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Alves, Victoria Cunha; Carro, Eva; Figueiro-Silva, Joana (2024). Unveiling DNA methylation in Alzheimer’s disease: a review of array-based human brain studies. Neural Regeneration Research, 19(11):2365-2376.

Pirenne, Laurence. Functions of Nogo-A in the Innervation and Mineralisation of Rodent Teeth. 2024, University of Zurich, Faculty of Science.

Holfeld, Aleš; Schuster, Dina; Sesterhenn, Fabian; Gillingham, Alison K; Stalder, Patrick; Haenseler, Walther; Barrio-Hernandez, Inigo; Ghosh, Dhiman; Vowles, Jane; Cowley, Sally A; Nagel, Luise; Khanppnavar, Basavraj; Serdiuk, Tetiana; Beltrao, Pedro; Korkhov, Volodymyr M; Munro, Sean; Riek, Roland; de Souza, Natalie; Picotti, Paola (2024). Systematic identification of structure-specific protein–protein interactions. Molecular Systems Biology:Epub ahead of print.

Bill, Robert Theofanis. Specific Basal Cell Keratins Regulate Skin Stem Cell Maintenance during Post-Embryonic Growth. 2024, University of Zurich, Faculty of Science.

Vladimirov, Nikita; Voigt, Fabian F; Naert, Thomas; Araujo, Gabriela R; Cai, Ruiyao; Reuss, Anna Maria; Zhao, Shan; Schmid, Patricia; Hildebrand, Sven; Schaettin, Martina; Groos, Dominik; Mateos, José María; Bethge, Philipp; Yamamoto, Taiyo; Aerne, Valentino; Roebroeck, Alard; Ertürk, Ali; Aguzzi, Adriano; Ziegler, Urs; Stoeckli, Esther; Baudis, Laura; Lienkamp, Soeren S; Helmchen, Fritjof (2024). Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 15(1):2679.

Gomez Gonzalez, Alfonso. Tracking Adenovirus DNA in Entry and Replication Provides Insight into Virion Uncoating and Assembly. 2024, University of Zurich, Faculty of Science.

Koovely, Danil. Multiplexed Imaging-based Profiling of Immunological Synapses as a Novel Tool for Characterization of Cytotoxicity Defects in Primary Immunodeficiencies. 2024, University of Zurich, Faculty of Science.

Herger, Nick. Development of an Allogeneic, Anti-Inflammatory Bone Marrow Stromal Cell Therapy for Chronic Low Back Pain Patients with Modic Type 1 Changes. 2024, University of Zurich, Faculty of Science.

Vetter, Janine. Host Factor Requirements of the Rotavirus Viroplasm. 2024, University of Zurich, Faculty of Science.

Petkidis, Anthony. Light Microscopy Combined with Computational Image Analysis Uncovers Virus-Specific Infection Phenotypes and Host Cell State Variability. 2024, University of Zurich, Faculty of Science.

Alves, Victoria Cunha; Figueiro-Silva, Joana; Trullas, Ramon; Ferrer, Isidre; Carro, Eva (2024). Olfactory Receptor OR2K2 Expression in Human Choroid Plexus as a Potential Marker in Early Sporadic Alzheimer’s Disease. Genes, 15(3):385.

Sonrel, Anthony. Cell Population Identification and Benchmarking of Tools in Single-Cell Data Analysis. 2024, University of Zurich, Faculty of Science.

Scheuber, Myriam Ilona. Therapeutic Approaches to Improve Regeneration and Functional Recovery after CNS Injuries in Pre-Clinical Rodent Models. 2024, University of Zurich, Faculty of Science.

Smith, Ellery; Paloots, Rahel; Giagkos, Dimitris; Baudis, Michael; Stockinger, Kurt (2024). Data-driven information extraction and enrichment of molecular profiling data for cancer cell lines. Bioinformatics advances, 4(1):vbae045.

