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Molina-Moreno M, González-Díaz I, Mikut R, Díaz-de-María F. A self-supervised embedding of cell migration features for behavior discovery over cell populations. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2024;255:108337. [PMID: 39067139 DOI: 10.1016/j.cmpb.2024.108337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 04/26/2024] [Accepted: 07/17/2024] [Indexed: 07/30/2024]
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Schröter J, Deininger L, Lupse B, Richter P, Syrbe S, Mikut R, Jung-Klawitter S. A large and diverse brain organoid dataset of 1,400 cross-laboratory images of 64 trackable brain organoids. Sci Data 2024;11:514. [PMID: 38769371 PMCID: PMC11106320 DOI: 10.1038/s41597-024-03330-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2023] [Accepted: 05/01/2024] [Indexed: 05/22/2024]  Open
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Mayer I, Karimian T, Gordiyenko K, Angelin A, Kumar R, Hirtz M, Mikut R, Reischl M, Stegmaier J, Zhou L, Ma R, Nienhaus GU, Rabe KS, Lanzerstorfer P, Domínguez CM, Niemeyer CM. Surface-Patterned DNA Origami Rulers Reveal Nanoscale Distance Dependency of the Epidermal Growth Factor Receptor Activation. NANO LETTERS 2024;24:1611-1619. [PMID: 38267020 PMCID: PMC10853960 DOI: 10.1021/acs.nanolett.3c04272] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2023] [Revised: 12/21/2023] [Accepted: 12/22/2023] [Indexed: 01/26/2024]
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Deininger L, Jung-Klawitter S, Mikut R, Richter P, Fischer M, Karimian-Jazi K, Breckwoldt MO, Bendszus M, Heiland S, Kleesiek J, Opladen T, Kuseyri Hübschmann O, Hübschmann D, Schwarz D. An AI-based segmentation and analysis pipeline for high-field MR monitoring of cerebral organoids. Sci Rep 2023;13:21231. [PMID: 38040865 PMCID: PMC10692072 DOI: 10.1038/s41598-023-48343-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Accepted: 11/25/2023] [Indexed: 12/03/2023]  Open
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Wernet V, Kriegler M, Kumpost V, Mikut R, Hilbert L, Fischer R. Synchronization of oscillatory growth prepares fungal hyphae for fusion. eLife 2023;12:e83310. [PMID: 37602797 PMCID: PMC10522335 DOI: 10.7554/elife.83310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Accepted: 08/19/2023] [Indexed: 08/22/2023]  Open
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Sheshachala S, Huber B, Schuetzke J, Mikut R, Scharnweber T, Domínguez CM, Mutlu H, Niemeyer CM. Charge controlled interactions between DNA-modified silica nanoparticles and fluorosurfactants in microfluidic water-in-oil droplets. NANOSCALE ADVANCES 2023;5:3914-3923. [PMID: 37496619 PMCID: PMC10367961 DOI: 10.1039/d3na00124e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Accepted: 06/22/2023] [Indexed: 07/28/2023]
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Hilpert K, Rumancev C, Gani J, Collis DWP, Lopez-Perez PM, Garamus VM, Mikut R, Rosenhahn A. Can BioSAXS detect ultrastructural changes of antifungal compounds in Candida albicans?-an exploratory study. Front Pharmacol 2023;14:1141785. [PMID: 37533629 PMCID: PMC10393279 DOI: 10.3389/fphar.2023.1141785] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Accepted: 07/06/2023] [Indexed: 08/04/2023]  Open
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Maška M, Ulman V, Delgado-Rodriguez P, Gómez-de-Mariscal E, Nečasová T, Guerrero Peña FA, Ren TI, Meyerowitz EM, Scherr T, Löffler K, Mikut R, Guo T, Wang Y, Allebach JP, Bao R, Al-Shakarji NM, Rahmon G, Toubal IE, Palaniappan K, Lux F, Matula P, Sugawara K, Magnusson KEG, Aho L, Cohen AR, Arbelle A, Ben-Haim T, Raviv TR, Isensee F, Jäger PF, Maier-Hein KH, Zhu Y, Ederra C, Urbiola A, Meijering E, Cunha A, Muñoz-Barrutia A, Kozubek M, Ortiz-de-Solórzano C. The Cell Tracking Challenge: 10 years of objective benchmarking. Nat Methods 2023:10.1038/s41592-023-01879-y. [PMID: 37202537 PMCID: PMC10333123 DOI: 10.1038/s41592-023-01879-y] [Citation(s) in RCA: 31] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2022] [Accepted: 04/13/2023] [Indexed: 05/20/2023]
