@article{Ulrich:25,

title = {Selective activation of dynamics in kinetically frozen supramolecular polymer bottlebrush assemblies.},

author = { Hans F. Ulrich and Tobias Klein and Ziliang Zhao and Zoltán Cseresnyés and Pablo Carravilla and Ruman Gerst and Alina Kasberg and Frederic P. Scharfenberg and Marc Thilo Figge and Christian Eggeling and Johannes C. Brendel},

url = {https://pubmed.ncbi.nlm.nih.gov/40948232/},

doi = {10.1002/smll.202505481},

issn = {1613-6829},

year  = {2025},

date = {2025-11-01},

journal = {Small},

volume = {21},

issue = {44},

pages = {e05481},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Klepsch:25,

title = {Matching drug and polymer for efficient delivery of anti-inflammatory drugs: PLGA, polyesteramides, and acetalated dextran.},

author = { Lea C. Klepsch and Philipp Dahlke and Mira Behnke and Ekaterina Tsarenko and Natalie E. Göppert and Paul Klemm and Jakob Meyer and Alan George and Mingzhe Chi and Justyna A. Czaplewska and Antje Vollrath and Christine Weber and Paul M. Jordan and Stephanie Schubert and Stephanie Höppener and Ivo Nischang and Marek Sierka and Oliver Werz and Ulrich S. Schubert},

url = {https://pubmed.ncbi.nlm.nih.gov/41251545/},

doi = {10.1039/d5tb01949d},

issn = {2050-7518},

year  = {2025},

date = {2025-11-01},

journal = {Journal of materials chemistry},

keywords = {},

pubstate = {aheadofprint},

tppubtype = {article}

}

@article{Dahlke:25,

title = {Enhanced Efficiency of the Microsomal Prostaglandin E2 Synthase-1 Inhibitor AGU661 in Human Whole Blood by Encapsulation into PLGA-Based Nanoparticles},

author = { Philipp Dahlke and Paul M. Jordan and Lea C. Klepsch and Azize Gizem Ergül and Steffi Stumpf and Stephanie Höppener and Antje Vollrath and Burcu Çalışkan and Erden Banoglu and Ulrich S. Schubert and Oliver Werz},

url = {https://pubmed.ncbi.nlm.nih.gov/41042969/},

doi = {10.1021/acs.molpharmaceut.5c00766},

issn = {1543-8392},

year  = {2025},

date = {2025-11-01},

urldate = {2025-11-01},

journal = {Molecular pharmaceutics},

volume = {22},

issue = {11},

pages = {6803–6815},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Vogt:25:transition,

title = {An RNA sponge directs the transition from feast to famine in Caulobacter crescentus.},

author = { Laura N. Vogt and Manuel Velasco Gomariz and Malte Siemers and Kai Papenfort and Kathrin S. Fröhlich},

url = {https://pubmed.ncbi.nlm.nih.gov/41145513/},

doi = {10.1038/s41467-025-65274-1},

issn = {2041-1723},

year  = {2025},

date = {2025-10-01},

journal = {Nat Commun},

volume = {16},

issue = {1},

pages = {9478},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Ramoji:25,

title = {Raman spectroscopy can identify acute and persistent biochemical changes in leukocytes from patients with COVID‐19 and non‐COVID‐19‐associated sepsis},

author = { Anuradha Ramoji and Philipp Baumbach and Oleg Ryabchykov and Aikaterini Pistiki and Jan Rueger and David Vasquez Pinzon and Anja Silge and Stefanie Deinhardt-Emmer and Iwan W. Schie and Karina Weber and Charles Neu and Ute Neugebauer and Michael Kiehntopf and Thomas Bocklitz and Jürgen Popp and Sina M. Coldewey},

url = {https://pubmed.ncbi.nlm.nih.gov/40891106/},

doi = {10.1002/biot.70105},

issn = {1860-7314},

year  = {2025},

date = {2025-09-01},

journal = {Biotechnology Journal},

volume = {20},

number = {9},

publisher = {Wiley},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Hoeppener:25,

title = {Unraveling the hierarchical self-assembly of amphiphilic block copolymer-peptide conjugates by tip-enhanced Raman spectroscopy.},

author = { Christiane Höppener and Fabian H. Sobotta and Stephanie Höppener and Volker Deckert and Johannes C. Brendel},