Tufan, Turan; Comertpay, Gamze; Villani, Ambra; Nelson, Geoffrey M; Terekhova, Marina; Kelley, Shannon; Zakharov, Pavel; Ellison, Rochelle M; Shpynov, Oleg; Raymond, Michael; Sun, Jerry; Chen, Yitan; Bockelmann, Enno; Stremska, Marta; Peterson, Lance W; Boeckaerts, Laura; Goldman, Seth R; Etchegaray, J Iker; Artyomov, Maxim N; Peri, Francesca; Ravichandran, Kodi S (2024). Rapid unleashing of macrophage efferocytic capacity via transcriptional pause release. Nature, 628:408-415.

Thalmann, Lars; Martín-González, Natalia; Brücher, Dominik; Plückthun, Andreas; de Pablo, Pedro J; Suomalainen, Maarit; Greber, Urs (2024). Gutless helper-dependent and first generation HAdV5 vectors have similar mechanical properties and common transduction mechanisms. Human Gene Therapy, 35(5-6):163-176.

Kienbeck, Kasimir; Malfertheiner, Lukas; Zelger-Paulus, Susann; Johannsen, Silke; von Mering, Christian; Sigel, Roland K O (2024). Identification of HDV-like theta ribozymes involved in tRNA-based recoding of gut bacteriophages. Nature Communications, 15(1):1559.

Cabello Ferrete, Elena María. Utilizing Genetic Linkage and Rare Variant Association Studies to Unravel Novel Disease Etiologies. 2024, University of Zurich, Faculty of Science.

Hruska-Plochan, Marian; Wiersma, Vera I; Betz, Katharina M; Mallona, Izaskun; Ronchi, Silvia; Maniecka, Zuzanna; Hock, Eva-Maria; Tantardini, Elena; Laferriere, Florent; Sahadevan, Sonu; Hoop, Vanessa; Delvendahl, Igor; Pérez-Berlanga, Manuela; Gatta, Beatrice; Panatta, Martina; van der Bourg, Alexander; Bohaciakova, Dasa; Sharma, Puneet; De Vos, Laura; Frontzek, Karl; Aguzzi, Adriano; Lashley, Tammaryn; Robinson, Mark D; Karayannis, Theofanis; Mueller, Martin; Hierlemann, Andreas; Polymenidou, Magdalini (2024). A model of human neural networks reveals NPTX2 pathology in ALS and FTLD. Nature, 626(8001):1073-1083.

Company, Carlos; Schmitt, Matthias Jürgen; Dramaretska, Yuliia; Serresi, Michela; Kertalli, Sonia; Jiang, Ben; Yin, Jiang-An; Aguzzi, Adriano; Barozzi, Iros; Gargiulo, Gaetano (2024). Logical design of synthetic cis-regulatory DNA for genetic tracing of cell identities and state changes. Nature Communications, 15(1):897.

Cai, Peiying; Robinson, Mark D; Tiberi, Simone (2024). DESpace: spatially variable gene detection via differential expression testing of spatial clusters. Bioinformatics, 40(2):btae027.

Kocere, Agnese; Chiavacci, Elena; Méndez-Acevedo, Kevin Manuel; Soneson, Charlotte; Hiltabidle, Max S; Raghunath, Azhwar; MacGowan, Jacalyn S; Shavit, Jordan A; Panáková, Daniela; Williams, Margot L K; Robinson, Mark D; Mosimann, Christian; Burger, Alexa (2024). TAR Syndrome-associated Rbm8a deficiency causes hematopoietic defects and attenuates Wnt/PCP signaling. bioRxiv 536513, University of Zurich.

SIB Swiss Institute of Bioinformatics RDF Group Members (2024). The SIB Swiss Institute of Bioinformatics Semantic Web of data. Nucleic Acids Research, 52(D1):D44-D51.

Zhang, Zhiyuan; Cao, Yilin; Caviglia, Sara; Agrawal, Prajwal; Neuhauss, Stephan C F; Ahmed, Daniel (2024). A vibrating capillary for ultrasound rotation manipulation of zebrafish larvae. Lab on a chip, 24(4):764-775.

