Preserving clusters and correlations: a dimensionality reduction method for exceptionally high global structure preservation

Authors: Gildenblat, Jacob, Pahnke, Jens

Subject Terms: Computer Science - Machine Learning

Access URL: http://arxiv.org/abs/2503.07609

Sex-dependent efficacy of sphingosine-1-phosphate receptor agonist FTY720 in mitigating Huntington’s disease

Authors: Wu, Jingyun ^{a, 1}, Santos-Garcia, Irene ^{a, 1}, Eiriz, Ivan ^{a, 1}, Brüning, Thomas ^{a, 1}, Kvasnička, Aleš ^b, Friedecký, David ^b, Nyman, Tuula A. ^c, Pahnke, Jens ^{a, d, e, f, ⁎, 1}

Source: In Pharmacological Research January 2025 211

25-Hydroxycholesterol attenuates tumor necrosis factor alpha-induced blood-brain barrier breakdown in vitro

Authors: Loiola, Rodrigo Azevedo, Nguyen, Cindy, Dib, Shiraz, Saint-Pol, Julien, Dehouck, Lucie, Sevin, Emmanuel, Naudot, Marie, Landry, Christophe, Pahnke, Jens, Pot, Caroline, Gosselet, Fabien

Source: In BBA - Molecular Basis of Disease December 2024 1870(8)

Evaluation of cerebrospinal fluid (CSF) and interstitial fluid (ISF) mouse proteomes for the validation and description of Alzheimer’s disease biomarkers

Authors: Górska, Anna Maria, Santos-García, Irene, Eiriz, Ivan, Brüning, Thomas, Nyman, Tuula, Pahnke, Jens

Source: In Journal of Neuroscience Methods November 2024 411

The atorvastatin metabolite pattern in muscle tissue and blood plasma is associated with statin muscle side effects in patients with coronary heart disease; An exploratory case-control study

Authors: Lauritzen, Trine, Munkhaugen, John, Bergan, Stein, Peersen, Kari, Svarstad, Anja Camilla, Andersen, Anders M., Pahnke, Jens, Husebye, Einar, Vethe, Nils Tore

Source: In Atherosclerosis Plus March 2024 55:31-38

Phenoxytacrine derivatives: Low-toxicity neuroprotectants exerting affinity to ifenprodil-binding site and cholinesterase inhibition

Authors: Misiachna, Anna, Svobodova, Barbora, Netolicky, Jakub, Chvojkova, Marketa, Kleteckova, Lenka, Prchal, Lukas, Novak, Martin, Hrabinova, Martina, Kucera, Tomas, Muckova, Lubica, Moravcova, Zuzana, Karasova, Jana Zdarova, Pejchal, Jaroslav, Blazek, Filip, Malinak, David, Hakenova, Kristina, Krausova, Barbora Hrcka, Kolcheva, Marharyta, Ladislav, Marek, Korabecny, Jan, Pahnke, Jens, Vales, Karel, Horak, Martin, Soukup, Ondrej

Source: In European Journal of Medicinal Chemistry 15 February 2024 266

Artificial intelligence in surgical pathology – Where do we stand, where do we go?

Authors: Sagiv, Chen, Hadar, Ofir, Najjar, Abderrahman, Pahnke, Jens

Source: In European Journal of Surgical Oncology December 2024

Physicochemistry shapes bioactivity landscape of pan-ABC transporter modulators: Anchor point for innovative Alzheimer's disease therapeutics

Authors: Namasivayam, Vigneshwaran, Stefan, Katja, Gorecki, Lukas, Korabecny, Jan, Soukup, Ondrej, Jansson, Patric Jan, Pahnke, Jens, Stefan, Sven Marcel

Source: International journal of biological macromolecules. 217:775-791

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100175632045.0x000001&indx=1&recIds=ETOCvdc_100175632045.0x000001

Structural feature-driven pattern analysis for multitarget modulator landscapes

Authors: Namasivayam, Vigneshwaran, Stefan, Katja, Silbermann, Katja, Pahnke, Jens, Wiese, Michael, Stefan, Sven Marcel

Source: Bioinformatics. 38(5):1385-1392

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100141304221.0x000001&indx=1&recIds=ETOCvdc_100141304221.0x000001

The ABC transporter A7 modulates neuroinflammation via NLRP3 inflammasome in Alzheimer’s disease mice.