url = {https://pubmed.ncbi.nlm.nih.gov/40519054/},

doi = {10.1002/smll.202502157},

issn = {1613-6829},

year  = {2025},

date = {2025-08-01},

urldate = {2025-08-01},

journal = {Small},

volume = {21},

issue = {32},

pages = {e2502157},

abstract = {Self-assembly of block copolymers in solution provides access to different nanostructures depending on block composition and processing conditions. However, more complex hierarchical nanostructures as found in nature remain challenging to achieve. In this study, the influence of a β-sheet forming tetrapeptide sequence (GFFG) is investigated at the interface of an amphiphilic block copolymer based on poly(butyl acrylate) (PBA) and poly(ethylene oxide) (PEO). Using atomic force microscopy (AFM) and tip-enhanced Raman spectroscopy (TERS), nanoscale insights are provided into the structural organisation and mechanical properties of these hybrid materials. Both the tetrapeptide-containing block copolymer and a control block copolymer without the peptide linker form wormlike micelles in water. However, the incorporation of the peptide linker alters the micelle morphology by increasing the contour length sixfold compared to the control polymer and by altering the mechanical properties of the wormlike micelles. TERS analysis confirms the presence of ordered β-sheet structures at the hydrophilic/hydrophobic interface, which increase the bending stiffness of the micelles. The introduction of additional secondary interactions, such as those induced by the peptide linker, therefore appears as an interesting lever to manipulate the structure formation and mechanical properties block copolymer micelles, opening up interesting design strategies for tailor-made hierarchically structured nanomaterials.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Sunoqrot:25,

title = {Mild Oxidation of Plant Polyphenols Yields Modular Nanoparticle-Forming Materials with Drug Loading Capabilities.},

author = { Suhair Sunoqrot and Samah Abusulieh and Ilya Anufriev and Philipp Dahlke and Paul M. Jordan and Eveen Al-Shalabi and Caroline T. Holick and Stephanie Höppener and Ivo Nischang and Oliver Werz and Stephanie Schubert and Ulrich S. Schubert},

url = {https://pubmed.ncbi.nlm.nih.gov/40130446/},

doi = {10.1002/mabi.202400529},

issn = {1616-5195},

year  = {2025},

date = {2025-06-01},

journal = {Macromolecular bioscience},

volume = {25},

issue = {6},

pages = {e2400529},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Marlow:25,

title = {Cholesterol allosteric modulation of the oxytocin receptor.},

author = { Brennica Marlow and Alexander Vogel and Georg Kuenze and Maik Pankonin and Franziska Reinhardt and Peter F. Stadler and Peter W. Hildebrand and Jens Meiler},

url = {https://pubmed.ncbi.nlm.nih.gov/40308029/},

doi = {10.1016/j.bpj.2025.04.023},

issn = {1542-0086},

year  = {2025},

date = {2025-06-01},

journal = {Biophysical journal},

volume = {124},

issue = {12},

pages = {1930–1943},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Domschke:25,

title = {Crossover operators for molecular graphs with an application to virtual drug screening.},

author = { Nico Domschke and Bruno J. Schmidt and Thomas Gatter and Richard Golnik and Paul Eisenhuth and Fabian Liessmann and Jens Meiler and Peter F. Stadler},

url = {https://pubmed.ncbi.nlm.nih.gov/40528251/},

doi = {10.1186/s13321-025-00958-w},

issn = {1758-2946},

year  = {2025},

date = {2025-06-01},

journal = {Journal of cheminformatics},

volume = {17},

issue = {1},

pages = {97},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Peets:25,

title = {Chemical characteristics vectors map the chemical space of natural biomes from untargeted mass spectrometry data.},

author = { Pilleriin Peets and Aristeidis Litos and Kai Dührkop and Daniel R. Garza and Justin J. J. van der Hooft and Sebastian Böcker and Bas E. Dutilh},

url = {https://pubmed.ncbi.nlm.nih.gov/40420312/},

doi = {10.1186/s13321-025-01031-2},

issn = {1758-2946},

year  = {2025},

date = {2025-05-01},

journal = {Journal of cheminformatics},

volume = {17},

issue = {1},

pages = {82},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Beckmann:25,

title = {Identification and optimization of a small molecule inhibitor of the ovarian tumor protease of the Crimean-Congo hemorrhagic fever virus.},

author = { Lorenz Beckmann and Fabian Liessmann and Maik Icker and Dominic Rieger and Phillip Schlegel and Nicole Urban and Michael Schaefer and Jens Meiler and Clara T. Schoeder and Maik Tretbar},

url = {https://pubmed.ncbi.nlm.nih.gov/39923558/},

doi = {10.1016/j.bmc.2025.118093},

issn = {1464-3391},

year  = {2025},

date = {2025-04-01},

journal = {Bioorganic & medicinal chemistry},

volume = {120},

pages = {118093},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Vogel:25,

title = {Computational engineering of siderocalin to modulate its binding affinity to the antihypertension drug candesartan.},

author = { Kristina Vogel and Johanna Moeller and Nina G Bozhanova and Markus Voehler and Anja Penk and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/39978741/},

