Amsterdam Neuroscience - Neurodegeneration

Research Output 2011 2019

2019

A combined cellomics and proteomics approach to uncover neuronal pathways to psychiatric disorder

Rosato, M., Gebuis, T., Paliukhovich, I., Stringer, S., Sullivan, P. F., Smit, A. B. & van Kesteren, R. E., 2019, Neuroproteomics. Li, K. W. (ed.). 2nd ed. Humana Press Inc., p. 199-215 17 p. (Neuromethods; vol. 146).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Proteomics
Psychiatry
Genes
Inborn Genetic Diseases
Cytology

A Fast and Economical Sample Preparation Protocol for Interaction Proteomics Analysis

Gonzalez-Lozano, M. A., Koopmans, F., Paliukhovich, I., Smit, A. B. & Li, K. W., May 2019, In : Proteomics. 19, 9, p. 1-3 3 p., 1900027.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Immunoprecipitation
Proteomics
Proteins
Staphylococcal Protein A
Throughput

A Potential Role for the STXBP5-AS1 Gene in Adult ADHD Symptoms

The EAGLE-ADHD Consortium, 18 Jan 2019, In : Behavior Genetics. p. 1-16 16 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Impulsive Behavior
Single Nucleotide Polymorphism
Meta-Analysis
signs and symptoms (animals and humans)
meta-analysis

Centenarian controls increase variant effect sizes by an average twofold in an extreme case-extreme control analysis of Alzheimer's disease

Tesi, N., van der Lee, S. J., Hulsman, M., Jansen, I. E., Stringa, N., van Schoor, N., Meijers-Heijboer, H., Huisman, M., Scheltens, P., Reinders, M. J. T., van der Flier, W. M. & Holstege, H., Feb 2019, In : European Journal of Human Genetics. 27, 2, p. 244-253 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Alzheimer Disease
Inborn Genetic Diseases
Genetic Loci
Genome-Wide Association Study
Age of Onset

Cholesterol Metabolism Is a Druggable Axis that Independently Regulates Tau and Amyloid-β in iPSC-Derived Alzheimer's Disease Neurons

van der Kant, R., Langness, V. F., Herrera, C. M., Williams, D. A., Fong, L. K., Leestemaker, Y., Steenvoorden, E., Rynearson, K. D., Brouwers, J. F., Helms, J. B., Ovaa, H., Giera, M., Wagner, S. L., Bang, A. G. & Goldstein, L. S. B., 7 Mar 2019, In : Cell Stem Cell. 24, 3, p. 363-375.e9

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Induced Pluripotent Stem Cells
Cholesterol Esters
Amyloid
Alzheimer Disease
Cholesterol

Comparative characterization of human induced pluripotent stem cells (hiPSC) derived from patients with schizophrenia and autism

Grunwald, L. M., Stock, R., Haag, K., Buckenmaier, S., Eberle, M. C., Wildgruber, D., Storchak, H., Kriebel, M., Weißgraeber, S., Mathew, L., Singh, Y., Loos, M., Li, K. W., Kraushaar, U., Fallgatter, A. J. & Volkmer, H., 1 Dec 2019, In : Translational Psychiatry. 9, 1, 179.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Induced Pluripotent Stem Cells
Autistic Disorder
Schizophrenia
Neurons
Gene Expression Profiling

Drug Discovery on Natural Products: From Ion Channels to nAChRs, from Nature to Libraries, from Analytics to Assays

Otvos, R. A., Still, K. B. M., Somsen, G. W., Smit, A. B. & Kool, J., 1 Mar 2019, In : SLAS Discovery. 24, 3, p. 362-385 24 p.

Research output: Contribution to JournalReview articleAcademicpeer-review

Open Access
Nicotinic Receptors
Drug Discovery
Biological Products
Ion Channels
Libraries

Enhanced regeneration and reinnervation following timed GDNF gene therapy in a cervical ventral root avulsion

Eggers, R., de Winter, F., Arkenaar, C., Tannemaat, M. R. & Verhaagen, J., Nov 2019, In : Experimental Neurology. 321, p. 1-13 13 p., 113037.