Authors: Santos-García, Irene, Bascuñana, Pablo, Brackhan, Mirjam, Villa, María, Eiriz, Ivan, Brüning, Thomas, Pahnke, Jens

Source: Alzheimer's Research & Therapy; 1/27/2025, Vol. 17 Issue 1, p1-22, 22p

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HD_BPMDS: a curated binary pattern multitarget dataset of Huntington's disease–targeting agents.

Authors: Stefan, Sven Marcel^1,2,3 (AUTHOR), Pahnke, Jens^1,2,4,5 (AUTHOR), Namasivayam, Vigneshwaran^1,6 (AUTHOR) vnamasiv@uni-bonn.de

Source: Journal of Cheminformatics. 11/17/2023, Vol. 15 Issue 1, p1-10. 10p.

Subject Terms: *HUNTINGTIN protein, *HUNTINGTON disease, *DRUG discovery, *DRUG target, *BINARY codes, *RARE diseases, *LANDSCAPE assessment, *DRUG delivery systems

Development of deep learning models for microglia analyses in brain tissue using DeePathology™ STUDIO

Authors: Möhle, Luisa, Bascuñana, Pablo, Brackhan, Mirjam, Pahnke, Jens

Source: In Journal of Neuroscience Methods 1 December 2021 364

Dimethyl fumarate does not mitigate cognitive decline and β-amyloidosis in female APPPS1 mice

Authors: Möhle, Luisa, Brackhan, Mirjam, Bascuñana, Pablo, Pahnke, Jens

Source: In Brain Research 1 October 2021 1768

Binding mode analysis of ABCA7 for the prediction of novel Alzheimer's disease therapeutics

Authors: Namasivayam, Vigneshwaran, Stefan, Katja, Pahnke, Jens, Stefan, Sven Marcel

Source: In Computational and Structural Biotechnology Journal 2021 19:6490-6504

Scaffold fragmentation and substructure hopping reveal potential, robustness, and limits of computer-aided pattern analysis (C@PA)

Authors: Namasivayam, Vigneshwaran, Silbermann, Katja, Pahnke, Jens, Wiese, Michael, Stefan, Sven Marcel

Source: In Computational and Structural Biotechnology Journal 2021 19:3269-3283

Novel human melanoma brain metastasis models in athymic nude fox1nu mice: Site‐specific metastasis patterns reflecting their clinical origin

Authors: Svendsen, Henrik A., Meling, Torstein R., Nygaard, Vigdis, Waagene, Stein, Russnes, Hege, Juell, Siri, Rogne, Siril G., Pahnke, Jens, Helseth, Eirik, Fodstad, Øystein, Mælandsmo, Gunhild M.

Source: Cancer medicine. 10(23):8604-8613

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100135759934.0x000001&indx=1&recIds=ETOCvdc_100135759934.0x000001

Screening of Alzheimer’s Disease With Multiwavelength Stokes Polarimetry in a Mouse Model

Authors: Borovkova, Mariia, Sieryi, Oleksii, Lopushenko, Ivan, Kartashkina, Natalia, Pahnke, Jens, Bykov, Alexander, Meglinski, Igor

Source: IEEE transactions on medical imaging. 41(4):977-982

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100145350940.0x000001&indx=1&recIds=ETOCvdc_100145350940.0x000001

First-in-human evaluation of 6-bromo-7-[¹¹C]methylpurine, a PET tracer for assessing the function of multidrug resistance-associated proteins in different tissues.

Authors: Mairinger, Severin, Jackwerth, Matthias, Chalampalakis, Zacharias, Rausch, Ivo, Weber, Maria, Wölfl-Duchek, Michael, Pracher, Lena, Nics, Lukas, Pahnke, Jens, Langsteger, Werner, Hacker, Marcus, Zeitlinger, Markus, Langer, Oliver

Source: European Journal of Nuclear Medicine & Molecular Imaging; Nov2024, Vol. 51 Issue 13, p3900-3911, 12p

Subject Terms: MULTIDRUG resistance-associated proteins, STATISTICAL reliability, RADIATION dosimetry, ALZHEIMER'S disease, CHOROID plexus

Using a qPCR device to screen for modulators of ABC transporter activity: A step-by-step protocol

Authors: Möhle, Luisa, Schwarzová, Barbora, Krohn, Markus, Stefan, Sven Marcel, Pahnke, Jens

Source: In Journal of Pharmacological and Toxicological Methods July-August 2020 104