TY - GEN A1 - Bartlitz, Christin A1 - Kolenda, Rafał A1 - Chilimoniuk, Jarosław A1 - Grzymajlo, Krzysztof A1 - Rödiger, Stefan A1 - Bauerfeind, Rolf A1 - Ali, Aamir A1 - Tchesnokovag, Veronika A1 - Roggenbuck, Dirk A1 - Schierack, Peter T1 - Adhesion of Enteropathogenic, Enterotoxigenic, and Commensal Escherichia coli to the Major Zymogen Granule Membrane Glyoprotein 2 T2 - Applied abd Environmental Microbiology Y1 - 2022 U6 - https://doi.org/10.1128/aem.02279-21 SN - 1098-5536 VL - 88 IS - 5 ER - TY - GEN A1 - Schmidt, Carsten A1 - Kammel, Anne A1 - Tanner, Julian A. A1 - Kinghorn, Andrew B. A1 - Khan, Muhammad Moman A1 - Lehmann, Werner A1 - Menger, Marcus A1 - Schedler, Uwe A1 - Schierack, Peter A1 - Rödiger, Stefan T1 - A Multiparametic Fluorescence Assay for Screening Aptamer-Protein Interactions Based on Microbeads T2 - Scientific Reports Y1 - 2022 U6 - https://doi.org/10.1038/s41598-022-06817-0 SN - 2045-2322 VL - 12 ER - TY - GEN A1 - Fischer, Thomas A1 - Marchetti-Deschmann, Martina A1 - Assis, Ana Cristina A1 - Elad, Michal Levin A1 - Algarra, Manuel A1 - Barac, Marko A1 - Bogdanovic Radovic, Iva A1 - Cicconi, Flavio A1 - Claes, Britt A1 - Frascione, Nunzianda A1 - George, Sony A1 - Guedes, Alexandra A1 - Heaton, Cameron A1 - Heeren, Ron A1 - Lasic, Violeta A1 - Lerma, José Luis A1 - Valle Martinez de Yuso Garcia, Maria del A1 - Nosko, Martin A1 - O'Hara, John A1 - Oshina, Ilze A1 - Palucci, Antonio A1 - Pawlaczyk, Aleksandra A1 - Pospíšková, Kristýna A1 - de Puit, Marcel A1 - Radodic, Ksenija A1 - Rēpele, Māra A1 - Ristova, Mimoza A1 - Romolo, Francesco Saverio A1 - Šafařík, Ivo A1 - Siketic, Zdravko A1 - Spigulis, Janis A1 - Szynkowska-Jozwik, Malgorzata Iwona A1 - Tsiatsiuyeu, Andrei A1 - Vella, Joanna A1 - Dawson, Lorna A1 - Rödiger, Stefan A1 - Francese, Simona T1 - Profiling and imaging of forensic evidence – A pan-European forensic round robin study part 1: Document forgery T2 - Science & Justice Y1 - 2022 U6 - https://doi.org/10.1016/j.scijus.2022.06.001 SN - 1876-4452 SN - 1355-0306 VL - 62 IS - 4 SP - 433 EP - 447 ER - TY - GEN A1 - Lopens, Steffi A1 - Wunsch, Ewa A1 - Milkiewicz, Malgorzata A1 - Röber, Nadja A1 - Zarske, Grit A1 - Nasser, Abdullah A1 - Conrad, Karsten A1 - Laass, Martin W. A1 - Rödiger, Stefan A1 - Krawczyk, Marcin A1 - Roggenbuck, Dirk A1 - Milkiewicz, Piotr T1 - PR3-ANCAs Detected by Third-Generation ELISA Predicts Severe Disease and Poor Survival in Primary Sclerosing Cholangitis T2 - Diagnostics N2 - A highly sensitive detection of anti-neutrophil cytoplasmic antibodies to serine proteinase-3 (PR3-ANCAs) aids in the serological diagnosis of autoimmune liver disorders and the prediction of severity in primary sclerosing cholangitis (PSC). Here, we evaluate a novel third-generation ELISA for the detection of PR3-ANCAs. In total, 309 patients with PSC, 51 with primary biliary cholangitis (PBC), and 120 healthy blood donors (BD) were analyzed. For the survival analysis in PSC, the outcome was defined as liver-transplantation-free survival during the follow-up. Positive PR3-ANCA levels were found in 74/309 (24.0%) of patients with PSC. No BDs and one patient with PBC demonstrated PR3-ANCA positivity. PR3-ANCAs were revealed as independent predictors for a poor PSC outcome (study endpoint: liver transplantation/death, log-rank test, p = 0.02). PR3-ANCA positivity, lower albumin levels, and higher bilirubin concentrations were independent risks of a poor survival (Cox proportional-hazards regression analysis, p < 0.05). The Mayo risk score for PSC was associated with PR3-ANCA positivity (p = 0.01) and the disease severity assessed with a model of end-stage liver disease (MELD) and extended MELD-Na (p < 0.05). PR3-ANCAs detected by a third-generation ELISA are diagnostic and prognostic markers for PSC. Their wider use could help to identify patients who are at-risk of a more severe