doi = {10.1016/j.jsb.2025.108180},

issn = {1095-8657},

year  = {2025},

date = {2025-03-01},

journal = {Journal of structural biology},

volume = {217},

issue = {1},

pages = {108180},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Koceva:25,

title = {Deciphering respiratory viral infections by harnessing organ-on-chip technology to explore the gut-lung axis.},

author = { Hristina Koceva and Mona Amiratashani and Parastoo Akbarimoghaddam and Bianca Hoffmann and Gaukhar Zhurgenbayeva and Mark S Gresnigt and Vanessa Rossetto Marcelino and Christian Eggeling and Marc Thilo Figge and Maria-João Amorim and Alexander S Mosig},

url = {https://pubmed.ncbi.nlm.nih.gov/40037530/},

doi = {10.1098/rsob.240231},

issn = {2046-2441},

year  = {2025},

date = {2025-03-01},

journal = {Open biology},

volume = {15},

issue = {3},

pages = {240231},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Ertelt:25b,

title = {Self-supervised machine learning methods for protein design improve sampling but not the identification of high-fitness variants.},

author = { Moritz Ertelt and Rocco Moretti and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/39937901/},

doi = {10.1126/sciadv.adr7338},

issn = {2375-2548},

year  = {2025},

date = {2025-02-01},

journal = {Science advances},

volume = {11},

issue = {7},

pages = {eadr7338},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Meyer:25:diffont,

title = {diffONT: Predicting methylation-specific PCR biomarkers based on nanopore sequencing data for clinical application},

author = { Daria Meyer and Emanuel Barth and Laura Wiehle and Manja Marz},

doi = {10.1101/2025.02.17.638597},

year  = {2025},

date = {2025-02-01},

journal = {BioRXiv},

publisher = {Cold Spring Harbor Laboratory},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Yi:25,

title = {Surface-enhanced Raman spectroscopy: a half-century historical perspective.},

author = { Jun Yi and En-Ming You and Ren Hu and De-Yin Wu and Guo-Kun Liu and Zhi-Lin Yang and Hua Zhang and Yu Gu and Yao-Hui Wang and Xiang Wang and Hao Ma and Yang Yang and Jun-Yang Liu and Feng Ru Fan and Chao Zhan and Jing-Hua Tian and Yu Qiao and Hailong Wang and Si-Heng Luo and Zhao-Dong Meng and Bing-Wei Mao and Jian-Feng Li and Bin Ren and Javier Aizpurua and Vartkess Ara Apkarian and Philip N. Bartlett and Jeremy Baumberg and Steven E. J. Bell and Alexandre G. Brolo and Louis E. Brus and Jaebum Choo and Li Cui and Volker Deckert and Katrin F. Domke and Zhen-Chao Dong and Sai Duan and Karen Faulds and Renee Frontiera and Naomi Halas and Christy Haynes and Tamitake Itoh and Janina Kneipp and Katrin Kneipp and Eric C. Le Ru and Zhi-Peng Li and Xing Yi Ling and Jacek Lipkowski and Luis M. Liz-Marzán and Jwa-Min Nam and Shuming Nie and Peter Nordlander and Yukihiro Ozaki and Rajapandiyan Panneerselvam and Jürgen Popp and Andrea E. Russell and Sebastian Schlücker and Yang Tian and Lianming Tong and Hongxing Xu and Yikai Xu and Liangbao Yang and Jianlin Yao and Jin Zhang and Yang Zhang and Yao Zhang and Bing Zhao and Renato Zenobi and George C. Schatz and Duncan Graham and Zhong-Qun Tian},

url = {https://pubmed.ncbi.nlm.nih.gov/39715320/},

doi = {10.1039/d4cs00883a},

issn = {1460-4744},

year  = {2025},

date = {2025-02-01},

journal = {Chemical Society reviews},

volume = {54},

issue = {3},

pages = {1453–1551},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Saghaei:25,

title = {VirJenDB: A FAIR (meta)data and analysis platform for all viruses},

author = { Shahram Saghaei and Malte Siemers and Kilian Ossetek and Stephan Richter and Robert A. Edwards and Simon Roux and Andrzej Zielezinski and Bas E. Dutilh and Manja Marz and Noriko A. Cassman},

url = {https://academic.oup.com/nar/article/54/D1/D912/8382361},

doi = {https://doi.org/10.1093/nar/gkaf1224},

year  = {2025},

date = {2025-01-01},

urldate = {2025-01-01},

journal = {Nucleic Acids Res},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Zulfiqar:25,

title = {Analysis of metabolomics and transcriptomics data to assess interactions in microalgal co-culture of Skeletonema marinoi and emphPrymnesium parvum},