Research output: Contribution to JournalArticleAcademicpeer-review

Glial Cell Line-Derived Neurotrophic Factor
Spinal Nerve Roots
Genetic Therapy
Axons
Regeneration

Genome-wide analysis of insomnia in 1,331,010 individuals identifies new risk loci and functional pathways

The 23andMe Research Team, Mar 2019, In : Nature Genetics. 51, 3, p. 394-403 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Sleep Initiation and Maintenance Disorders
Genome
Sleep
Genes
Neurons

Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer's disease risk

Jansen, I. E., Savage, J. E., Watanabe, K., Bryois, J., Williams, D. M., Steinberg, S., Sealock, J., Karlsson, I. K., Hägg, S., Athanasiu, L., Voyle, N., Proitsi, P., Witoelar, A., Stringer, S., Aarsland, D., Almdahl, I. S., Andersen, F., Bergh, S., Bettella, F., Bjornsson, S. & 33 othersBrækhus, A., Bråthen, G., de Leeuw, C., Desikan, R. S., Djurovic, S., Dumitrescu, L., Fladby, T., Hohman, T. J., Jonsson, P. V., Kiddle, S. J., Rongve, A., Saltvedt, I., Sando, S. B., Selbæk, G., Shoai, M., Skene, N. G., Snaedal, J., Stordal, E., Ulstein, I. D., Wang, Y., White, L. R., Hardy, J., Hjerling-Leffler, J., Sullivan, P. F., van der Flier, W. M., Dobson, R., Davis, L. K., Stefansson, H., Stefansson, K., Pedersen, N. L., Ripke, S., Andreassen, O. A. & Posthuma, D., 1 Mar 2019, In : Nature Genetics. 51, 3, p. 404-413 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Meta-Analysis
Alzheimer Disease
Genome
Proxy
Genes

Gpr158 Deficiency Impacts Hippocampal CA1 Neuronal Excitability, Dendritic Architecture, and Affects Spatial Learning

Çetereisi, D., Kramvis, I., Gebuis, T., van der Loo, R. J., Gouwenberg, Y., Mansvelder, H. D., Li, K. W., Smit, A. B. & Spijker, S., 25 Oct 2019, In : Frontiers in Cellular Neuroscience. 13, OCTOBER, p. 1-18 18 p., 465.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
G-Protein-Coupled Receptors
Hippocampus
Physiological Stress
Pyramidal Cells
Dendrites

Inhibition of Semaphorin3A Promotes Ocular Dominance Plasticity in the Adult Rat Visual Cortex

Boggio, E. M., Ehlert, E. M., Lupori, L., Moloney, E. B., De Winter, F., Vander Kooi, C. W., Baroncelli, L., Mecollari, V., Blits, B., Fawcett, J. W., Verhaagen, J. & Pizzorusso, T., 31 Jan 2019, In : Molecular Neurobiology. p. 1-11 11 p.

Research output: Contribution to JournalArticleAcademicpeer-review

ocular Dominance
Visual Cortex
Immunoglobulin Fc Fragments
Parvalbumins
Interneurons

Integrated immunoprecipitation: Blue native gel electrophoresis—mass spectrometry for the identification of protein subcomplexes

van der Spek, S. J. F., Smit, A. B. & Pandya, N. J., 2019, Neuroproteomics. Li, K. W. (ed.). 2nd ed. Humana Press Inc., p. 85-94 10 p. (Neuromethods; vol. 146).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Immunoprecipitation
Spectrometry
Spectrum Analysis
Gels
Proteins

Memory strength gates the involvement of a CREB-dependent cortical fear engram in remote memory

Matos, M. R., Visser, E., Kramvis, I., van der Loo, R. J., Gebuis, T., Zalm, R., Rao-Ruiz, P., Mansvelder, H. D., Smit, A. B. & van den Oever, M. C., 24 May 2019, In : Nature Communications. 10, p. 1-11 11 p., 2315.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
fear
Long-Term Memory
Fear
Prefrontal Cortex
Data storage equipment

Neuroproteomics: The methods

Li, K. W., 2019, Neuroproteomics. Li, K. W. (ed.). 2nd ed. Humana Press Inc., p. 1-6 6 p. (Neuromethods; vol. 146).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Neurology
Proteome
Proteomics
Nervous System
Research

Preface

Li, K. W., 2019, Neuroproteomics. Li, K. W. (ed.). 2nd ed. Humana Press Inc., p. vii-vii 1 p. (Neuromethods; vol. 146).

