Pre-Prints 2026 Sample-Derived cDNA Guides Broad Host RNA Depletion for In Vivo Pathogen Transcriptomics bioRxiv Doruk, Tuğrul; Sarıgöz, Oytun; Avican, Kemal DOI | Download full text (pdf) Bacterial Stress Responses Lower mRNA-Protein Level Correlations bioRxiv Süer, Sena G.; Arnoux, Jérôme; Lim, Yi Y.; Dhurve, Ganeshwari; Şen, Rabia; Erdem, Cemal; Mateus, André; Avican, Kemal DOI | Download full text (pdf) 2025 6S RNA Facilitates Bacterial Virulence and Adaptation at the Epithelial Barrier bioRxiv Sarıgöz, Oytun; Valeriano, Valerie D.; Avican, Ümmehan; Wang, Helen; Nilsson, Kristina; Hasanzada, Narmin; Mahmood, Firoj; Fahlgren, Anna; Bauer, Sebastian; Griffié, Juliette; Fällman, Maria; Avican, Kemal DOI | Download full text (pdf) Bacterial Protein Function Prediction via Multimodal Deep Learning bioRxiv Giulia, Muzio; Adamer, Michael; Fernandez, Leyden; Miklautz, Lukas; Borgwardt, Karsten; Avican, Kemal DOI | Download full text (pdf) Publications 2025 RfaH is Essential for Virulence and Adaptive Responses in Yersinia pseudotuberculosis Infection mBio Waititu, Joram K.; Nilsson, Kristina; Larrouy-Maumus, Gerald; Costa, Tiago R. D.; Avican, Kemal DOI | Download full text (pdf) 2023 Co-PATHOgenex Web Application for Assessing Complex Stress Responses in Bacteria Microbiology Spectrum Fernández, Leyden; Rosvall, Martin; Normark, Johan; Fällman, Maria; Avican, Kemal DOI | Download full text (pdf) | GitHub | Web Application 2021 RNA Atlas of Human Bacterial Pathogens Uncovers Stress Dynamics Linked to Infection Nature Communications, Springer Nature 2021, Vol. 12, (1) Avican, Kemal; Aldahdooh, Jehad; Togninalli, Matteo; Mahmud, A. K. M. Firoj; Tang, Jing; Borgwardt, Karsten M.; Rhen, Mikael; Fällman, Maria DOI | Download full text (pdf) | Web Application Spatiotemporal Variations in Growth Rate and Virulence Plasmid Copy Number During Yersinia pseudotuberculosis Infections Infection and Immunity, American Society for Microbiology 2021, Vol. 89, (4) Schneiders, Stephan; Hechard, Tifaine; Edgren, Tomas; Avican, Kemal; Fällman, Maria; Fahlgren, Anna; Wang, Helen DOI | Download full text (pdf) 2020 Genome-Scale Mapping Reveals Complex Regulatory Activities of RpoN in Yersinia pseudotuberculosis mSystem, Vol. 5, (6) Mahmud, A. K. M. Firoj; Nilsson, Kristina; Fahlgren, Anna; Navais, Roberto; Choudhury, Rajdeep; Avican, Kemal; Fällman, Maria DOI | Download full text (pdf) 2016 Increased Plasmid Copy Number Is Essential for Yersinia T3SS Function and Virulence Science, Vol. 353, (6298) : 492-495 Wang, He; Avican, Kemal; Fahlgren, Anna; Erttman, Saskia F.; Nuss, Aaron M.; Dersch, Petra; Fällman, Maria; Edgren, Tomas; Wolf-Watz, Hans DOI | Download full text (pdf) 2015 Reprogramming of Yersinia from Virulent to Persistent Mode Revealed by Complex In Vivo RNA-seq Analysis PLOS Pathogens, Vol. 11, (1) Avican, Kemal; Fahlgren, Anna; Huss, Mikael; et al. DOI | Download full text (pdf) 2014 Colonization of Cecum Is Important for Development of Persistent Infection by Yersinia pseudotuberculosis Infection and Immunity, American Society for Microbiology 2014, Vol. 82, (8) : 3471-3482 Fahlgren, Anna; Avican, Kemal; Westermark, Linda; et al. DOI | Download full text (pdf)
