SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse
Por:
Koopmans, F, van Nierop, P, Andres-Alonso, M, Bymes, A, Cijsouw, T, Coba, MP, Cornelisse, LN, Farrell, RJ, Goldschmidt, HL, Howrigan, DP, Hussain, NK, Imig, C, de Jong, APH, Jung, H, Kohansalnodehi, M, Kramarz, B, Lipstein, N, Lovering, RC, MacGillavry, H, Mariano, V, Mi, HY, Ninov, M, Osumi-Sutherland, D, Pielot, R, Smalla, KH, Tang, HM, Tashman, K, Toonen, RFG, Verpelli, C, Reig-Viader, R, Watanabe, K, van Weering, J, Achsel, T, Ashrafi, G, Asi, N, Brown, TC, De Camilli, P, Feuermann, M, Foulger, RE, Gaudet, P, Joglekar, A, Kanellopoulos, A, Malenka, R, Nicoll, RA, Pulido, C, de Juan-Sanz, J, Sheng, M, Sudhof, TC, Tilgner, HU, Bagni, C, Bayes, A, Biederer, T, Brose, N, Chua, JJE, Dieterich, DC, Gundelfinger, ED, Hoogenraad, C, Huganir, RL, Jahn, R, Kaeser, PS, Kim, E, Kreutz, MR, McPherson, PS, Neale, B, O'Connor, V, Posthuma, D, Ryan, TA, Sala, C, Feng, GP, Hyman, SE, Thomas, PD, Smit, AB, Verhage, M
Publicada:
17 jul 2019
Resumen:
Synapses are fundamental information-processing units of the brain, and synaptic dysregulation is central to many brain disorders ("synaptopathies''). However, systematic annotation of synaptic genes and ontology of synaptic processes are currently lacking. We established SynGO, an interactive knowledge base that accumulates available research about synapse biology using Gene Ontology (GO) annotations to novel ontology terms: 87 synaptic locations and 179 synaptic processes. SynGO annotations are exclusively based on published, expert-curated evidence. Using 2,922 annotations for 1,112 genes, we show that synaptic genes are exceptionally well conserved and less tolerant to mutations than other genes. Many SynGO terms are significantly overrepresented among gene variations associated with intelligence, educational attainment, ADHD, autism, and bipolar disorder and among de novo variants associated with neurodevelopmental disorders, including schizophrenia. SynGO is a public, universal reference for synapse research and an online analysis platform for interpretation of large-scale -omics data (https://syngoportal.org and http://geneontology.org).
Filiaciones:
Koopmans, F:
Vrije Univ Amsterdam, CNCR, Dept Funct Genom, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Vrije Univ Amsterdam, CNCR, Dept Mol & Cellular Neurobiol, NL-1081 HV Amsterdam, Netherlands
van Nierop, P:
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Vrije Univ Amsterdam, CNCR, Dept Mol & Cellular Neurobiol, NL-1081 HV Amsterdam, Netherlands
Andres-Alonso, M:
Leibniz Inst Neurobiol, RG Neuroplastic, D-39118 Magdeburg, Germany
Univ MC, ZMNH, Leibniz Grp Dendrit Organelles & Synapt Funct, D-20251 Hamburg, Germany
Bymes, A:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Cijsouw, T:
Tufts Univ, Sch Med, Dept Neurosci, Boston, MA 02111 USA
Coba, MP:
Univ Southern Calif, Zilkha Neurogenet Inst, Keck Sch Med, Los Angeles, CA 90333 USA
Univ Southern Calif, Dept Psychiat & Behav Sci, Keck Sch Med, Los Angeles, CA 90333 USA
Cornelisse, LN:
Vrije Univ Amsterdam, CNCR, Dept Funct Genom, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Farrell, RJ:
Weill Cornell Med, Dept Biochem, New York, NY 10065 USA
Goldschmidt, HL:
Johns Hopkins Univ, Sch Med, Solomon H Snyder Dept Neurosci, Baltimore, MD 21205 USA
Howrigan, DP:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Hussain, NK:
Johns Hopkins Univ, Sch Med, Solomon H Snyder Dept Neurosci, Baltimore, MD 21205 USA
Johns Hopkins Univ, Kavli Neurosci Discovery Inst, Baltimore, MD 21205 USA
Imig, C:
Max Planck Inst Expt Med, Dept Mol Neurobiol, D-37075 Gottingen, Germany
de Jong, APH:
Harvard Med Sch, Dept Neurobiol, Boston, MA 02115 USA
Jung, H:
Korea Adv Inst Sci & Technol, Ctr Synapt Brain Dysfunct, IBS, Daejeon 34141, South Korea
Korea Adv Inst Sci & Technol, Dept Biol Sci, Daejeon 34141, South Korea
Kohansalnodehi, M:
Max Planck Inst Biophys Chem, Dept Neurobiol, D-37077 Gottingen, Germany
Kramarz, B:
UCL, Funct Gene Annotat, Inst Cardiovasc Sci, London WC1E 6JF, England
Lipstein, N:
Max Planck Inst Expt Med, Dept Mol Neurobiol, D-37075 Gottingen, Germany
Lovering, RC:
UCL, Funct Gene Annotat, Inst Cardiovasc Sci, London WC1E 6JF, England
MacGillavry, H:
Univ Utrecht, Fac Sci, Dept Biol, Cell Biol, NL-3584 CH Utrecht, Netherlands
Mariano, V:
Univ Lausanne, Dept Fundamental Neurosci, CH-1006 Lausanne, Switzerland
Univ Roma Tor Vergata, Dept Biomed & Prevent, I-00133 Rome, Italy
Mi, HY:
Univ Southern Calif, Keck Sch Med, Dept Prevent Med, Div Bioinformat, Los Angeles, CA 90033 USA
Ninov, M:
Max Planck Inst Biophys Chem, Dept Neurobiol, D-37077 Gottingen, Germany
Osumi-Sutherland, D:
European Bioinformat Inst EMBL EBI, Wellcome Trust Genome Campus, Cambridge CB10 1SD, England
Pielot, R:
Otto von Guericke Univ, Leibniz Inst Neurobiol, CBBS, D-39120 Magdeburg, Germany
Otto von Guericke Univ, Med Fac, D-39120 Magdeburg, Germany
Smalla, KH:
Otto von Guericke Univ, Leibniz Inst Neurobiol, CBBS, D-39120 Magdeburg, Germany
Otto von Guericke Univ, Med Fac, D-39120 Magdeburg, Germany
Tang, HM:
Univ Southern Calif, Keck Sch Med, Dept Prevent Med, Div Bioinformat, Los Angeles, CA 90033 USA
Tashman, K:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Toonen, RFG:
Vrije Univ Amsterdam, CNCR, Dept Funct Genom, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Verpelli, C:
Univ Milan, CNR, Neurosci Inst Milan, I-20129 Milan, Italy
Univ Milan, Dept Biotechnol & Translat Med, I-20129 Milan, Italy
Reig-Viader, R:
Biomed Res Inst St Pau, Mol Physiol Synapse Lab, Barcelona 08025, Spain
Univ Autonoma Barcelona, Bellaterra 08193, Cerdanyola Del, Spain
Watanabe, K:
Vrije Univ Amsterdam, Neurosci Campus Amsterdam, CNCR, Dept Complex Trait Genet, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, Dept Clin Genet, NL-1081 HV Amsterdam, Netherlands
van Weering, J:
Vrije Univ Amsterdam, CNCR, Dept Funct Genom, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Achsel, T:
Univ Lausanne, Dept Fundamental Neurosci, CH-1006 Lausanne, Switzerland
Univ Roma Tor Vergata, Dept Biomed & Prevent, I-00133 Rome, Italy
Ashrafi, G:
Weill Cornell Med, Dept Biochem, New York, NY 10065 USA
Asi, N:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Brown, TC:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
De Camilli, P:
Yale Univ, Sch Med, Dept Neurosci, HHMI,Kavli Inst Neurosci, 295 Congress Ave, New Haven, CT 06510 USA
Yale Univ, Sch Med, Dept Cell Biol, HHMI,Kavli Inst Neurosci, 295 Congress Ave, New Haven, CT 06510 USA
Feuermann, M:
Ctr Med Univ Geneva, SIB, 1 Rue Michel Servet, CH-1211 Geneva 4, Switzerland
Foulger, RE:
UCL, Funct Gene Annotat, Inst Cardiovasc Sci, London WC1E 6JF, England
Gaudet, P:
Ctr Med Univ Geneva, SIB, 1 Rue Michel Servet, CH-1211 Geneva 4, Switzerland
Joglekar, A:
Weill Cornell Med, Brain & Mind Res Inst, New York, NY USA
Weill Cornell Med, Ctr Neurogenet, New York, NY USA
Kanellopoulos, A:
Univ Lausanne, Dept Fundamental Neurosci, CH-1006 Lausanne, Switzerland
Univ Roma Tor Vergata, Dept Biomed & Prevent, I-00133 Rome, Italy
Malenka, R:
Stanford Univ, Dept Psychiat & Behav Sci, Nancy Pritzker Lab, Stanford, CA 94305 USA