author = { Mahnoor Zulfiqar and Anne-Susann Abel and Emanuel Barth and Kristy Syhapanha and Remington Xavier Poulin and Sassrika Nethmini Costa Warnakulasuriya Dehiwalage and Georg Pohnert and Christoph Steinbeck and Kristian Peters and Maria Sorokina},

doi = {10.1371/journal.pone.0329115},

issn = {1932-6203},

year  = {2025},

date = {2025-01-01},

journal = {PLoS One},

volume = {20},

issue = {7},

pages = {e0329115},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Barth:25,

title = {Analysis of microRNA expression reveals convergent evolution of the molecular control of diapause in annual killifishes.},

author = { Emanuel Barth and Mario Baumgart and Luca Dolfi and Rongfeng Cui and Marco Groth and Roberto Ripa and Aurora Savino and Dario Riccardo Valenzano and Matthias Platzer and Manja Marz and Alessandro Cellerino},

doi = {10.3389/fgene.2025.1583989},

issn = {1664-8021},

year  = {2025},

date = {2025-01-01},

journal = {Frontiers in genetics},

volume = {16},

pages = {1583989},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Spangenberg:25:dynamont,

title = {Dynamont: A Comprehensive Cross-Species Comparison of ONT Segmentation Tools},

author = { Jannes Spangenberg and Christian Höner zu Siederdissen and Winfried Goettsch and Lennart Köhler and Liz Maria Luke and Kai Papenfort and Manja Marz},

doi = {dx.doi.org/10.17504/protocols.io.x54v9528pl3e/v1},

year  = {2025},

date = {2025-01-01},

urldate = {2025-01-01},

journal = {submitted to GigaScience},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Mehl:25,

title = {Persistence, spillover, and evolution of co-occurring lineages of lymphocytic choriomeningitis virus.},

author = { Calvin Mehl and Olayide Abraham Adeyemi and Fiona Joana Möhrer and Claudia Wylezich and Sven Sander and Katja Schmidt and Christina Geiger and Nicole Schauerte and Stephanie Wurr and Kerstin Mätz-Rensing and Anne Nesseler and Thomas Anton von Graffenried and Andrew Parker Morgan and Lisa Oestereich and Stephan Günther and Martin Beer and Claudia Klein and Dániel Cadar and Romy Kerber and Dirk Höper and Sven Reiche and Gerald Heckel and Rainer G. Ulrich},

url = {https://pubmed.ncbi.nlm.nih.gov/41293484/},

doi = {10.1093/ve/veaf085},

issn = {2057-1577},

year  = {2025},

date = {2025-01-01},

journal = {Virus Evol},

volume = {11},

issue = {1},

pages = {veaf085},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Hornung:25,

title = {High-fat diet impairs microbial metabolite production and aggravates influenza A infection},

author = { Franziska Hornung and Harini K. SureshKumar and Laura Klement and Yasmina Reisser and Christoph Wernike and Vivien Nischang and Paul M. Jordan and Oliver Werz and Carsten Hoffmann and Bettina Löffler and Stefanie Deinhardt-Emmer},

url = {https://pubmed.ncbi.nlm.nih.gov/40745568/},

doi = {10.1186/s12964-025-02367-w},

issn = {1478-811X},

year  = {2025},

date = {2025-01-01},

urldate = {2025-01-01},

journal = {Cell Communication and Signaling},

volume = {23},

number = {1},

pages = {359},

publisher = {Springer},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{deckert2025atomic,

title = {Atomic force microscopy-based topographical imaging of SARS-CoV-2 as part of a tripartite strategy for RNA virus characterization},

author = {Tanja Deckert-Gaudig and Xiaobin Yao and Erwan Darussalam and Franziska Hornung and Pablo Carravilla and Ziliang Zhao and Kourosh Rezaei and Christian Eggeling and Stefanie Deinhardt-Emmer and Volker Deckert},

url = {https://pubmed.ncbi.nlm.nih.gov/41366486/},

doi = {https://doi.org/10.1186/s12967-025-07490-3},

year  = {2025},

date = {2025-01-01},

urldate = {2025-01-01},

journal = {Journal of Translational Medicine},

publisher = {Springer},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ertelt:24:hyper,

title = {HyperMPNN-A general strategy to design thermostable proteins learned from hyperthermophiles.},

author = { Moritz Ertelt and Phillip Schlegel and Max Beining and Leonard Kaysser and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/39651244/},

doi = {10.1101/2024.11.26.625397},

issn = {2692-8205},

year  = {2024},

date = {2024-12-01},

journal = {BioRXiv},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Tomatis:24,

title = {Engineering extracellular vesicles to transiently permeabilize the blood-brain barrier.},

author = { Francesca Tomatis and Susana Rosa and Susana Simões and Marta Barão and Carlos Jesus and João Novo and Emanuel Barth and Manja Marz and Lino Ferreira},