Research output: Chapter in Book / Report / Conference proceedingForeword/postscriptAcademic

Sample preparation for proteomics analysis: Filter-aided sample preparation (FASP) and single-pot solid-phase sample preparation (SP3)

Li, K. W., 2019, Neuroproteomics. Li, K. W. (ed.). 2nd ed. Humana Press Inc., p. 67-73 7 p. (Neuromethods; vol. 146).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Proteomics
Gels
Experiments

Spinal cord injury: Can gene therapy with transcription factors drive axon regeneration?

Attwell, C. L., 2019, 274 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

The autism- and schizophrenia-associated protein CYFIP1 regulates bilateral brain connectivity and behaviour

Domínguez-Iturza, N., Lo, A. C., Shah, D., Armendáriz, M., Vannelli, A., Mercaldo, V., Trusel, M., Li, K. W., Gastaldo, D., Santos, A. R., Callaerts-Vegh, Z., D'Hooge, R., Mameli, M., Van der Linden, A., Smit, A. B., Achsel, T. & Bagni, C., 1 Aug 2019, In : Nature Communications. 10, 1, p. 1-13 13 p., 3454.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
schizophrenia
Autistic Disorder
brain
Brain
Schizophrenia

The Effects of Sindbis Viral Vectors on Neuronal Function

Uyaniker, S., van der Spek, S. J. F., Reinders, N. R., Xiong, H., Li, K. W., Bossers, K., Smit, A. B., Verhaagen, J. & Kessels, H. W., 8 Aug 2019, In : Frontiers in Cellular Neuroscience. 13, August, p. 1-12 12 p., 362.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Neurons
Proteome
Transcriptome
Proteins
Injections

The involvement of astrocytes in early-life adversity induced programming of the brain

Abbink, M. R., van Deijk, A. L. F., Heine, V. M., Verheijen, M. H. & Korosi, A., Sep 2019, In : Glia. 67, 9, p. 1637-1653 17 p.

Research output: Contribution to JournalReview articleAcademicpeer-review

Open Access
Astrocytes
Brain
Aptitude
Recycling
Psychopathology

The net-effect in Alzheimer's disease: The functional characterization of hippocampal extracellular matrix in APP/PS1 mice

Heldring, C. M., 2019, 188 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Timed GDNF gene therapy using an immune-evasive gene switch promotes long distance axon regeneration

Eggers, R., De Winter, F., Hoyng, S. A., Hoeben, R. C., Malessy, M. J. A., Tannemaat, M. R. & Verhaagen, J., Feb 2019, In : Brain. 142, 2, p. 295-311 17 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Switch Genes
Glial Cell Line-Derived Neurotrophic Factor
Genetic Therapy
Axons
Regeneration

Unconventional secretion factor GRASP55 is increased by pharmacological unfolded protein response inducers in neurons

van Ziel, A. M., Largo-Barrientos, P., Wolzak, K., Verhage, M. & Scheper, W., 7 Feb 2019, In : Scientific Reports. 9, 1, p. 1-12 12 p., 1567.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Unfolded Protein Response
Pharmacology
Neurons
Endoplasmic Reticulum Stress
Proteins
2018

A laser microdissection–liquid chromatography–tandem mass spectrometry workflow for post-mortem analysis of brain tissue

Hondius, D. C., Hoozemans, J. J. M., Rozemuller, A. J. M., Li, K. W. & Smit, A. B., 2018, Laser Capture Microdissection: Methods and Protocols. New York: Humana Press Inc, p. 371-383 13 p. (Methods in Molecular Biology; vol. 1723).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Workflow
Mass Spectrometry
Lasers
Brain
Brain Diseases

Animal models on the Yin and Yang of opioids and alcohol

Sun, Y., 2018, 116 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Astrocyte lipid metabolism in neuronal plasticity towards dietary modulation of synaptic function

van Deijk, A. L. F., 2018, 176 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Comparative Analyses of Data Independent Acquisition Mass Spectrometric Approaches: DIA, WiSIM-DIA, and Untargeted DIA

Koopmans, F., Ho, J. T. C., Smit, A. B. & Li, K. W., Jan 2018, In : Proteomics. 18, 1, p. 1-6 6 p., 1700304.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Data acquisition
Peptides
Ions
Proteomics
Synapses

Comparative Hippocampal Synaptic Proteomes of Rodents and Primates: Differences in Neuroplasticity-Related Proteins

Koopmans, F., Pandya, N. J., Franke, S. K., Phillippens, I. H. C. M. H., Paliukhovich, I., Li, K. W. & Smit, A. B., 2 Oct 2018, In : Frontiers in Molecular Neuroscience. 11, p. 1-14 14 p., 364.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Neuronal Plasticity
Proteome
Primates
Rodentia
Synapses