disease. KW - primary sclerosing cholangitis KW - antibodies against serine protease proteinase-3 KW - survival KW - health-related quality of life KW - liver biochemistry KW - disease severity Y1 - 2022 U6 - https://doi.org/10.3390/diagnostics12112682 SN - 2075-4418 VL - 12 IS - 11 ER - TY - GEN A1 - Azam, Hafiz Muhammad Husnain A1 - Rößling, Rosa Ilse A1 - Geithe, Christiane A1 - Khan, Muhammad Moman A1 - Dinter, Franziska A1 - Hanack, Katja A1 - Prüß, Harald A1 - Husse, Britta A1 - Roggenbuck, Dirk A1 - Schierack, Peter A1 - Rödiger, Stefan T1 - MicroRNA biomarkers as next-generation diagnostic tools for neurodegenerative diseases: a comprehensive review T2 - Frontiers in Molecular Neuroscience N2 - Neurodegenerative diseases (NDs) are characterized by abnormalities within neurons of the brain or spinal cord that gradually lose function, eventually leading to cell death. Upon examination of affected tissue, pathological changes reveal a loss of synapses, misfolded proteins, and activation of immune cells—all indicative of disease progression—before severe clinical symptoms become apparent. Early detection of NDs is crucial for potentially administering targeted medications that may delay disease advancement. Given their complex pathophysiological features and diverse clinical symptoms, there is a pressing need for sensitive and effective diagnostic methods for NDs. Biomarkers such as microRNAs (miRNAs) have been identified as potential tools for detecting these diseases. We explore the pivotal role of miRNAs in the context of NDs, focusing on Alzheimer’s disease, Parkinson’s disease, Multiple sclerosis, Huntington’s disease, and Amyotrophic Lateral Sclerosis. The review delves into the intricate relationship between aging and NDs, highlighting structural and functional alterations in the aging brain and their implications for disease development. It elucidates how miRNAs and RNA-binding proteins are implicated in the pathogenesis of NDs and underscores the importance of investigating their expression and function in aging. Significantly, miRNAs exert substantial influence on post-translational modifications (PTMs), impacting not just the nervous system but a wide array of tissues and cell types as well. Specific miRNAs have been found to target proteins involved in ubiquitination or de-ubiquitination processes, which play a significant role in regulating protein function and stability. We discuss the link between miRNA, PTM, and NDs. Additionally, the review discusses the significance of miRNAs as biomarkers for early disease detection, offering insights into diagnostic strategies. KW - neurodegenerative diseases KW - microRNA KW - biomarkers KW - nervous system KW - diagnostic tools KW - therapeutic tools KW - protein post-translational modifications KW - limitations Y1 - 2024 U6 - https://doi.org/10.3389/fnmol.2024.1386735 SN - 1662-5099 VL - 17 PB - Frontiers Media S.A. ER - TY - GEN A1 - Chilimoniuk, Jarosław A1 - Erol, Anna A1 - Rödiger, Stefan A1 - Burdukiewicz, Michał T1 - Challenges and opportunities in processing NanoString nCounter data T2 - Computational and Structural Biotechnology Journal Y1 - 2024 U6 - https://doi.org/10.1016/j.csbj.2024.04.061 SN - 2001-0370 VL - 23 SP - 1951 EP - 1958 PB - Elsevier BV ER - TY - GEN A1 - Lopens, Steffi A1 - Schierack, Peter A1 - Krause, Jenny A1 - Piaszczyński, Michał A1 - Król, Robert A1 - Staroń, Robert A1 - Krupa, Łukasz A1 - Gutkowski, Krzysztof A1 - Kruk, Beata A1 - Grąt, Michał A1 - Krawczyk, Marek A1 - Patkowski, Waldemar A1 - Glaser, Fabian A1 - Rödiger, Stefan A1 - Grossmann, Kai A1 - Pająk, Jacek A1 - Milkiewicz, Piotr A1 - Lammert, Frank A1 - Zieniewicz, Krzysztof A1 - Schramm, Christoph A1 - Roggenbuck, Dirk A1 - Krawczyk, Marcin T1 - Antimicrobial glycoprotein 2 (GP2) in gallstones, bile fluid and peribiliary glands of patients with primary sclerosing