url = {https://pubmed.ncbi.nlm.nih.gov/39623431/},

doi = {10.1186/s12951-024-03019-w},

issn = {1477-3155},

year  = {2024},

date = {2024-12-01},

journal = {Journal of nanobiotechnology},

volume = {22},

issue = {1},

pages = {747},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Peter:24,

title = {Strategies of rational and structure-driven vaccine design for emphArenaviruses},

author = { Antonia Sophia Peter and Dieter S Hoffmann and Johannes Klier and Christina M Lange and Johanna Moeller and Victoria Most and Christina K Wüst and Max Beining and Sevilay Gülesen and Hannes Junker and Birke Brumme and Torben Schiffner and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/38908736/},

doi = {10.1016/j.meegid.2024.105626},

issn = {1567-7257},

year  = {2024},

date = {2024-09-01},

journal = {Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases},

volume = {123},

pages = {105626},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Triebel:24b,

title = {Comprehensive survey of conserved RNA secondary structures in full-genome alignment of hepatitis C virus},

author = { Sandra Triebel and Kevin Lamkiewicz and Nancy Ontiveros and Blake Sweeney and Peter F. Stadler and Anton I Petrov and Michael Niepmann and Manja Marz},

url = {https://pubmed.ncbi.nlm.nih.gov/38956134/},

doi = {10.1038/s41598-024-62897-0},

issn = {2045-2322},

year  = {2024},

date = {2024-07-01},

journal = {Sci Rep},

volume = {14},

issue = {1},

pages = {15145},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Schoen:24,

title = {Evaluation of SARS-CoV-2-Specific IgY Antibodies: Production, Reactivity, and Neutralizing Capability against Virus Variants.},

author = { Jacob Schön and Andrea Aebischer and Nico Joël Halwe and Lorenz Ulrich and Donata Hoffmann and Sven Reiche and Martin Beer and Christian Grund},

url = {https://pubmed.ncbi.nlm.nih.gov/39063218/},

doi = {10.3390/ijms25147976},

issn = {1422-0067},

year  = {2024},

date = {2024-07-01},

journal = {Int J Mol Sci},

volume = {25},

issue = {14},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Razi:24,

title = {Raman-Activated, Interactive Sorting of Isotope-Labeled Bacteria.},

author = { Sepehr Razi and Nicolae Tarcea and Thomas Henkel and Ramya Ravikumar and Aikaterini Pistiki and Annette Wagenhaus and Sophie Girnus and Martin Taubert and Kirsten Küsel and Petra Rösch and Jürgen Popp},

url = {https://pubmed.ncbi.nlm.nih.gov/39065901/},

doi = {10.3390/s24144503},

issn = {1424-8220},

year  = {2024},

date = {2024-07-01},

journal = {Sensors (Basel, Switzerland)},

volume = {24},

issue = {14},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Ritsch:24,

title = {Endogenous Bornavirus-like elements in bats: Evolutionary insights from the conserved riboviral L-gene in microbats and its antisense transcription in emphMyotis daubentonii},

author = { Muriel Ritsch and Tom Eulenfeld and Kevin Lamkiewicz and Andreas Schoen and Friedemann Weber and Martin Hölzer and Manja Marz},

url = {https://pubmed.ncbi.nlm.nih.gov/39205184/},

doi = {10.3390/v16081210},

year  = {2024},

date = {2024-07-01},

journal = {Viruses},

volume = {16},

number = {8},

pages = {1210},

publisher = {MDPI AG},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Goliaei:24b,

title = {Importations of SARS-CoV-2 lineages decline after nonpharmaceutical interventions in phylogeographic analyses},

author = { Sama Goliaei and Mohammad-Hadi Foroughmand-Araabi and Aideen Roddy and Ariane Weber and Sanni Översti and Denise Kühnert and Alice C McHardy},

url = {https://www.nature.com/articles/s41467-024-48641-2},

doi = {https://doi.org/10.1038/s41467-024-48641-2},

year  = {2024},

date = {2024-06-01},

urldate = {2024-06-01},

journal = {Nat Commun},

volume = {15},

number = {1},

pages = {5267},

publisher = {Springer Science and Business Media LLC},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Moeller:24,

title = {Backbone chemical shift and secondary structure assignments for mouse siderocalin},

author = { Johanna Moeller and Nina G. Bozhanova and Markus Voehler and Jens Meiler and Clara T. Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/38564159/},

doi = {10.1007/s12104-024-10171-9},

issn = {1874-270X},

year  = {2024},

date = {2024-06-01},

journal = {Biomol NMR Assign},

volume = {18},

number = {1},

issue = {1},

pages = {79–84},

publisher = {Springer Science and Business Media LLC},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Gardey:24,

