is dedicated to my mother and father. i i The work in this thesis is original except where stated. The sequences used for comparisons in Chapter 3 were not determined by the author but were either from publications from other laboratories or from other members of the laboratory. Anthony Graham: ABSTRACT The work in this thesis is consistent with , and strengthens, suggestions that murine homeobox genes play a role in the establishment of regional specification. It is shown that there is a correlation between the physical order of members of the Hox 2 cluster and their order of expression along the rostrocaudal axis, such that each more 3' gene is expressed more rostrally. -
Progress in Retinal and Eye Research
PROGRESS IN RETINAL AND EYE RESEARCH AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.1 • Impact Factor p.1 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.3 ISSN: 1350-9462 DESCRIPTION . By invitation leading experts write on basic and clinical aspects of the eye in a style appealing to molecular biologists, neuroscientists and physiologists, as well as to vision researchers and ophthalmologists. The journal covers all aspects of eye research, including topics pertaining to the retina and pigment pithelial layer, cornea, tears, lacrimal glands, aqueous humour, iris, ciliary body, trabeculum, lens, vitreous humour and diseases such as dry-eye, inflammation, keratoconus, corneal dystrophy, glaucoma and cataract. Benefits to authors We also provide many author benefits, such as free PDFs, a liberal copyright policy, special discounts on Elsevier publications and much more. Please click here for more information on our author services . Please see our Guide for Authors for information on article submission. If you require any further information or help, please visit our Support Center Any queries with proposals for review articles can be sent directly to the Editor in Chief: Neville Osborne [email protected] AUDIENCE . Ophthalmologists and neuroscientists. IMPACT FACTOR . 2020: 21.198 © Clarivate Analytics Journal Citation Reports 2021 AUTHOR INFORMATION PACK 4 Oct 2021 www.elsevier.com/locate/preteyeres 1 ABSTRACTING AND INDEXING . PubMed/Medline Elsevier BIOBASE Ocular R Chemical Abstracts Embase Current Contents - Life Sciences Web of Science Research Alert Scopus EDITORIAL BOARD . Editor-in-Chief: Contact the Editor Neville Osborne, University of Oxford Nuffield Laboratory of Ophthalmology, Headley Way, OX3 9DU, Oxford, United Kingdom Advisory Board P. -
CHEMICO-BIOLOGICAL INTERACTIONS a Journal of Molecular, Cellular and Biochemical Toxicology
CHEMICO-BIOLOGICAL INTERACTIONS A journal of molecular, cellular and biochemical toxicology AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.1 • Impact Factor p.1 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.4 ISSN: 0009-2797 DESCRIPTION . Chemico-Biological Interactions publishes research reports and review articles that examine the molecular, cellular, and/or biochemical basis of toxicologically relevant outcomes. Special emphasis is placed on toxicological mechanisms associated with interactions between chemicals and biological systems. Outcomes may include all traditional endpoints caused by synthetic or naturally occurring chemicals, both in vivo and in vitro. Endpoints of interest include, but are not limited to carcinogenesis, mutagenesis, respiratory toxicology, neurotoxicology, reproductive and developmental toxicology, and immunotoxicology. CBI discourages papers that are descriptive in nature and that do not address toxicological mechanisms (e.g., reports of toxicological effects following chemical exposure in absence of mechanistic experiments). CBI also discourages papers reporting on toxicological effects from materials, such as plant extracts or herbal medicines, that have not been chemically characterized. Benefits to authors We also provide many author benefits, such as free PDFs, a liberal copyright policy, special discounts on Elsevier publications and much more. Please click here for more information on our author services . Please see our Guide for Authors for information on article submission. If you require any further information or help, please visit our Support Center AUDIENCE . Biochemists, Biologists, Cell Biologists, Toxicologists. IMPACT FACTOR . 2020: 5.192 © Clarivate Analytics Journal Citation Reports 2021 AUTHOR INFORMATION PACK 1 Oct 2021 www.elsevier.com/locate/chembioint 1 ABSTRACTING AND INDEXING . -
TOXICOLOGY in VITRO Official Journal of the European Society of Toxicology in Vitro