cholangitis T2 - Clinica Chimica Acta Y1 - 2024 U6 - https://doi.org/10.1016/j.cca.2024.119841 SN - 0009-8981 VL - 562 SP - 1 EP - 8 PB - Elsevier BV ER - TY - GEN A1 - Geithe, Christiane A1 - Zeng, Bo A1 - Schmidt, Carsten A1 - Dinter, Franziska A1 - Roggenbuck, Dirk A1 - Lehmann, Werner A1 - Dame, Gregory A1 - Schierack, Peter A1 - Hanack, Katja A1 - Rödiger, Stefan T1 - A multiplex microchamber diffusion assay for the antibody-based detection of microRNAs on randomly ordered microbeads T2 - Biosensors and Bioelectronics: X Y1 - 2024 U6 - https://doi.org/10.1016/j.biosx.2024.100484 SN - 2590-1370 VL - 18 (2024) SP - 1 EP - 7 PB - Elsevier BV ER - TY - GEN A1 - Rödiger, Stefan A1 - Kögler, Martin A1 - Birkholz, Mario T1 - Open-Source software, fediverse and custom ROMs as tools for a sustainable internet T2 - 2024 Electronics Goes Green 2024+ (EGG) Y1 - 2024 UR - https://ieeexplore.ieee.org/document/10631179 U6 - https://doi.org/10.23919/EGG62010.2024.10631179 SP - 1 EP - 13 PB - IEEE CY - Berlin ER - TY - GEN A1 - Brauckhoff, Tim A1 - Rödiger, Stefan T1 - BiopixR - extended vignette for bioimage analysis package in R Y1 - 2024 U6 - https://doi.org/10.5281/zenodo.12744223 ER - TY - GEN A1 - Liedtke, Victoria A1 - Weiss, Romano A1 - Skifov, Anastasia A1 - Rödiger, Stefan A1 - Schenk, Lysann T1 - Fully automated viability and toxicity screening - areliable all‐in‐one attempt T2 - Cancer Medicine N2 - The CRISPR/Cas9 technology is nowadays a common tool for genome editing to achieve new insights into, for example, diagnostics and therapeutics in cancer and genetic disorders. Cell proliferation and anticancer drug response studies are widely used to evaluate the impact of editing. However, these assays are often time‐consuming, expensive, and reproducibility is an issue. To overcome this, we developed a fast and cheap assay that combines a fully automated multispectral fluorescence microscopy platform with a nuclei staining and open‐source software analysis.Here, we generated different LEDGF/p75 model cell lines to validate the effect on proliferation and chemosensitivity. Therefore, a fast protocol for an optimized all‐in‐one attempt for cytotoxicity screenings and proliferation analysis of adherent cells in a 96‐well plate format was established using differential staining with two fluorescent dyes (Hoechst 33342 and propidium iodide) for live/dead cell discrimination. Subsequently, an automated cell nuclei count and analysis were performed using bioimage informatics.With the new established assay technology, up to 50,000 cells/well can be detected and analyzed in a 96‐well plate, resulting in a fast and accurate verification of viability and proliferation with consistency of 98% compared to manual counting. Our screening revealed that LEDGF depletion using CRISPR/Cas9 showed a diminished proliferation and chemosensitivity independent of cell line origin. Moreover, LEDGF depletion caused a significant increase in 𝛾H2AX foci, indicating a substantial increase in DNA double strand breaks. LEDGF/p75 overexpression enhanced proliferation and chemoresistance underlining the role of LEDGF in DNA damage response.Independent of cancer cell type, LEDGF/p75 is a central player in DNA damage repair and is implicated in chemoresistance. Moreover, our automated fluorescence biosensor technology allowed fast and reliable data acquisition without any fixation or additional washing steps. Additionally, data analysis was implemented using the modular open‐source software that can be adapted as needed. Y1 - 2024 U6 - https://doi.org/10.1002/cam4.7392 SN - 2045-7634 VL - 13 IS - 12 PB - Wiley ER - TY - GEN A1 - Brauckhoff, Tim A1 - Kieffer, Coline A1 - Rödiger, Stefan T1 - Extracting Insights from biological images T2 - Journal of Open Source Software Y1 - 2024 U6 - https://doi.org/10.21105/joss.07074 SN - 2475-9066 VL - 9 IS - 102 ER -