title = {Selective uptake into inflamed human intestinal tissue and immune cell targeting by wormlike polymer micelles},

author = { Elena Gardey and Zoltan Cseresnyes and Fabian H Sobotta and Juliane Eberhardt and Drilon Haziri and Philip C Grunert and Maren T Kuchenbrod and Franka V Gruschwitz and Stephanie Höppener and Michael Schumann and Nikolaus Gaßler and Marc T Figge and Andreas Stallmach and Johannes C Brendel},

url = {https://onlinelibrary.wiley.com/doi/full/10.1002/smll.202306482},

doi = {https://doi.org/10.1002/smll.202306482},

year  = {2024},

date = {2024-05-01},

urldate = {2024-05-01},

journal = {Small},

volume = {20},

number = {21},

pages = {e2306482},

publisher = {Wiley},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ertelt:24:rosettab,

title = {Combining Rosetta sequence design with protein language model predictions using evolutionary scale modeling (ESM) as restraint.},

author = { Moritz Ertelt and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/38568188/},

doi = {10.1021/acssynbio.3c00753},

issn = {2161-5063},

year  = {2024},

date = {2024-04-01},

journal = {ACS synthetic biology},

volume = {13},

number = {4},

issue = {4},

pages = {1085–1092},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Kumar:24,

title = {Comprehensive transcriptome analysis reveals altered mRNA splicing and post-transcriptional changes in the aged mouse brain},

author = { Nisha Hemandhar Kumar and Verena Kluever and Emanuel Barth and Sebastian Krautwurst and Mattia Furlan and Mattia Pelizzola and Manja Marz and Eugenio F Fornasiero},

url = {https://pubmed.ncbi.nlm.nih.gov/38471806/},

doi = {10.1093/nar/gkae172},

year  = {2024},

date = {2024-04-01},

journal = {Nucleic Acids Res},

volume = {52},

number = {6},

pages = {2865–2885},

publisher = {Oxford University Press (OUP)},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Vogt:24,

title = {Genome-wide profiling of Hfq-bound RNAs reveals the iron-responsive small RNA RusT in emphCaulobacter crescentus},

author = { Laura N Vogt and Gaël Panis and Anna Schäpers and Nikolai Peschek and Michaela Huber and Kai Papenfort and Patrick H Viollier and Kathrin S Fröhlich},

url = {https://pubmed.ncbi.nlm.nih.gov/38511926/},

doi = {10.1128/mbio.03153-23},

year  = {2024},

date = {2024-04-01},

journal = {mBio},

volume = {15},

number = {4},

pages = {e0315323},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ertelt:24:machineb,

title = {Combining machine learning with structure-based protein design to predict and engineer post-translational modifications of proteins.},

author = { Moritz Ertelt and Vikram Khipple Mulligan and Jack B Maguire and Sergey Lyskov and Rocco Moretti and Torben Schiffner and Jens Meiler and Clara T Schoeder},

url = {https://pubmed.ncbi.nlm.nih.gov/38484014/},

doi = {10.1371/journal.pcbi.1011939},

issn = {1553-7358},

year  = {2024},

date = {2024-03-01},

journal = {PLoS Comput Biol},

volume = {20},

number = {3},

issue = {3},

pages = {e1011939},

publisher = {Public Library of Science (PLoS)},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Valentine:24,

title = {Nanobody-mediated neutralization of candidalysin prevents epithelial damage and inflammatory responses that drive vulvovaginal candidiasis pathogenesis},

author = { Marisa Valentine and Paul Rudolph and Axel Dietschmann and Antzela Tsavou and Selene Mogavero and Sejeong Lee and Emily L Priest and Gaukhar Zhurgenbayeva and Nadja Jablonowski and Sandra Timme and Christian Eggeling and Stefanie Allert and Edward Dolk and Julian R Naglik and Marc T Figge and Mark S Gresnigt and Bernhard Hube},

url = {https://journals.asm.org/doi/full/10.1128/mbio.03409-23},

doi = {10.1128/mbio.03409-23},

year  = {2024},

date = {2024-03-01},

urldate = {2024-03-01},

journal = {mBio},

volume = {15},

number = {3},

pages = {e0340923},

publisher = {American Society for Microbiology},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ruhland:24,

title = {The global RNA–RNA interactome of emphKlebsiella pneumoniae unveils a small RNA regulator of cell division},

author = { Eric Ruhland and Malte Siemers and Ruman Gerst and Felix Späth and Laura Nicole Vogt and Marc Thilo Figge and Kai Papenfort and Kathrin Sophie Fröhlich},

url = {https://pubmed.ncbi.nlm.nih.gov/38377209/},

doi = {10.1073/pnas.2317322121},

issn = {1091-6490},

year  = {2024},

date = {2024-02-01},

journal = {Proc Natl Acad Sci},

volume = {121},

number = {9},

issue = {9},

pages = {e2317322121},

publisher = {Proceedings of the National Academy of Sciences},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Jordan:24b,

