Markkanen Publications

ZORA Publication List

Publications

• 2025

  • Beebe, Erin; Krudewig, Christiane; Motamed, Zahra; Malbon, Alexandra; Markkanen, Enni (2025). Stromal Expression Profiling Reveals Immune‐Driven Adaption to Malignancy in Canine Melanoma Subtypes Veterinary and Comparative Oncology, 23(1):20-29.
  • Beer, Patricia; Grest, Paula; Krudewig, Christiane; Staudinger, Chris; Ohlerth, Stefanie; Rohrer Bley, Carla; Jarosch, Armin; Ech-Cherif, Houria; Markkanen, Enni; Park, Brian; Nolff, Mirja Christine (2025). Evaluation of a targeted anti-α$_{v}$β$_{3}$ integrin near-infrared fluorescent dye for fluorescence-guided resection of naturally occurring soft tissue sarcomas in dogs European Journal of Nuclear Medicine and Molecular Imaging, 52(3):1137-1148.
  • Weber, Mikiyo; Fuchs, Daniel; Pöschel, Amiskwia; Beebe, Erin; Garajova, Zuzana; Jarosch, Armin; Kunz, Laura; Wolski, Witold; Opitz, Lennart; Guscetti, Franco; Nolff, Mirja C; Markkanen, Enni (2025). Transcriptomic and proteomic profiling identifies feline fibrosarcoma as clinically amenable model for aggressive sarcoma subtypes Neoplasia, 60:101104.

• 2024

  • Leblond, Anne-Laure; Helmchen, Birgit; Ankavay, Maliki; Lenggenhager, Daniela; Jetzer, Jasna; Helmchen, Fritjof; Yurtsever, Hueseyin; Parrotta, Rossella; Healy, Marc E; Pöschel, Amiskwia; Markkanen, Enni; Semmo, Nasser; Ferrié, Martin; Cocquerel, Laurence; Seeger, Harald; Hopfer, Helmut; Müllhaupt, Beat; Gouttenoire, Jérôme; Moradpour, Darius; Gaspert, Ariana; Weber, Achim (2024). HEV ORF2 protein-antibody complex deposits are associated with glomerulonephritis in hepatitis E with reduced immune status. Nature Communications, 15(1):8849.

• 2023

  • Ettlin, Julia; Bauer, Alina; Opitz, Lennart; Malbon, Alexandra; Markkanen, Enni (2023). Deciphering Stromal Changes between Metastatic and Non-metastatic Canine Mammary Carcinomas Journal of Mammary Gland Biology and Neoplasia, 28(1):14.
  • Banik, Ishani; Ghosh, Adhideb; Beebe, Erin; Burja, Blaž; Bertoncelj, Mojca Frank; Dooley, Christopher M; Markkanen, Enni; Dummer, Reinhard; Busch-Nentwich, Elisabeth M; Levesque, Mitchell P (2023). P38 Mediates Tumor Suppression through Reduced Autophagy and Actin Cytoskeleton Changes in NRAS-Mutant Melanoma Cancers, 15(3):877.
  • Beebe, Erin; Pöschel, Amiskwia; Kunz, Laura; Wolski, Witold; Motamed, Zahra; Meier, Daniela; Guscetti, Franco; Nolff, Mirja C; Markkanen, Enni (2023). Proteomic profiling of canine fibrosarcoma and adjacent peritumoral tissue Neoplasia, 35:100858.
  • Beer, Patricia; Pauli, Chantal; Haberecker, Martina; Grest, Paula; Beebe, Erin; Fuchs, Daniel; Markkanen, Enni; Krudewig, Christiane; Nolff, Mirja Christine (2023). Cross-species evaluation of fibroblast activation protein alpha as potential imaging target for soft tissue sarcoma: a comparative immunohistochemical study in humans, dogs, and cats Frontiers in Oncology, 13:1210004.

• 2022

  • Beebe, Erin; Motamed, Zahra; Opitz, Lennart; Cheng, Phil F; Levesque, Mitchell P; Markkanen, Enni; Feldmeyer, Laurence (2022). Defining the Molecular Landscape of Cancer-Associated Stroma in Cutaneous Squamous Cell Carcinoma Journal of Investigative Dermatology, 142(12):3304-3312.e5.
  • Mueller, Flavia S; Amport, René; Notter, Tina; Schalbetter, Sina M; Lin, Han-Yu; Garajova, Zuzana; Amini, Parisa; Weber-Stadlbauer, Ulrike; Markkanen, Enni (2022). Deficient DNA base-excision repair in the forebrain leads to a sex-specific anxiety-like phenotype in mice BMC Biology, 20(1):170.

