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Akshay, Akshay; Hashemi Gheinani, Ali; Besic, Mustafa; Braga, Sophie; Uldry, Anne-Christine; Heller, Manfred; Rehrauer, Hubert; Fournier, Catharine Aquino; Burkhard, Fiona C; Monastyrskaya, Katia (2024). De-obstruction of bladder outlet in humans reverses organ remodelling by normalizing the expression of key transcription factors. BMC urology, 24(33) BMC 10.1186/s12894-024-01417-8
Akshay, Akshay; Besic, Mustafa; Kuhn, Annette; Burkhard, Fiona C; Bigger-Allen, Alex; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (2024). Machine Learning-Based Classification of Transcriptome Signatures of Non-Ulcerative Bladder Pain Syndrome. International journal of molecular sciences, 25(3) MDPI 10.3390/ijms25031568
Akshay, Akshay; Katoch, Mitali; Shekarchizadeh, Navid; Abedi, Masoud; Sharma, Ankush; Burkhard, Fiona C; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (2024). Machine Learning Made Easy (MLme): a comprehensive toolkit for machine learning-driven data analysis. GigaScience, 13, pp. 1-9. Oxford University Press 10.1093/gigascience/giad111
von Siebenthal, Michelle; Akshay, Akshay; Besic, Mustafa; Schneider, Marc P; Hashemi Gheinani, Ali; Burkhard, Fiona C; Monastyrskaya, Katia (2023). Molecular Characterization of Non-Neurogenic and Neurogenic Lower Urinary Tract Dysfunction (LUTD) in SCI-Induced and Partial Bladder Outlet Obstruction Mouse Models. International journal of molecular sciences, 24(3) MDPI 10.3390/ijms24032451
Akshay, Akshay; Katoch, Mitali; Abedi, Masoud; Shekarchizadeh, Navid; Besic, Mustafa; Burkhard, Fiona C; Bigger-Allen, Alex; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (2022). SpheroScan: a user-friendly deep learning tool for spheroid image analysis. GigaScience, 12 Oxford University Press 10.1093/gigascience/giad082
Akshay, Akshay; Abedi, Masoud; Shekarchizadeh, Navid; Burkhard, Fiona C; Katoch, Mitali; Bigger-Allen, Alex; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (2022). MLcps: machine learning cumulative performance score for classification problems. GigaScience, 12 Oxford University Press 10.1093/gigascience/giad108
von Siebenthal, Michelle; Schneider, Marc P.; Zheng, Shaokai; Wüthrich, Patrick Y.; Burkhard, Fiona C.; Monastyrskaya, Katia (2021). Effects of opioids and benzodiazepines on bladder function of awake restrained mice. American journal of clinical and experimental urology, 9(6), pp. 456-468. e-Century Publishing
Hashemi Gheinani, Ali; Akshay, Akshay; Besic, Mustafa; Kuhn, Annette; Keller, Irene; Bruggmann, Rémy; Rehrauer, Hubert; Adam, Rosalyn M; Burkhard, Fiona C.; Monastyrskaya, Katia (2021). Integrated mRNA-miRNA transcriptome analysis of bladder biopsies from patients with bladder pain syndrome identifies signaling alterations contributing to the disease pathogenesis. BMC urology, 21(1), p. 172. BMC 10.1186/s12894-021-00934-0
von Siebenthal, Michelle; Besic, Mustafa; Hashemi Gheinani, Ali; Akshay, Akshay; Lizun-Platoni, Salomé; Kunz, Nadine; Burkhard, Fiona C.; Monastyrskaya, Katia (2021). Urinary miRNA profiles discriminate between obstruction-induced bladder dysfunction and healthy controls. Scientific reports, 11(1), p. 10204. Springer Nature 10.1038/s41598-021-89535-3
Koeck, Ivonne; Hashemi Gheinani, Ali; Baumgartner, Ulrich; Vassella, Erik; Bruggmann, Rémy; Burkhard, Fiona C.; Monastyrskaya, Katia (2018). Tumor Necrosis Factor-α Initiates miRNA-mRNA Signaling Cascades in Obstruction-Induced Bladder Dysfunction. The American journal of pathology, 188(8), pp. 1847-1864. Elsevier 10.1016/j.ajpath.2018.05.008
Hashemi Gheinani, Ali; Köck, Ivonne; Vasquez, Evalynn; Baumgartner, Ulrich; Bigger-Allen, Alexander; Sack, Bryan S; Burkhard, Fiona C.; Adam, Rosalyn M; Monastyrskaya, Katia (2018). Concordant miRNA and mRNA expression profiles in humans and mice with bladder outlet obstruction. American journal of clinical and experimental urology, 6(6), pp. 219-233. e-Century Publishing
Monastyrskaya, Katia; Babiychuk, Eduard B.; Draeger, Annette; Burkhard, Fiona C. (2013). Down-Regulation of Annexin A1 in the Urothelium Decreases Cell Survival After Bacterial Toxin Exposure. Journal of urology, 190(1), pp. 325-333. Elsevier 10.1016/j.juro.2013.01.088
Monastyrskaya, Katia; Sánchez-Freire, Verónica; Hashemi Gheinani, Ali; Klumpp, David J; Babiychuk, Eduard B; Draeger, Annette; Burkhard, Fiona C (2013). miR-199a-5p regulates urothelial permeability and may play a role in bladder pain syndrome. American journal of pathology, 182(2), pp. 431-48. New York, N.Y.: Elsevier 10.1016/j.ajpath.2012.10.020