title = {Influenza~A virus selectively elevates prostaglandin E2 formation in pro-resolving macrophages},

author = { Paul M Jordan and Kerstin Günther and Vivien Nischang and Yuping Ning and Stefanie Deinhardt-Emmer and Christina Ehrhardt and Oliver Werz},

url = {https://pubmed.ncbi.nlm.nih.gov/38261967/},

doi = {10.1016/j.isci.2023.108775},

issn = {2589-0042},

year  = {2024},

date = {2024-01-01},

journal = {iScience},

volume = {27},

number = {1},

issue = {1},

pages = {108775},

publisher = {Elsevier},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{AlonsoRoman:24,

title = {Organ-on-chip models for infectious disease research.},

author = { Raquel Alonso-Roman and Alexander S Mosig and Marc Thilo Figge and Kai Papenfort and Christian Eggeling and Felix H Schacher and Bernhard Hube and Mark S Gresnigt},

doi = {10.1038/s41564-024-01645-6},

issn = {2058-5276},

year  = {2024},

date = {2024-01-01},

journal = {Nat Microbiol},

volume = {9},

issue = {4},

pages = {891–904},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Lee:24,

title = {MicrobioRaman: An open-access web repository for microbiological Raman spectroscopy data.},

author = { Kang Soo Lee and Zachary Landry and Awais Athar and Uria Alcolombri and Pratchaya Pramoj Na Ayutthaya and David Berry and Philippe de Bettignies and Ji-Xin Cheng and Gabor Csucs and Li Cui and Volker Deckert and Thomas Dieing and Jennifer Dionne and Ondrej Doskocil and Glen D'Souza and Cristina García-Timermans and Notburga Gierlinger and Keisuke Goda and Roland Hatzenpichler and Richard J Henshaw and Wei E Huang and Ievgeniia Iermak and Natalia P Ivleva and Janina Kneipp and Patrick Kubryk and Kirsten Küsel and Tae Kwon Lee and Sung Sik Lee and Bo Ma and Clara Martínez-Pérez and Pavel Matousek and Rainer U Meckenstock and Wei Min and Peter Mojzeš and Oliver Müller and Naresh Kumar and Per Halkjær Nielsen and Ioan Notingher and Márton Palatinszky and Fátima C Pereira and Giuseppe Pezzotti and Zdenek Pilat and Filip Plesinger and Jürgen Popp and Alexander J Probst and Alessandra Riva and Amr A E Saleh and Ota Samek and Haley M Sapers and Olga T Schubert and Astrid K M Stubbusch and Loza F Tadesse and Gordon T Taylor and Michael Wagner and Jing Wang and Huabing Yin and Yang Yue and Renato Zenobi and Jacopo Zini and Ugis Sarkans and Roman Stocker},

doi = {10.1038/s41564-024-01656-3},

issn = {2058-5276},

year  = {2024},

date = {2024-01-01},

journal = {Nat Microbiol},

volume = {9},

issue = {5},

pages = {1152–1156},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}

@article{Ren:24,

title = {PAPAS promotes differentiation of mammary epithelial cells and suppresses breast carcinogenesis},

author = { Sijia Ren and Feng Bai and Viviane Schnell and Clara Stanko and Muriel Ritsch and Tino Schenk and Emanuel Barth and Manja Marz and Bin Wang and Xin-Hai Pei and Holger Bierhoff},

url = {https://pubmed.ncbi.nlm.nih.gov/38180837/},

doi = {10.1016/j.celrep.2023.113644},

year  = {2024},

date = {2024-01-01},

journal = {Cell Rep},

volume = {43},

number = {1},

pages = {113644},

publisher = {Elsevier BV},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Guenther:24:aspergillus,

title = {emphAspergillus fumigatus-derived gliotoxin impacts innate immune cell activation through modulating lipid mediator production in macrophages},

author = { Kerstin Günther and Vivien Nischang and Zoltan Cseresnyés and Thomas Krüger and Dalia Sheta and Zahraa Abboud and Thorsten Heinekamp and Markus Werner and Olaf Kniemeyer and Andreas Beilhack and Marc Thilo Figge and Axel A. Brakhage and Oliver Werz and Paul M. Jordan},

url = {https://pubmed.ncbi.nlm.nih.gov/39268960/},

doi = {10.1111/imm.13857},

year  = {2024},

date = {2024-01-01},

journal = {Immunology},

volume = {173},

number = {4},

pages = {748–767},

publisher = {Wiley Online Library},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ismail:24,

title = {PEG-Lipid-PLGA Hybrid Particles for Targeted Delivery of Anti-Inflammatory Drugs.},