From single genes to gene-networks: Cellomics meets neurodegenerative diseases

Heetveld, S., 2018, 257 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Functional characterization of the AMPA receptor interacting proteins Shisa6 and Shisa7

Schmitz, L. J. M., 2018, 212 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Integrins promote axonal regeneration after injury of the nervous system

Nieuwenhuis, B., Haenzi, B., Andrews, M. R., Verhaagen, J. & Fawcett, J. W., Aug 2018, In : Biological Reviews. 93, 3, p. 1339-1362 24 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Nervous System Trauma
integrins
Neurology
nervous system
Integrins

Mesenchymal Stem Cell-Macrophage Choreography Supporting Spinal Cord Repair

Maldonado-Lasunción, I., Verhaagen, J. & Oudega, M., Jul 2018, In : Neurotherapeutics. 15, 3, p. 578-587 10 p.

Research output: Contribution to JournalReview articleAcademicpeer-review

Spinal Cord Regeneration
Mesenchymal Stromal Cells
Macrophages
Spinal Cord Injuries
Wounds and Injuries

MIR137 schizophrenia-associated locus controls synaptic function by regulating synaptogenesis, synapse maturation and synaptic transmission

He, E., Lozano, M. A. G., Stringer, S., Watanabe, K., Sakamoto, K., Oudsten, F. D., Koopmans, F., Giamberardino, S. N., Hammerschlag, A., Niels Cornelisse, L., Li, K. W., van Weering, J., Posthuma, D., Smit, A. B., Sullivan, P. F. & Verhage, M., 1 Jun 2018, In : Human Molecular Genetics. 27, 11, p. 1879-1891 13 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Internal-External Control
Synaptic Transmission
Synapses
Schizophrenia
Proteomics

Neuropathology and cognitive performance in self-reported cognitively healthy centenarians

Ganz, A. B., Beker, N., Hulsman, M., Sikkes, S. A. M., Scheltens, P., Smit, A. B., Rozemuller, A. J. M., Hoozemans, J. J. M. & Holstege, H., 23 Jul 2018, In : Acta Neuropathologica Communications. 6, p. 1-13 13 p., 64.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Pathology
Neurodegenerative Diseases
Brain
Cerebral Amyloid Angiopathy
Lewy Bodies

Neurotoxicity fingerprinting of venoms using on-line microfluidic AChBP profiling

Slagboom, J., Otvos, R. A., Cardoso, F. C., Iyer, J., Visser, J. C., van Doodewaerd, B. R., McCleary, R. J. R., Niessen, W. M. A., Somsen, G. W., Lewis, R. J., Kini, R. M., Smit, A. B., Casewell, N. R. & Kool, J., 15 Jun 2018, In : Toxicon. 148, p. 213-222 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Microfluidics
Venoms
Snake Venoms
Acetylcholine
Carrier Proteins

Noelin1 Affects Lateral Mobility of Synaptic AMPA Receptors

Pandya, N. J., Seeger, C., Babai, N., Gonzalez-Lozano, M. A., Mack, V., Lodder, J. C., Gouwenberg, Y., Mansvelder, H. D., Danielson, U. H., Li, K. W., Heine, M., Spijker, S., Frischknecht, R. & Smit, A. B., 31 Jul 2018, In : Cell Reports. 24, 5, p. 1218-1230 13 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Neurotransmitter Receptor
AMPA Receptors
Glutamate Receptors
alpha-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid
Plasticity

Proteomics of neurodegenerative diseases: analysis of human post-mortem brain

Li, K. W., Ganz, A. B. & Smit, A. B., 5 Oct 2018, In : Journal of Neurochemistry. p. 1-11 11 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Neurodegenerative diseases
Neurodegenerative Diseases
Proteomics
Dementia
Brain

Single-cell isoform RNA sequencing characterizes isoforms in thousands of cerebellar cells

Gupta, I., Collier, P. G., Haase, B., Mahfouz, A., Joglekar, A., Floyd, T., Koopmans, F., Barres, B., Smit, A. B., Sloan, S. A., Luo, W., Fedrigo, O., Ross, M. E. & Tilgner, H. U., Dec 2018, In : Nature Biotechnology. 36, 12, p. 1197-1202 6 p.

