Publications

Zuzanna M. Luczak-Sobotkowska, Patrycja Rosa, Maria Banqueri Lopez, Natalia Ochocka, Anna Kiryk, Anna M. Lenkiewicz, Martin Furhmann, Aleksander Jankowski, Bozena Kaminska (2024). Tracking changes in functionality and morphology of repopulated microglia in young and old mice. Journal of Neuroinflammation.

PDF DOI Preprint

Tim Pollex, Adam Rabinowitz, Maria Cristina Gambetta, Raquel Marco-Ferreres, Rebecca R. Viales, Aleksander Jankowski, Christoph Schaub, Eileen E. M. Furlong (2024). Enhancer-promoter interactions become more instructive in the transition from cell-fate specification to tissue differentiation. Nature Genetics.

PDF DOI Preprint

Tim Pollex, Raquel Marco-Ferreres, Lucia Ciglar, Yad Ghavi-Helm, Adam Rabinowitz, Rebecca Rodriguez Viales, Christoph Schaub, Aleksander Jankowski, Charles Girardot, Eileen E. M. Furlong (2024). Chromatin gene-gene loops support the cross-regulation of genes with related function. Molecular Cell.

PDF DOI

Giriram Mohana, Julien Dorier, Xiao Li, Marion Mouginot, Rebecca C. Smith, Héléna Malek, Marion Leleu, Daniel Rodriguez, Jenisha Khadka, Patrycja Rosa, Pascal Cousin, Christian Iseli, Simon Restrepo, Nicolas Guex, Brian D. McCabe, Aleksander Jankowski, Michael S. Levine, Maria Cristina Gambetta (2023). Chromosome-level organization of the regulatory genome in the Drosophila nervous system. Cell.

PDF Code DOI Submitted Manuscript Author Manuscript

Jacob W. P. Potuijt, Anna Sowinska-Seidler, Ewelina Bukowska-Olech, Picard Nguyen, Aleksander Jankowski, Frank Magielsen, Karolina Matuszewska, Christianne A. van Nieuwenhoven, Robert-Jan H. Galjaard, Annelies de Klein, Aleksander Jamsheer (2022). The pZRS non-coding regulatory mutation resulting in triphalangeal thumb-polysyndactyly syndrome changes the pattern of local interactions. Molecular Genetics and Genomics.

PDF DOI

Yad Ghavi-Helm, Aleksander Jankowski, Sascha Meiers, Rebecca R. Viales, Jan O. Korbel, Eileen E. M. Furlong (2019). Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression. Nature Genetics.

Code DOI Author Manuscript

Xuecong Wang, Yogesh Srivastava, Aleksander Jankowski, Vikas Malik, Yuanjie Wei, Ricardo C.H. del Rosario, Vlad Cojocaru, Shyam Prabhakar, Ralf Jauch (2018). DNA-mediated dimerization on a compact sequence signature controls enhancer engagement and regulation by FOXA1. Nucleic Acids Research.

PDF DOI

Aleksander Jankowski, Jerzy Tiuryn, Shyam Prabhakar (2016). Romulus: robust multi-state identification of transcription factor binding sites from DNase-seq data. Bioinformatics.

PDF Code DOI

Aleksander Jankowski, Paulina Obara, Utsav Mathur, Jerzy Tiuryn (2016). Enhanceosome transcription factors preferentially dimerize with high mobility group proteins. BMC Systems Biology.

PDF DOI

Yong-Heng Huang, Aleksander Jankowski, Kathryn S. E. Cheah, Shyam Prabhakar, Ralf Jauch (2015). SOXE transcription factors form selective dimers on non-compact DNA motifs through multifaceted interactions between dimerization and high-mobility group domains. Scientific Reports.

PDF DOI

Aleksander Jankowski, Shyam Prabhakar, Jerzy Tiuryn (2014). TACO: a general-purpose tool for predicting cell-type-specific transcription factor dimers. BMC Genomics.

PDF Code DOI Website

Aleksander Jankowski, Ewa Szczurek, Ralf Jauch, Jerzy Tiuryn, Shyam Prabhakar (2013). Comprehensive prediction in 78 human cell lines reveals rigidity and compactness of transcription factor dimers. Genome Research.

PDF DOI

Miron B. Kursa, Aleksander Jankowski, Witold R. Rudnicki (2010). Boruta – A System for Feature Selection. Fundamenta Informaticae.

PDF DOI URL

Witold R. Rudnicki, Aleksander Jankowski, Aleksander Modzelewski, Aleksander Piotrowski, Adam Zadrożny (2009). The new SIMD Implementation of the Smith-Waterman Algorithm on Cell Microprocessor. Fundamenta Informaticae.

PDF DOI URL