author = { Jana Ismail and Lea C. Klepsch and Philipp Dahlke and Ekaterina Tsarenko and Antje Vollrath and David Pretzel and Paul M. Jordan and Kourosh Rezaei and Justyna A. Czaplewska and Steffi Stumpf and Baerbel Beringer-Siemers and Ivo Nischang and Stephanie Höppener and Oliver Werz and Ulrich S. Schubert},

url = {https://pubmed.ncbi.nlm.nih.gov/38399248/},

doi = {10.3390/pharmaceutics16020187},

issn = {1999-4923},

year  = {2024},

date = {2024-01-01},

journal = {Pharmaceutics},

volume = {16},

issue = {2},

abstract = {Hybrid nanoparticles (HNPs) were designed by combining a PLGA core with a lipid shell that incorporated PEG-Lipid conjugates with various functionalities (-RGD, -cRGD, -NH (2), and -COOH) to create targeted drug delivery systems. Loaded with a neutral lipid orange dye, the HNPs were extensively characterized using various techniques and investigated for their uptake in human monocyte-derived macrophages (MDMs) using FC and CLSM. Moreover, the best-performing HNPs (i.e., HNP-COOH and HNP-RGD as well as HNP-RGD/COOH mixed) were loaded with the anti-inflammatory drug BRP-201 and prepared in two size ranges (d (H)~140 nm and d (H)~250 nm). The HNPs were examined further for their stability, degradation, MDM uptake, and drug delivery efficiency by studying the inhibition of 5-lipoxygenase (5-LOX) product formation, whereby HNP-COOH and HNP-RGD both exhibited superior uptake, and the HNP-COOH/RGD (2:1) displayed the highest inhibition.},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Behnke:23,

title = {Ethoxy acetalated dextran nanoparticles for drug delivery: A comparative study of formulation methods.},

author = { Mira Behnke and Paul Klemm and Philipp Dahlke and Blerina Shkodra and Baerbel Beringer-Siemers and Justyna Anna Czaplewska and Steffi Stumpf and Paul M. Jordan and Stephanie Schubert and Stephanie Höppener and Antje Vollrath and Oliver Werz and Ulrich S. Schubert},

url = {https://pubmed.ncbi.nlm.nih.gov/36908303/},

doi = {10.1016/j.ijpx.2023.100173},

issn = {2590-1567},

year  = {2023},

date = {2023-12-01},

journal = {International journal of pharmaceutics: X},

volume = {5},

pages = {100173},

keywords = {},

pubstate = {epublish},

tppubtype = {article}

}

@article{Dellbrugge:23,

title = {Contribution of radixin and ezrin to the maintenance of hepatocytes' excretory function in health and disease},

author = { Friederike Dellbrügge and Lena D Jesse and Anna Medyukhina and Na Liu and Sophie Neugebauer and Markus Freißmuth and Stephanie Höppener and Marc T Figge and Helen Morrison and Lars B Riecken and Adrian T Press},

url = {https://www.cell.com/heliyon/fulltext/S2405-8440(23)08217-8},

doi = {https://doi.org/10.1016/j.heliyon.2023.e21009},

year  = {2023},

date = {2023-11-01},

urldate = {2023-11-01},

journal = {Heliyon},

volume = {9},

number = {11},

pages = {e21009},

publisher = {Elsevier BV},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Svensson:23,

title = {Quantitative analysis of peroxisome tracks using a Hidden Markov Model},

author = { Carl-Magnus Svensson and Katharina Reglinski and Wolfgang Schliebs and Ralf Erdmann and Christian Eggeling and Marc Thilo Figge},

url = {https://pubmed.ncbi.nlm.nih.gov/37951993/},

doi = {10.1038/s41598-023-46812-7},

year  = {2023},

date = {2023-11-01},

urldate = {2023-11-01},

journal = {Sci Rep},

volume = {13},

number = {1},

pages = {19694},

publisher = {Springer Science and Business Media LLC},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Schoen:23,

title = {Functional comparisons of the virus sensor RIG-I from humans, the microbat emphMyotis daubentonii, and the megabat emphRousettus aegyptiacus, and their response to SARS-CoV-2 infection.},

author = { Andreas Schoen and Martin Hölzer and Marcel A Müller and Kai B Wallerang and Christian Drosten and Manja Marz and Benjamin Lamp and Friedemann Weber},

url = {https://pubmed.ncbi.nlm.nih.gov/37728614/},

doi = {10.1128/jvi.00205-23},

issn = {1098-5514},

year  = {2023},

date = {2023-10-01},

journal = {J Virol},

volume = {97},

issue = {10},

pages = {e0020523},

keywords = {},

pubstate = {ppublish},

tppubtype = {article}

}