Voigt, Fabian F; Reuss, Anna Maria; Naert, Thomas; Hildebrand, Sven; Schaettin, Martina; Hotz, Adriana L; Whitehead, Lachlan; Bahl, Armin; Neuhauss, Stephan C F; Roebroeck, Alard; Stoeckli, Esther T; Lienkamp, Soeren S; Aguzzi, Adriano; Helmchen, Fritjof (2024). Reflective multi-immersion microscope objectives inspired by the Schmidt telescope. Nature Biotechnology, 42(1):65-71.

Lkharrazi, Anouk. Investigation of the Adeno-Associated Virus Type 2 Uncoating and Replication Mechanism. 2024, University of Zurich, Faculty of Science.

Rodwell, Vanessa; Patil, Manjiri; Kuht, Helen J; Neuhauss, Stephan C F; Norton, William H J; Thomas, Mervyn G (2023). Zebrafish Optokinetic Reflex: Minimal Reporting Guidelines and Recommendations. Biology, 13(1):4.

Vladimirov, Nikita; Voigt, Fabian F; Naert, Thomas; Araujo, Gabriela R; Cai, Ruiyao; Reuss, Anna Maria; Zhao, Shan; Schmid, Patricia; Hildebrand, Sven; Schaettin, Martina; Groos, Dominik; Mateos, José María; Bethge, Philipp; Yamamoto, Taiyo; Aerne, Valentino; Roebroeck, Alard; Ertürk, Ali; Aguzzi, Adriano; Ziegler, Urs; Stoeckli, Esther; Baudis, Laura; Lienkamp, Soeren S; Helmchen, Fritjof (2023). The Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for large cleared samples. bioRxiv 2023.06.16, University of Zurich.

Jetzer, Tania; Studer, Luka; Bieri, Manuela; Greber, Urs; Hemmi, Silvio (2023). Engineered human adenoviruses of species B and C report early, intermediate early and late viral gene expression. Human Gene Therapy, 34(23-24):1230-1247.

Wienhues, Anna; Luuppala, Linnea; Deplazes-Zemp, Anna (2023). The moral landscape of biological conservation: Understanding conceptual and normative foundations. Biological Conservation, 288:110350.

He, Jiazhuo; Nascakova, Zuzana; Leary, Peter; Papa, Giovanni; Valenta, Tomas; Basler, Konrad; Müller, Anne (2023). Inactivation of the tumor suppressor gene Apc synergizes with H. pylori to induce DNA damage in murine gastric stem and progenitor cells. Science Advances, 9(46):eadh0322.

Moursy, Ahmed; Cléry, Antoine; Gerhardy, Stefan; Betz, Katharina M; Rao, Sanjana; Mazur, Jarosław; Campagne, Sébastien; Beusch, Irene; Duszczyk, Malgorzata M; Robinson, Mark D; Panse, Vikram Govind; Allain, Frédéric H-T (2023). RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing. Nature Communications, 14(1):7166.

Heinze, Svenia D; Berger, Simon; Engleitner, Stefanie; Daube, Michael; Hajnal, Alex (2023). Prolonging somatic cell proliferation through constitutive hox gene expression in C. elegans. Nature Communications, 14(1):6850.

Sajibu, Sija; Sonder, Emanuel; Tiwari, Amit; Orjuela, Stephany; Parker, Hannah R; Frans, Olivier The; Gubler, Christoph; Marra, Giancarlo; Robinson, Mark D (2023). Validation of hypermethylated DNA regions found in colorectal cancers as potential aging-independent biomarkers of precancerous colorectal lesions. BMC Cancer, 23(1):998.

Zuñiga, Nikole R; Dumoulin, Alexandre; Vaccaro, Giuseppe; Stoeckli, Esther T (2023). Cables1 links Slit/Robo and Wnt/Frizzled signaling in commissural axon guidance. Development, 150(19):dev201671.