Hashemi Gheinani, Ali; Burkhard, Fiona C.; Monastyrskaya, Katia (2013). Deciphering microRNA code in pain and inflammation: lessons from bladder pain syndrome. Cellular and molecular life sciences, 70(20), pp. 3773-3789. Springer Basel 10.1007/s00018-013-1275-7
Babiychuk, Eduard B.; Atanassoff, Alexander P.; Monastyrskaya, Katia; Brandenberger, Christina; Studer, Daniel; Allemann, Catherine; Draeger, Annette (2011). The targeting of plasmalemmal ceramide to mitochondria during apoptosis. PLoS ONE, 6(8), e23706. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0023706
Potez, Sarah; Luginbühl, Miriam; Monastyrskaya, Katia; Hostettler, Andrea; Draeger, Annette; Babiychuk, Eduard B (2011). Tailored protection against plasmalemmal injury by annexins with different Ca2+ sensitivities. Journal of biological chemistry, 286(20), pp. 17982-91. Bethesda, Md.: American Society for Biochemistry and Molecular Biology 10.1074/jbc.M110.187625
Sánchez-Freire, Verónica; Blanchard, Maxime G; Burkhard, Fiona C; Kessler, Thomas M; Kellenberger, Stephan; Monastyrskaya, Katia (2011). Acid-sensing channels in human bladder: expression, function and alterations during bladder pain syndrome. Journal of urology, 186(4), pp. 1509-16. New York, N.Y.: Elsevier 10.1016/j.juro.2011.05.047
Sánchez Freire, Veronica; Burkhard, Fiona C; Schmitz, Andrea; Kessler, Thomas M; Monastyrskaya, Katia (2011). Structural differences between the bladder dome and trigone revealed by mRNA expression analysis of cold-cut biopsies. BJU international, 108(2 Pt 2), E126-35. Oxford: Blackwell Science 10.1111/j.1464-410X.2010.09934.x
Sanchez Freire, Veronica; Burkhard, Fiona C; Kessler, Thomas M; Kuhn, Annette; Draeger, Annette; Monastyrskaya, Katia (2010). MicroRNAs may mediate the down-regulation of neurokinin-1 receptor in chronic bladder pain syndrome. American journal of pathology, 176(1), pp. 288-303. New York, N.Y.: Elsevier 10.2353/ajpath.2010.090552
Draeger, Annette; Sanchez-Freire, Verónica; Monastyrskaya, Katia; Hoppeler, Hans; Mueller, Matthias; Breil, Fabio; Mohaupt, Markus G; Babiychuk, Eduard B (2010). Statin therapy and the expression of genes that regulate calcium homeostasis and membrane repair in skeletal muscle. American journal of pathology, 177(1), pp. 291-9. New York, N.Y.: Elsevier 10.2353/ajpath.2010.091140
Monastyrskaya, Katia; Babiychuk, Eduard B; Hostettler, Andrea; Wood, Peta; Grewal, Thomas; Draeger, Annette (2009). Plasma membrane-associated annexin A6 reduces Ca2+ entry by stabilizing the cortical actin cytoskeleton. Journal of biological chemistry, 284(25), pp. 17227-42. Bethesda, Md.: American Society for Biochemistry and Molecular Biology 10.1074/jbc.M109.004457
Monastyrskaya, Katia; Babiychuk, Eduard B; Draeger, Annette (2009). The annexins: spatial and temporal coordination of signaling events during cellular stress. Cellular and molecular life sciences, 66(16), pp. 2623-42. Basel: SP Birkhäuser Verlag Basel 10.1007/s00018-009-0027-1
Monastyrskaya, Katia; Tschumi, Fabian; Babiychuk, Eduard B; Stroka, Deborah; Draeger, Annette (2008). Annexins sense changes in intracellular pH during hypoxia. Biochemical journal, 409(1), pp. 65-75. London: Portland Press 10.1042/BJ20071116
Babiychuk, Eduard B; Monastyrskaya, Katia; Draeger, Annette (2008). Fluorescent annexin A1 reveals dynamics of ceramide platforms in living cells. Traffic, 9(10), pp. 1757-75. Oxford: Wiley-Blackwell 10.1111/j.1600-0854.2008.00800.x
Monastyrskaya, Katia; Babiychuk, Eduard B; Hostettler, Andrea; Rescher, Ursula; Draeger, Annette (2007). Annexins as intracellular calcium sensors. Cell calcium, 41(3), pp. 207-19. Amsterdam: Elsevier 10.1016/j.ceca.2006.06.008
Matschke, Katharina; Babiychuk, Eduard B; Monastyrskaya, Katia; Draeger, Annette (2006). Phenotypic conversion leads to structural and functional changes of smooth muscle sarcolemma. Experimental cell research, 312(18), pp. 3495-503. San Diego, Calif.: Elsevier 10.1016/j.yexcr.2006.07.012
Akshay, Akshay; Katoch, Mitali; Shekarchizadeh, Navid; Abedi, Masoud; Sharma, Ankush; Burkhard, Fiona C.; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (4 July 2023). Machine Learning Made Easy (MLme): A Comprehensive Toolkit for Machine Learning-Driven Data Analysis. (bioRxiv). Cold Spring Harbor Laboratory 10.1101/2023.07.04.546825
Akshay, Akshay; Katoch, Mitali; Abedi, Masoud; Besic, Mustafa; Shekarchizadeh, Navid; Burkhard, Fiona C.; Bigger-Allen, Alex; Adam, Rosalyn M; Monastyrskaya, Katia; Hashemi Gheinani, Ali (28 June 2023). SpheroScan: A User-Friendly Deep Learning Tool for Spheroid Image Analysis. (bioRxiv). Cold Spring Harbor Laboratory 10.1101/2023.06.28.533479