TOXICOLOGY IN VITRO Official Journal of the European Society of Toxicology in Vitro AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.2 • Impact Factor p.2 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.4 ISSN: 0887-2333 DESCRIPTION . Toxicology in Vitro publishes original research papers, reviews and workshop reports focusing on the application and use of in vitro and in silico systems for toxicological evaluations (collectively described as New Approach Methodologies (NAM)). This includes the utilisation or the development of NAMs for assessing the potential adverse effects of chemicals for human safety assessment. In vitro techniques include primary cells, tissue slices, cell lines and stem cells (adult, embryonic and induced Pluripotent cells) or subcellular preparations thereof. Our journal strongly supports the Reduction, Refinement and Replacement (3R) of animals in toxicology evaluations. This is a wide topic and thus we have certain preferences including: Development of in vitro techniques and their application to research and regulatory use (i.e. 3R principle. Mechanistic underpinning of data. Ability to translate outcome to human safety assessment.We strongly encourage : The use of normal (non-transformed) human cells (where appropriate). Reporting the Short Tandem Repeat (STR) profile of the cells used (especially when cells have been provided as a gift or generated in house). Free access to raw (or primary) data. Appropriate model characterisation. The use (or reduction) of animal free components, including serum. [Especially when the system was already developed under such conditions, such as the HK-2 cell line]. Attention to detailed methodology and appropriate statistics. -
Stochasticity in the Mir-9/Hes1 Oscillatory Network Can Account For
RESEARCH ARTICLE Stochasticity in the miR-9/Hes1 oscillatory network can account for clonal heterogeneity in the timing of differentiation Nick E Phillips1, Cerys S Manning1†, Tom Pettini1†, Veronica Biga1†, Elli Marinopoulou1†, Peter Stanley1†, James Boyd1, James Bagnall1, Pawel Paszek1, David G Spiller1, Michael RH White1, Marc Goodfellow2,3,4, Tobias Galla5, Magnus Rattray1, Nancy Papalopulu1* 1Faculty of Biology, Medicine and Health, University of Manchester, Manchester, United Kingdom; 2College of Engineering, Mathematics and Physical Sciences, University of Exeter, Exeter, United Kingdom; 3Centre for Biomedical Modelling and Analysis, University of Exeter, Exeter, United Kingdom; 4EPSRC Centre for Predictive Modelling in Healthcare, University of Exeter, Exeter, United Kingdom; 5Theoretical Physics, School of Physics and Astronomy, University of Manchester, Manchester, United Kingdom Abstract Recent studies suggest that cells make stochastic choices with respect to differentiation or division. However, the molecular mechanism underlying such stochasticity is unknown. We previously proposed that the timing of vertebrate neuronal differentiation is *For correspondence: nancy. regulated by molecular oscillations of a transcriptional repressor, HES1, tuned by a post- [email protected] transcriptional repressor, miR-9. Here, we computationally model the effects of intrinsic noise on the Hes1/miR-9 oscillator as a consequence of low molecular numbers of interacting species, †These authors contributed determined experimentally. We report that increased stochasticity spreads the timing of equally to this work differentiation in a population, such that initially equivalent cells differentiate over a period of time. Competing interests: The Surprisingly, inherent stochasticity also increases the robustness of the progenitor state and lessens authors declare that no the impact of unequal, random distribution of molecules at cell division on the temporal spread of competing interests exist. -
Editorial Board
Editor-in-Chief Prof. Dr. med. Friedrich Paulsen: Institut of Anatomie LST 11, University Erlangen-Nuremberg Universitätsstraße 19, 91054 Erlangen, Germany Tel.: ++49 (0) 9131-8522865; Fax: ++49 (0) 9131-8522862 E-Mail: [email protected] Honorary Editor Prof. Dr. Drs. h. c. W. Kühnel? Editors Mohammad Javed Ali, Telangana, India Friedrich Anderhuber ?, Graz, Austria Doychin Angelov, Cologne, Germany Eveline Baumgart-Vogt, Giessen, Germany Beate Brand-Saberi, Bochum, Germany Ingo Bechmann, Leipzig, Germany Cordian Beyer, Aachen, Germany Lars Bräuer, Erlangen-Nürnberg, Germany Faramarz Dehghani, Halle/Saale, Germany Felix Eckstein, Salzburg, Austria Karlhans Endlich, Greifswald, Germany Süleyman Ergün, Wurzburg, Germany Jochen Fanghänel, Regensburg, Germany Helga Fritsch, Innsbruck, Austria Bernhard Hirt, Tübingen, Germany Friedhelm Heinemann, Greifswald, Germany Masataka Ito, Tokorozawa, Japan Mitsuhiro Kawata, Kyoto, Japan Heike Kielstein, Halle/Saale, Germany Lars Klimaschewski, Innsbruck, Austria Thomas Klonisch, Winnipeg, Manitoba, Canada Horst-Werner Korf, Frankfurt, Germany Christian Krischnek, Regensburg, Germany Rolf Mentlein, Kiel, Germany Adalberto Merighi, Grugliasco (Turin), Italy Ralf Middendorff, Giessen, Germany Christian Mühlfeld, Hannover, Germany Matthias Ochs, Hannover, Germany Thomas Pufe, Aachen, Germany Fabio Quondamatteo, Glasgow, United Kingdom Gabriele Rune, Hamburg, Germany Mugurel Constantin Rusu, Bucharest, Romania Martin Scaal, Cologne, Germany Michael Scholz, Erlangen, Germany Mehdi Shakibaei, Munich, -