Huang, Qingyao; Szklarczyk, Damian; Wang, Mingcong; Simonovic, Milan; von Mering, Christian (2023). PaxDb 5.0: Curated Protein Quantification Data Suggests Adaptive Proteome Changes in Yeasts. Molecular & Cellular Proteomics, 22(10):100640.

Brügger, Michael David; Basler, Konrad (2023). The diverse nature of intestinal fibroblasts in development, homeostasis, and disease. Trends in Cell Biology, 33(10):834-849.

Berková, Linda; Fazilaty, Hassan; Yang, Qiutan; Kubovčiak, Jan; Stastna, Monika; Hrckulak, Dusan; Vojtechova, Martina; Dalessi, Tosca; Brügger, Michael David; Hausmann, George; Liberali, Prisca; Korinek, Vladimir; Basler, Konrad; Valenta, Tomas (2023). Terminal differentiation of villus tip enterocytes is governed by distinct Tgfβ superfamily members. EMBO Reports, 24(9):e56454.

Pérez-Berlanga, Manuela; Wiersma, Vera I; Zbinden, Aurélie; De Vos, Laura; Wagner, Ulrich; Foglieni, Chiara; Mallona, Izaskun; Betz, Katharina M; Cléry, Antoine; Weber, Julien; Guo, Zhongning; Rigort, Ruben; de Rossi, Pierre; Manglunia, Ruchi; Tantardini, Elena; Sahadevan, Sonu; Stach, Oliver; Hruska-Plochan, Marian; Allain, Frederic H-T; Paganetti, Paolo; Polymenidou, Magdalini (2023). Loss of TDP-43 oligomerization or RNA binding elicits distinct aggregation patterns. EMBO Journal Online, 42(17):e111719.

Gontier, Camille; Surace, Simone Carlo; Delvendahl, Igor; Müller, Martin; Pfister, Jean-Pascal (2023). Efficient sampling-based Bayesian Active Learning for synaptic characterization. PLoS Computational Biology, 19(8):e1011342.

Tiberi, Simone; Meili, Joël; Cai, Peiying; Soneson, Charlotte; He, Dongze; Sarkar, Hirak; Avalos-Pacheco, Alejandra; Patro, Rob; Robinson, Mark D (2023). DifferentialRegulation: a Bayesian hierarchical approach to identify differentially regulated genes. bioRxiv 553679, Cold Spring Harbor Laboratory.

Vintschger, Ella; Kraemer, Dennis; Joset, Pascal; Horn, Anselm H C; Rauch, Anita; Sticht, Heinrich; Bachmann-Gagescu, Ruxandra (2023). Challenges for the implementation of next generation sequencing-based expanded carrier screening: Lessons learned from the ciliopathies. European Journal of Human Genetics, 31(8):953-961.

Alves, Victoria Cunha; Figueiro-Silva, Joana; Ferrer, Isidre; Carro, Eva (2023). Epigenetic silencing of OR and TAS2R genes expression in human orbitofrontal cortex at early stages of sporadic Alzheimer’s disease. Cellular and Molecular Life Sciences, 80(8):196.

Fan, Zheng; Ardicoglu, Raphaela; Batavia, Aashil A; Rust, Ruslan; von Ziegler, Lukas; Waag, Rebecca; Zhang, Jing; Desgeorges, Thibaut; Sturman, Oliver; Dang, Hairuo; Weber, Rebecca; Roszkowski, Martin; Moor, Andreas E; Schwab, Martin E; Germain, Pierre-Luc; Bohacek, Johannes; De Bock, Katrien (2023). The vascular gene Apold1 is dispensable for normal development but controls angiogenesis under pathological conditions. Angiogenesis, 26(3):385-407.

Kim, Jong-Myeong; Min, Kwang Wook; Kim, You-Joung; Smits, Ron; Basler, Konrad; Kim, Jin Woo (2023). Wnt/β-Catenin Signaling Pathway Is Necessary for the Specification but Not the Maintenance of the Mouse Retinal Pigment Epithelium. Molecules and Cells, 46(7):441-450.