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Kumpost V, Hilbert L, Mikut R. Noise facilitates entrainment of a population of uncoupled limit cycle oscillators. J R Soc Interface 2023;20:20220781. [PMID: 36628527 PMCID: PMC9832296 DOI: 10.1098/rsif.2022.0781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 12/19/2022] [Indexed: 01/12/2023]  Open
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Scherr T, Seiffarth J, Wollenhaupt B, Neumann O, Schilling MP, Kohlheyer D, Scharr H, Nöh K, Mikut R. microbeSEG: A deep learning software tool with OMERO data management for efficient and accurate cell segmentation. PLoS One 2022;17:e0277601. [PMID: 36445903 PMCID: PMC9707790 DOI: 10.1371/journal.pone.0277601] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2022] [Accepted: 11/01/2022] [Indexed: 12/02/2022]  Open
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Amsaleg A, Sánchez J, Mikut R, Loewe A. Characterization of the pace-and-drive capacity of the human sinoatrial node: A 3D in silico study. Biophys J 2022;121:4247-4259. [PMID: 36262044 PMCID: PMC9703096 DOI: 10.1016/j.bpj.2022.10.020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2022] [Revised: 09/20/2022] [Accepted: 10/13/2022] [Indexed: 12/14/2022]  Open
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Stache N, Sterenczak KA, Sperlich K, Marfurt CF, Allgeier S, Köhler B, Mikut R, Bartschat A, Reichert KM, Guthoff RF, Stachs A, Stachs O, Bohn S. Assessment of dynamic corneal nerve changes using static landmarks by in vivo large-area confocal microscopy—a longitudinal proof-of-concept study. Quant Imaging Med Surg 2022;12:4734-4746. [PMID: 36185050 PMCID: PMC9511428 DOI: 10.21037/qims-22-15] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 05/11/2022] [Indexed: 11/07/2022]
13
Debertin D, Wachholz F, Mikut R, Federolf P. Quantitative downhill skiing technique analysis according to ski instruction curricula: A proof-of-concept study applying principal component analysis on wearable sensor data. Front Bioeng Biotechnol 2022;10:1003619. [PMID: 36237214 PMCID: PMC9552888 DOI: 10.3389/fbioe.2022.1003619] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Accepted: 09/07/2022] [Indexed: 11/20/2022]  Open
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Heidrich B, Turowski M, Phipps K, Schmieder K, Süß W, Mikut R, Hagenmeyer V. Controlling non-stationarity and periodicities in time series generation using conditional invertible neural networks. APPL INTELL 2022. [DOI: 10.1007/s10489-022-03742-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Oyama LB, Olleik H, Teixeira ACN, Guidini MM, Pickup JA, Hui BYP, Vidal N, Cookson AR, Vallin H, Wilkinson T, Bazzolli DMS, Richards J, Wootton M, Mikut R, Hilpert K, Maresca M, Perrier J, Hess M, Mantovani HC, Fernandez-Fuentes N, Creevey CJ, Huws SA. In silico identification of two peptides with antibacterial activity against multidrug-resistant Staphylococcus aureus. NPJ Biofilms Microbiomes 2022;8:58. [PMID: 35835775 PMCID: PMC9283466 DOI: 10.1038/s41522-022-00320-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2021] [Accepted: 06/21/2022] [Indexed: 12/29/2022]  Open
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Bethge D, Hallgarten P, Ozdenizci O, Mikut R, Schmidt A, Grosse-Puppendahl T. Exploiting Multiple EEG Data Domains with Adversarial Learning. ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL INTERNATIONAL CONFERENCE 2022;2022:3154-3158. [PMID: 36086033 DOI: 10.1109/embc48229.2022.9871743] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