Research output: Contribution to JournalLetterAcademicpeer-review

Open Access
File
RNA Isoforms
RNA Sequence Analysis
RNA
Protein Isoforms
Cells

Stress vulnerability promotes an alcohol-prone phenotype in a preclinical model of sustained depression

Riga, D., Schmitz, L. J. M., van Mourik, Y., Hoogendijk, W. J. G., De Vries, T. J., Smit, A. B. & Spijker, S., 18 Dec 2018, In : Addiction Biology. p. 1-12 12 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Alcohols
Depression
Phenotype
Self Administration
Cues

The dorsal column lesion model of spinal cord injury and its use in deciphering the neuron-intrinsic injury response

Attwell, C. L., van Zwieten, M., Verhaagen, J. & Mason, M. R. J., 1 May 2018, In : Developmental Neurobiology. 2018, p. 1-26 26 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Spinal Cord Injuries
Neurons
Wounds and Injuries
Spinal Ganglia
Axotomy
2017

Age-Dependent Protein Aggregation Initiates Amyloid-β Aggregation

Groh, N., Bühler, A., Huang, C., Li, K. W., van Nierop, P., Smit, A. B., Fändrich, M., Baumann, F. & David, D. C., 2017, In : Frontiers in Aging Neuroscience. 9, p. 138

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Amyloid
Proteins
Neurodegenerative Diseases
Neurofibrillary Tangles
Amyloid Plaques

AHCODA-DB: a data repository with web-based mining tools for the analysis of automated high-content mouse phenomics data

Koopmans, B., Smit, A. B., Verhage, M. & Loos, M., 4 Apr 2017, In : BMC Bioinformatics. 18, 1, p. 200

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Web-based
Repository
Mouse
Mining
Quality control

A one-week 5-choice serial reaction time task to measure impulsivity and attention in adult and adolescent mice

Remmelink, E., Chau, U., Smit, A. B., Verhage, M. & Loos, M., 15 Feb 2017, In : Scientific Reports. 7, p. 42519

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Impulsive Behavior
Reaction Time
Task Performance and Analysis
Psychiatry
Food Deprivation

Complex Genetics of Behavior: BXDs in the Automated Home-Cage

Loos, M., Verhage, M., Spijker, S. & Smit, A. B., 2017, In : Methods in Molecular Biology. 1488, p. 519-530 12 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Inbred Strains Mice
Automation
Dissection
Genome
Phenotype

Correlation profiling of brain sub-cellular proteomes reveals co-assembly of synaptic proteins and subcellular distribution

Pandya, N. J., Koopmans, F., Slotman, J. A., Paliukhovich, I., Houtsmuller, A. B., Smit, A. B. & Li, K. W., 21 Sep 2017, In : Scientific Reports. 7, 1, p. 12107

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Proteome
Brain
Proteins
AMPA Receptors
Cerebellum

Defeating depression: an integrative preclinical approach

Riga, D., 2017, 247 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VUAcademic

Open Access
File

Expression of a Mutant SEMA3A Protein with Diminished Signalling Capacity Does Not Alter ALS-Related Motor Decline, or Confer Changes in NMJ Plasticity after BotoxA-Induced Paralysis of Male Gastrocnemic Muscle

Moloney, E. B., Hobo, B., De Winter, F. & Verhaagen, J., 2017, In : PLoS ONE. 12, 1, p. e0170314

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Semaphorin-3A
Neuromuscular Junction
Amyotrophic Lateral Sclerosis
paralysis
Paralysis

Gene-set analysis shows association between FMRP targets and autism spectrum disorder

Jansen, A., Dieleman, G. C., Smit, A. B., Verhage, M., Verhulst, F. C., Polderman, T. J. C. & Posthuma, D., Jun 2017, In : European Journal of Human Genetics. 25, 7, p. 863-868 6 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Fragile X Mental Retardation Protein
Genes
Psychiatry
Exome
Fragile X Syndrome

High Content Analysis of Hippocampal Neuron-Astrocyte Co-cultures Shows a Positive Effect of Fortasyn Connect on Neuronal Survival and Postsynaptic Maturation

van Deijk, A-L. F., Broersen, L. M., Verkuyl, J. M., Smit, A. B. & Verheijen, M. H. G., 2017, In : Frontiers in Neuroscience. 11, p. 440

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Coculture Techniques
Astrocytes
Neurons
Synapses
Phospholipids