Lütge, Mechthild; De Martin, Angelina; Gil-Cruz, Cristina; Perez-Shibayama, Christian; Stanossek, Yves; Onder, Lucas; Cheng, Hung-Wei; Kurz, Lisa; Cadosch, Nadine; Soneson, Charlotte; Robinson, Mark D; Stoeckli, Sandro J; Ludewig, Burkhard; Pikor, Natalia B (2023). Conserved stromal-immune cell circuits secure B cell homeostasis and function. Nature Immunology, 24(7):1149-1160.

Schmeing, Stephan; Robinson, Mark D (2023). Gapless provides combined scaffolding, gap filling, and assembly correction with long reads. Life Science Alliance, 6(7):e202201471.

Asadollahi, Reza; Delvendahl, Igor; Muff, Rebecca; Tan, Ge; Rodríguez, Daymé González; Turan, Soeren; Russo, Martina; Oneda, Beatrice; Joset, Pascal; Boonsawat, Paranchai; Masood, Rahim; Mocera, Martina; Ivanovski, Ivan; Baumer Wolz, Alessandra; Bachmann-Gagescu, Ruxandra; Schlapbach, Ralph; Rehrauer, Hubert; Steindl, Katharina; Begemann, Anaïs; Reis, André; Winkler, Jürgen; Winner, Beate; Müller, Martin; Rauch, Anita (2023). Pathogenic SCN2A variants cause early-stage dysfunction in patient-derived neurons. Human Molecular Genetics, 32(13):2192-2204.

Blackburn, Patrick R; Ebstein, Frédéric; Hsieh, Tzung-Chien; Motta, Marialetizia; Radio, Francesca Clementina; Herkert, Johanna C; Rinne, Tuula; Thiffault, Isabelle; Rapp, Michele; Alders, Mariel; Maas, Saskia; Gérard, Bénédicte; Smol, Thomas; Vincent-Delorme, Catherine; Cogné, Benjamin; Isidor, Bertrand; Vincent, Marie; Bachmann-Gagescu, Ruxandra; Rauch, Anita; Joset, Pascal; Ferrero, Giovanni Battista; Ciolfi, Andrea; Husson, Thomas; Guerrot, Anne-Marie; Bacino, Carlos; Macmurdo, Colleen; Thompson, Stephanie S; Rosenfeld, Jill A; Faivre, Laurence; Mau-Them, Frederic Tran; et al (2023). Loss-of-function variants in CUL3 cause a syndromic neurodevelopmental disorder. medRxiv 23290941, Cold Spring Harbor Laboratory.

Petkidis, Anthony; Andriasyan, Vardan; Greber, Urs F (2023). Label-free microscopy for virus infections. Microscopy, 72(3):204-212.

Fazilaty, Hassan (2023). Restoration of embryonic gene expression patterns in tissue regeneration and disease. Nature Reviews. Molecular Cell Biology, 24(6):375-376.

Tiberi, Simone; Crowell, Helena L; Samartsidis, Pantelis; Weber, Lukas M; Robinson, Mark D (2023). distinct: A novel approach to differential distribution analyses. Annals of Applied Statistics, 17(2):1681-1700.

Letelier, Joaquín; Buono, Lorena; Almuedo-Castillo, María; Zang, Jingjing; Mounieres, Constanza; González-Díaz, Sergio; Polvillo, Rocío; Sanabria-Reinoso, Estefanía; Corbacho, Jorge; Sousa-Ortega, Ana; Del Corral, Ruth Diez; Neuhauss, Stephan C F; Martínez-Morales, Juan R (2023). Mutation of vsx genes in zebrafish highlights the robustness of the retinal specification network. eLife, 12:e85594.