Nicoll, RA:
Univ Calif San Francisco, Dept Cellular & Mol Pharmacol, San Francisco, CA 94158 USA
Univ Calif San Francisco, Dept Physiol, San Francisco, CA 94158 USA
Pulido, C:
Weill Cornell Med, Dept Biochem, New York, NY 10065 USA
de Juan-Sanz, J:
Weill Cornell Med, Dept Biochem, New York, NY 10065 USA
Sheng, M:
Genentech Inc, Dept Neurosci, San Francisco, CA 94080 USA
Sudhof, TC:
Stanford Univ, Howard Hughes Med Inst, Dept Mol & Cellular Physiol, Stanford, CA 94305 USA
Tilgner, HU:
Weill Cornell Med, Brain & Mind Res Inst, New York, NY USA
Weill Cornell Med, Ctr Neurogenet, New York, NY USA
Bagni, C:
Univ Lausanne, Dept Fundamental Neurosci, CH-1006 Lausanne, Switzerland
Univ Roma Tor Vergata, Dept Biomed & Prevent, I-00133 Rome, Italy
Bayes, A:
Biomed Res Inst St Pau, Mol Physiol Synapse Lab, Barcelona 08025, Spain
Univ Autonoma Barcelona, Bellaterra 08193, Cerdanyola Del, Spain
Biederer, T:
Tufts Univ, Sch Med, Dept Neurosci, Boston, MA 02111 USA
Brose, N:
Max Planck Inst Expt Med, Dept Mol Neurobiol, D-37075 Gottingen, Germany
Chua, JJE:
Natl Univ Singapore, Dept Physiol, Yong Loo Lin Sch Med & Neurobiol, Ageing Program,Life Sci Inst, Singapore, Singapore
ASTAR, Inst Mol & Cell Biol, Singapore, Singapore
Dieterich, DC:
Otto von Guericke Univ, Leibniz Inst Neurobiol, CBBS, D-39120 Magdeburg, Germany
Otto von Guericke Univ, Med Fac, D-39120 Magdeburg, Germany
Gundelfinger, ED:
Otto von Guericke Univ, Leibniz Inst Neurobiol, CBBS, D-39120 Magdeburg, Germany
Otto von Guericke Univ, Med Fac, D-39120 Magdeburg, Germany
Hoogenraad, C:
Univ Utrecht, Fac Sci, Dept Biol, Cell Biol, NL-3584 CH Utrecht, Netherlands
Huganir, RL:
Johns Hopkins Univ, Sch Med, Solomon H Snyder Dept Neurosci, Baltimore, MD 21205 USA
Johns Hopkins Univ, Kavli Neurosci Discovery Inst, Baltimore, MD 21205 USA
Jahn, R:
Max Planck Inst Biophys Chem, Dept Neurobiol, D-37077 Gottingen, Germany
Kaeser, PS:
Harvard Med Sch, Dept Neurobiol, Boston, MA 02115 USA
Kim, E:
Korea Adv Inst Sci & Technol, Ctr Synapt Brain Dysfunct, IBS, Daejeon 34141, South Korea
Korea Adv Inst Sci & Technol, Dept Biol Sci, Daejeon 34141, South Korea
Kreutz, MR:
Leibniz Inst Neurobiol, RG Neuroplastic, D-39118 Magdeburg, Germany
Univ MC, ZMNH, Leibniz Grp Dendrit Organelles & Synapt Funct, D-20251 Hamburg, Germany
McPherson, PS:
McGill Univ, Montreal Neurol Inst, Dept Neurol & Neurosurg, Montreal, PQ H3A 2B4, Canada
Neale, B:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
O'Connor, V:
Univ Southampton, Biol Sci, Southampton SO17 1BJ, Hants, England
Posthuma, D:
Vrije Univ Amsterdam, Neurosci Campus Amsterdam, CNCR, Dept Complex Trait Genet, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, Dept Clin Genet, NL-1081 HV Amsterdam, Netherlands
Ryan, TA:
Weill Cornell Med, Dept Biochem, New York, NY 10065 USA
Sala, C:
Univ Milan, CNR, Neurosci Inst Milan, I-20129 Milan, Italy
Univ Milan, Dept Biotechnol & Translat Med, I-20129 Milan, Italy
Feng, GP:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Hyman, SE:
Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 USA
Thomas, PD:
Univ Southern Calif, Keck Sch Med, Dept Prevent Med, Div Bioinformat, Los Angeles, CA 90033 USA
Smit, AB:
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Vrije Univ Amsterdam, CNCR, Dept Mol & Cellular Neurobiol, NL-1081 HV Amsterdam, Netherlands
Verhage, M:
Vrije Univ Amsterdam, CNCR, Dept Funct Genom, NL-1081 HV Amsterdam, Netherlands
UMC Amsterdam, NL-1081 HV Amsterdam, Netherlands
Bronze, Green Accepted, Green Published
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