Suspension TRAPping Filter (sTRAP) Sample Preparation for Quantitative Proteomics in the Low µg Input Range Using a Plasmid DNA Micro-Spin Column: Analysis of the Hippocampus from the 5xFAD Alzheimer’s Disease Mouse Model

Autor: Evangelia Thanou, Frank Koopmans, Débora Pita-Illobre, Remco V. Klaassen, Berna Özer, Ioannis Charalampopoulos, August B. Smit, Ka Wan Li

Publikováno v: Cells, Vol 12, Iss 9, p 1242 (2023)

Suspension TRAPping filter (sTRAP) is an attractive sample preparation method for proteomics studies. The sTRAP protocol uses 5% SDS that maximizes protein solubilization. Proteins are trapped on a borosilicate glass membrane filter, where SDS is sub

Externí odkaz: https://doaj.org/article/b0fbe708443d4fff8cc1f3c1466bfdbb

MS-DAP Platform for Downstream Data Analysis of Label-Free Proteomics Uncovers Optimal Workflows in Benchmark Data Sets and Increased Sensitivity in Analysis of Alzheimer’s Biomarker Data

Autor: Frank Koopmans, Ka Wan Li, Remco V. Klaassen, August B. Smit

Publikováno v: Journal of Proteome Research, 22(2), 374-386. American Chemical Society
Koopmans, F, Li, K W, Klaassen, R V & Smit, A B 2023, ' MS-DAP Platform for Downstream Data Analysis of Label-Free Proteomics Uncovers Optimal Workflows in Benchmark Data Sets and Increased Sensitivity in Analysis of Alzheimer’s Biomarker Data ', Journal of Proteome Research, vol. 22, no. 2, pp. 374-386 . https://doi.org/10.1021/acs.jproteome.2c00513

In the rapidly moving proteomics field, a diverse patchwork of data analysis pipelines and algorithms for data normalization and differential expression analysis is used by the community. We generated a mass spectrometry downstream analysis pipeline

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::51d5f49302a02d8332187446f9e6a4b6
https://research.vu.nl/en/publications/899add43-34b6-4f56-aae8-a6eb40efaa31

The AMPA receptor-associated protein Shisa7 regulates hippocampal synaptic function and contextual memory

Autor: Leanne J M Schmitz, Remco V Klaassen, Marta Ruiperez-Alonso, Azra Elia Zamri, Jasper Stroeder, Priyanka Rao-Ruiz, Johannes C Lodder, Rolinka J van der Loo, Huib D Mansvelder, August B Smit, Sabine Spijker

Publikováno v: eLife, Vol 6 (2017)

Glutamatergic synapses rely on AMPA receptors (AMPARs) for fast synaptic transmission and plasticity. AMPAR auxiliary proteins regulate receptor trafficking, and modulate receptor mobility and its biophysical properties. The AMPAR auxiliary protein S

Externí odkaz: https://doaj.org/article/be9b9dbbc0344e15b25b3806a40e8a24

β-amyloid−driven synaptic depression requires PDZ protein interaction at AMPA-receptor subunit GluA3

Autor: Remco V. Klaassen, Karin J. Koymans, Niels Ruben Reinders, Ka Wan Li, August B. Smit, Helmut W. Kessels, Sophie J. F. van der Spek

Soluble oligomeric amyloid-β (Aβ) is a prime suspect to cause cognitive deficits in Alzheimer’s disease and weakens synapses by removing AMPA-type glutamate receptors (AMPARs). We show that synapses of CA1 pyramidal neurons become vulnerable to A

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::d89d2bb0d8d241d7b8257b1547e8833e
https://doi.org/10.1101/2021.10.03.462970

Specific nanoscale synaptic reshuffling and control of short-term plasticity following NMDAR- and P2XR-dependent Long-Term Depression

Autor: Eric Hosy, August B. Smit, Terrence J. Sejnowski, David Perrais, Benjamin Compans, Thomas M. Bartol, Remco V. Klaassen, Adel Kechkar, Daniel Choquet, Jean-Baptiste Sibarita, Corey Butler, Magalie Martineau

Long-Term Potentiation (LTP) and Long-Term Depression (LTD) of excitatory synaptic transmission are considered as cellular basis of learning and memory. These two forms of synaptic plasticity have been mainly attributed to global changes in the numbe

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d5ae3f3851463d8688d059e1fbac5e3a
https://doi.org/10.1101/759191