Sonrel, Anthony; Luetge, Almut; Soneson, Charlotte; Mallona, Izaskun; Germain, Pierre-Luc; Knyazev, Sergey; Gilis, Jeroen; Gerber, Reto; Seurinck, Ruth; Paul, Dominique; Sonder, Emanuel; Crowell, Helena L; Fanaswala, Imran; Al-Ajami, Ahmad; Heidari, Elyas; Schmeing, Stephan; Milosavljevic, Stefan; Saeys, Yvan; Mangul, Serghei; Robinson, Mark D (2023). Meta-analysis of (single-cell method) benchmarks reveals the need for extensibility and interoperability. Genome Biology, 24(1):119.

de Souza, Vladimir B C; Jordan, Ben T; Tseng, Elizabeth; Nelson, Elizabeth A; Hirschi, Karen K; Sheynkman, Gloria; Robinson, Mark D (2023). Transformation of alignment files improves performance of variant callers for long-read RNA sequencing data. Genome Biology, 24(1):91.

Martín-González, Natalia; Gómez-González, Alfonso; Hernando-Pérez, Mercedes; Bauer, Michael; Greber, Urs F; San Martín, Carmen; de Pablo, Pedro J (2023). Adenovirus core protein V reinforces the capsid and enhances genome release from disrupted particles. Science Advances, 9(14):eade9910.

Carrero, Laura; Antequera, Desireé; Alcalde, Ignacio; Megías, Diego; Figueiro-Silva, Joana; Merayo-Lloves, Jesús; Municio, Cristins; Carro, Eva (2023). Disturbed circadian rhythm and retinal degeneration in a mouse model of Alzheimer’s disease. Acta Neuropathologica Communications, 11(1):55.

Crowell, Helena L; Morillo Leonardo, Sarah X; Soneson, Charlotte; Robinson, Mark D (2023). The shaky foundations of simulating single-cell RNA sequencing data. Genome Biology, 24(1):62.

Delvendahl, Igor; Hu, Bo; Murphy, Jonathan G (2023). Editorial: Methods and applications in cellular neurophysiology. Frontiers in Cellular Neuroscience, 17:1172741.

Gurtner, Alessandra; Borrelli, Costanza; Gonzalez-Perez, Ignacio; Bach, Karsten; Acar, Ilhan E; Núñez, Nicolás G; Crepaz, Daniel; Handler, Kristina; Vu, Vivian P; Lafzi, Atefeh; Stirm, Kristin; Raju, Deeksha; Gschwend, Julia; Basler, Konrad; Schneider, Christoph; Slack, Emma; Valenta, Tomas; Becher, Burkhard; Krebs, Philippe; Moor, Andreas E; Arnold, Isabelle C (2023). Active eosinophils regulate host defense and immune responses in colitis. Nature, 615(7950):151-157.

Ladewig, Markus S; Jacobsen, Julius O B; Wagner, Alex H; Danis, Daniel; El Kassaby, Baha; Gargano, Michael; Groza, Tudor; Baudis, Michael; Steinhaus, Robin; Seelow, Dominik; Bechrakis, Nikolaos E; Mungall, Christopher J; Schofield, Paul N; Elemento, Olivier; Smith, Lindsay; McMurry, Julie A; Munoz‐Torres, Monica; Haendel, Melissa A; Robinson, Peter N (2023). GA4GH Phenopackets: A Practical Introduction. Advanced Genetics, 4(1):2200016.

Zang, Jingjing; Neuhauss, Stephan C F (2023). Detection of Zebrafish Retinal Proteins by Infrared Western Blotting. Bio-protocol, 13(4):e4618.

Macnair, Will; Robinson, Mark (2023). SampleQC: robust multivariate, multi-cell type, multi-sample quality control for single-cell data. Genome Biology, 24(1):23.

Doncheva, Nadezhda T; Morris, John H; Holze, Henrietta; Kirsch, Rebecca; Nastou, Katerina C; Cuesta-Astroz, Yesid; Rattei, Thomas; Szklarczyk, Damian; von Mering, Christian; Jensen, Lars J (2023). Cytoscape stringApp 2.0: Analysis and Visualization of Heterogeneous Biological Networks. Journal of Proteome Research, 22(2):637-646.