Journal of Biotechnology
JOURNAL OF BIOTECHNOLOGY AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.1 • Impact Factor p.1 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.4 ISSN: 0168-1656 DESCRIPTION . Journal of Biotechnology provides a medium for the rapid publication of both full-length articles and short communications on novel and innovative aspects of biotechnology. The Journal will accept papers ranging from genetic or molecular biological positions to those covering biochemical, chemical or bioprocess engineering aspects as well as computer application of new software concepts, provided that in each case the material is directly relevant to biotechnological systems. Papers presenting information of a multidisciplinary nature that would not be suitable for publication in a journal devoted to a single discipline, are particularly welcome. The following areas are covered in the Journal: * Nucleic Acids/Molecular Biology * Physiology/Biochemistry * Biochemical Engineering/Bioprocess Engineering * Industrial Processes/New Products * Medical Biotechnology * Agro- and Food Biotechnology * Genomics and Bioinformatics More information on these areas can be foundhere Benefits to authors We also provide many author benefits, such as free PDFs, a liberal copyright policy, special discounts on Elsevier publications and much more. Please click here for more information on our author services. Please see our Guide for Authors for information on article submission. If you require any further information or help, please visit our Support Center AUDIENCE . Microbiologists, Molecular Biologists, Environmental Scientists, Genetic Engineers. IMPACT FACTOR . 2020: 3.307 © Clarivate Analytics Journal Citation Reports 2021 AUTHOR INFORMATION PACK 28 Sep 2021 www.elsevier.com/locate/jbiotec 1 ABSTRACTING AND INDEXING . -
DEVELOPMENTAL BIOLOGY an Official Journal of the Society for Developmental Biology
DEVELOPMENTAL BIOLOGY An official journal of the Society for Developmental Biology AUTHOR INFORMATION PACK TABLE OF CONTENTS XXX . • Description p.1 • Audience p.1 • Impact Factor p.1 • Abstracting and Indexing p.2 • Editorial Board p.2 • Guide for Authors p.5 ISSN: 0012-1606 DESCRIPTION . Developmental Biology (DB) publishes original research on mechanisms of development, differentiation, growth, homeostasis and regeneration in animals and plants at the molecular, cellular, genetic and evolutionary levels. Areas of particular emphasis include transcriptional control mechanisms, embryonic patterning, cell-cell interactions, growth factors and signal transduction, and regulatory hierarchies in developing plants and animals. Research Areas Include: Regulation of stem cells and regeneration Gene regulatory networks Morphogenesis and self organization Differentiation in vivo and in vitro (organoids) Growth factors and oncogenes Genetics and epigenetics of development Evolution of developmental control Analysis of development at the single cell level DB authors can choose among a selection of article types- research papers, short communications, technical reports, resource papers, reviews and perspectives - and benefit from academic editors who are practicing scientists, fast publication, no color figures or page charges, flexible publication (open access or subscription) and a vast readership with more than 3 million downloads a year. Subscription articles published in Developmental Biology will become accessible to non-subscribers 12 months after publication on ScienceDirect. SDB members benefit from immediate free online access to all published articles. For queries please contact our editorial office at [email protected] AUDIENCE . Cell and Developmental biologists. Focuses on: mechanisms of development, differentiation, and growth in animals and plants. IMPACT FACTOR . 2020: 3.582 © Clarivate Analytics Journal Citation Reports 2021 AUTHOR INFORMATION PACK 24 Sep 2021 www.elsevier.com/locate/ydbio 1 ABSTRACTING AND INDEXING .