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Wang Y, Kanagaraj NK, Pylatiuk C, Mikut R, Peravali R, Reischl M. High-Throughput Data Acquisition Platform for Multi-Larvae Touch-Response Behavior Screening of Zebrafish*. IEEE Robot Autom Lett 2022. [DOI: 10.1109/lra.2021.3134281] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Manzouri F, Zöllin M, Schillinger S, Dümpelmann M, Mikut R, Woias P, Comella LM, Schulze-Bonhage A. A Comparison of Energy-Efficient Seizure Detectors for Implantable Neurostimulation Devices. Front Neurol 2022;12:703797. [PMID: 35317247 PMCID: PMC8934428 DOI: 10.3389/fneur.2021.703797] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Accepted: 11/29/2021] [Indexed: 11/13/2022]  Open
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Allgeier S, Bartschat A, Bohn S, Guthoff RF, Hagenmeyer V, Kornelius L, Mikut R, Reichert KM, Sperlich K, Stache N, Stachs O, Köhler B. Real-time large-area imaging of the corneal subbasal nerve plexus. Sci Rep 2022;12:2481. [PMID: 35169133 PMCID: PMC8847362 DOI: 10.1038/s41598-022-05983-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2021] [Accepted: 01/21/2022] [Indexed: 11/21/2022]  Open
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Hilpert K, Gani J, Rumancev C, Simpson N, Lopez-Perez PM, Garamus VM, von Gundlach AR, Markov P, Scocchi M, Mikut R, Rosenhahn A. Rational Designed Hybrid Peptides Show up to a 6-Fold Increase in Antimicrobial Activity and Demonstrate Different Ultrastructural Changes as the Parental Peptides Measured by BioSAXS. Front Pharmacol 2021;12:769739. [PMID: 34966279 PMCID: PMC8711299 DOI: 10.3389/fphar.2021.769739] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2021] [Accepted: 11/12/2021] [Indexed: 11/27/2022]  Open
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Kovynyov I, Buerck A, Mikut R. Design of transformation initiatives implementing organisational agility: an empirical study. SN BUSINESS & ECONOMICS 2021;1:79. [PMID: 34778831 PMCID: PMC8112218 DOI: 10.1007/s43546-021-00073-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/29/2020] [Accepted: 04/18/2021] [Indexed: 11/29/2022]
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Hilpert K, Mikut R. Is There a Connection Between Gut Microbiome Dysbiosis Occurring in COVID-19 Patients and Post-COVID-19 Symptoms? Front Microbiol 2021;12:732838. [PMID: 34603261 PMCID: PMC8485028 DOI: 10.3389/fmicb.2021.732838] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Accepted: 08/13/2021] [Indexed: 01/07/2023]  Open
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Welle H, Nagel C, Loewe A, Mikut R, Dössel O. Classification of Bundle Branch Blocks with QRS Templates Extracted from 12-lead ECGs. CURRENT DIRECTIONS IN BIOMEDICAL ENGINEERING 2021. [DOI: 10.1515/cdbme-2021-2148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]  Open
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Löffler K, Scherr T, Mikut R. A graph-based cell tracking algorithm with few manually tunable parameters and automated segmentation error correction. PLoS One 2021;16:e0249257. [PMID: 34492015 PMCID: PMC8423278 DOI: 10.1371/journal.pone.0249257] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 08/03/2021] [Indexed: 11/29/2022]  Open
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Kumpošt V, Vallone D, Gondi SB, Foulkes NS, Mikut R, Hilbert L. A stochastic oscillator model simulates the entrainment of vertebrate cellular clocks by light. Sci Rep 2021;11:14497. [PMID: 34262086 PMCID: PMC8280200 DOI: 10.1038/s41598-021-93913-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Accepted: 06/29/2021] [Indexed: 02/06/2023]  Open
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