Hiatt, Susan M; Trajkova, Slavica; Sebastiano, Matteo Rossi; Partridge, E Christopher; et al; Bachmann-Gagescu, Ruxandra; Rauch, Anita (2023). Deleterious, protein-altering variants in the transcriptional coregulator ZMYM3 in 27 individuals with a neurodevelopmental delay phenotype. American Journal of Human Genetics, 110(2):215-227.

Deplazes-Zemp, Anna (2023). Beyond Intrinsic and Instrumental: Third-Category Value in Environmental Ethics and Environmental Policy. Ethics, Policy & Environment:Epub ahead of print.

Laganenka, Leanid; Lee, Jae-Woo; Malfertheiner, Lukas; Dieterich, Cora Lisbeth; Fuchs, Lea; Piel, Jörn; von Mering, Christian; Sourjik, Victor; Hardt, Wolf-Dietrich (2023). Chemotaxis and autoinducer-2 signalling mediate colonization and contribute to co-existence of Escherichia coli strains in the murine gut. Nature Microbiology, 8(2):204-217.

Moret, Michael; Pachon Angona, Irene; Cotos, Leandro; Yan, Shen; Atz, Kenneth; Brunner, Cyrill; Baumgartner, Martin; Grisoni, Francesca; Schneider, Gisbert (2023). Leveraging molecular structure and bioactivity with chemical language models for de novo drug design. Nature Communications, 14(1):114.

Szklarczyk, Damian; Kirsch, Rebecca; Koutrouli, Mikaela; Nastou, Katerina; Mehryary, Farrokh; Hachilif, Radja; Gable, Annika L; Fang, Tao; Doncheva, Nadezhda T; Pyysalo, Sampo; Bork, Peer; Jensen, Lars J; von Mering, Christian (2023). The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest. Nucleic Acids Research, 51(D1):D638-D646.

Hernández-Plaza, Ana; Szklarczyk, Damian; Botas, Jorge; Cantalapiedra, Carlos P; Giner-Lamia, Joaquín; Mende, Daniel R; Kirsch, Rebecca; Rattei, Thomas; Letunic, Ivica; Jensen, Lars J; Bork, Peer; von Mering, Christian; Huerta-Cepas, Jaime (2023). eggNOG 6.0: enabling comparative genomics across 12 535 organisms. Nucleic Acids Research, 51(D1):D389-D394.

Fullam, Anthony; Letunic, Ivica; Schmidt, Thomas S B; Ducarmon, Quinten R; Karcher, Nicolai; Khedkar, Supriya; Kuhn, Michael; Larralde, Martin; Maistrenko, Oleksandr M; Malfertheiner, Lukas; Milanese, Alessio; Rodrigues, Joao Frederico Matias; Sanchis-López, Claudia; Schudoma, Christian; Szklarczyk, Damian; Sunagawa, Shinichi; Zeller, Georg; Huerta-Cepas, Jaime; von Mering, Christian; Bork, Peer; Mende, Daniel R (2023). proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes. Nucleic Acids Research, 51(D1):D760-D766.

Masek, Markus; Bachmann-Gagescu, Ruxandra (2023). Control of protein and lipid composition of photoreceptor outer segments—Implications for retinal disease. In: Iomini, Carlo; Sun, Yang. Cilia Signaling in Development and Disease (1. Auflage). Amsterdam: Elsevier, 165-225.

Häfliger, Janine; Schwarzfischer, Marlene; Atrott, Kirstin; Stanzel, Claudia; Morsy, Yasser; Wawrzyniak, Marcin; Lang, Silvia; Valenta, Tomas; Basler, Konrad; Rogler, Gerhard; Scharl, Michael; Spalinger, Marianne R (2023). Glycoprotein (GP)96 is essential for maintaining intestinal epithelial architecture by supporting its self-renewal capacity. Cellular and Molecular Gastroenterology and Hepatology, 15(3):717-739.

Dumoulin, Alexandre; Stoeckli, Esther T (2023). Looking for Guidance - Models and Methods to Study Axonal Navigation. Neuroscience, 508:30-39.

Weiler, Philipp; Van den Berge, Koen; Street, Kelly; Tiberi, Simone (2023). A Guide to Trajectory Inference and RNA Velocity. Methods in Molecular Biology, 2584:269-292.

Karakulak, Tülay; Szklarczyk, Damian; Saylan, Cemil Can; Moch, Holger; von Mering, Christian; Kahraman, Abdullah (2023). CanIsoNet: a database to study the functional impact of isoform switching events in diseases. Bioinformatics advances, 3(1):vbad050.

Huang, Qingyao; Baudis, Michael (2023). Candidate targets of copy number deletion events across 17 cancer types. Frontiers in Genetics, 13:1017657.

Gesemann, Matthias; Neuhauss, Stephan C F (2023). Evolution of visual guanylyl cyclases and their activating proteins with respect to clade and species-specific visual system adaptation. Frontiers in Molecular Neuroscience, 16:1131093.

Masek, Markus; Zang, Jingjing; Mateos, José María; Garbelli, Marco; Ziegler, Urs; Neuhauss, Stephan C F; Bachmann-Gagescu, Ruxandra (2023). Studying the morphology, composition and function of the photoreceptor primary cilium in zebrafish. Methods in Cell Biology, 175:97-128.

Neuhauss, Stephan C F (2022). Editorial: Insights in methods and model organisms: 2021. Frontiers in Molecular Neuroscience, 15:1104424.

Maruyama, Takamitsu; Hasegawa, Daigaku; Valenta, Tomas; Haigh, Jody; Bouchard, Maxime; Basler, Konrad; Hsu, Wei (2022). GATA3 mediates nonclassical β-catenin signaling in skeletal cell fate determination and ectopic chondrogenesis. Science Advances, 8(48):eadd6172.

Prummel, Karin D; Crowell, Helena L; Nieuwenhuize, Susan; Brombacher, Eline C; Daetwyler, Stephan; Soneson, Charlotte; Kresoja-Rakic, Jelena; Kocere, Agnese; Ronner, Manuel; Ernst, Alexander; Labbaf, Zahra; Clouthier, David E; Firulli, Anthony B; Sánchez-Iranzo, Héctor; Naganathan, Sundar R; O’Rourke, Rebecca; Raz, Erez; Mercader, Nadia; Burger, Alexa; Felley-Bosco, Emanuela; Huisken, Jan; Robinson, Mark D; Mosimann, Christian (2022). Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma. Nature Communications, 13(1):1677.

Masek, Markus; Etard, Christelle; Hofmann, Claudia; Hülsmeier, Andreas J; Zang, Jingjing; Takamiya, Masanari; Gesemann, Matthias; Neuhauss, Stephan C F; Hornemann, Thorsten; Strähle, Uwe; Bachmann-Gagescu, Ruxandra (2022). Loss of the Bardet-Biedl protein Bbs1 alters photoreceptor outer segment protein and lipid composition. Nature Communications, 13:1282.

Möller, Katrin; Brambach, Max; Villani, Ambra; Gallo, Elisa; Gilmour, Darren; Peri, Francesca (2022). A role for the centrosome in regulating the rate of neuronal efferocytosis by microglia in vivo. eLife, 11:e82094.

Pelisek, Jaroslav; Reutersberg, Benedikt; Greber, Urs F; Zimmermann, Alexander (2022). Vascular dysfunction in COVID-19 patients: update on SARS-CoV-2 infection of endothelial cells and the role of long non-coding RNAs. Clinical Science, 136(21):1571-1590.

Muttathukunnel, Paola; Frei, Patrick; Perry, Sarah; Dickman, Dion; Müller, Martin (2022). Rapid homeostatic modulation of transsynapticnanocolumn rings. Proceedings of the National Academy of Sciences of the United States of America, 119(45):e2119044119.

Durrer, Jan; Agrawal, Prajwal; Ozgul, Ali; Neuhauss, Stephan C F; Nama, Nitesh; Ahmed, Daniel (2022). A robot-assisted acoustofluidic end effector. Nature Communications, 13:6370.

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