• 2021

  • Clementi, Elena; Garajova, Zuzana; Markkanen, Enni (2021). Measurement of DNA Damage Using the Neutral Comet Assay in Cultured Cells Bio-protocol, 11(22):e4226.
  • Clementi, Elena; Garajova, Zuzana; Markkanen, Enni (2021). Measuring DNA Damage Using the Alkaline Comet Assay in Cultured Cells Bio-protocol, 11(16):e4119.
  • Pöschel, Amiskwia; Beebe, Erin; Kunz, Laura; Amini, Parisa; Guscetti, Franco; Malbon, Alexandra; Markkanen, Enni (2021). Identification of disease-promoting stromal components by comparative proteomic and transcriptomic profiling of canine mammary tumors using laser-capture microdissected FFPE tissue Neoplasia, 23(4):400-412.
  • Pantelyushin, Stanislav; Ranninger, Elisabeth; Guerrera, Diego; Hutter, Gregor; Maake, Caroline; Markkanen, Enni; Bettschart-Wolfensberger, Regula; Rohrer Bley, Carla; Läubli, Heinz; vom Berg, Johannes (2021). Cross-reactivity and functionality of approved human immune checkpoint blockers in dogs Cancers, 13(4):785.

• 2020

  • Guscetti, Franco; Nassiri, Sina; Beebe, Erin; Rito Brandao, Inês; Graf, Ramona; Markkanen, Enni (2020). Molecular homology between canine spontaneous oral squamous cell carcinomas and human head-and-neck squamous cell carcinomas reveals disease drivers and therapeutic vulnerabilities Neoplasia, 22(12):778-788.
  • Clementi, Elena; Inglin, Larissa; Beebe, Erin; Gsell, Corina; Garajova, Zuzana; Markkanen, Enni (2020). Persistent DNA damage triggers activation of the integrated stress response to promote cell survival under nutrient restriction BMC Biology, 18(1):36.
  • Amini, Parisa; Nassiri, Sina; Malbon, Alexandra; Markkanen, Enni (2020). Differential stromal reprogramming in benign and malignant naturally occurring canine mammary tumours identifies disease-modulating stromal components Scientific Reports, 10:5506.
  • Markkanen, Enni . Remodelling of cancer-associated stroma 2020, University of Zurich, Vetsuisse Faculty.

• 2019

  • Markkanen, Enni (2019). Know thy model: charting molecular homology in stromal reprogramming between canine and human mammary tumors Frontiers in Cell and Developmental Biology, 7:348.
  • Amini, Parisa; Nassiri, Sina; Ettlin, Julia; Malbon, Alexandra; Markkanen, Enni (2019). Next-generation RNA sequencing of FFPE subsections reveals highly conserved stromal reprogramming between canine and human mammary carcinoma Disease Models & Mechanisms, 12(8):dmm.040444.

• 2018

  • Labouesse, Marie A; Polesel, Marcello; Clementi, Elena; Müller, Flavia; Markkanen, Enni; Mouttet, Forouhar; Cattaneo, Annamaria; Richetto, Juliet (2018). MicroRNA expression profiling in the prefrontal cortex: putative mechanisms for the cognitive effects of adolescent high fat feeding Scientific Reports, 8(1):8344.

• 2017

  • Markkanen, Enni (2017). Not breathing is not an option: how to deal with oxidative DNA damage DNA repair, 59:82-105.
  • Amini, Parisa; Ettlin, Julia; Opitz, Lennart; Clementi, Elena; Malbon, Alexandra; Markkanen, Enni (2017). An optimised protocol for isolation of RNA from small sections of laser-capture microdissected FFPE tissue amenable for next-generation sequencing BMC Molecular Biology:18:22.
  • Ettlin, Julia; Clementi, Elena; Amini, Parisa; Malbon, Alexandra; Markkanen, Enni (2017). Analysis of gene expression signatures in cancer-associated stroma from canine mammary tumours reveals molecular homology to human breast carcinomas International Journal of Molecular Sciences, 18(6):E1101.

• 2016

  • Markkanen, Enni; Meyer, Urs; Dianov, Grigory L (2016). DNA damage and repair in schizophrenia and autism: implications for cancer comorbidity and beyond International Journal of Molecular Sciences, 17(6):E856.
  • Zimmer, Jutta; Tacconi, Eliana M C; Folio, Cecilia; Badie, Sophie; Porru, Manuela; Klare, Kerstin; Tumiati, Manuela; Markkanen, Enni; Halder, Swagata; Ryan, Anderson; Jackson, Stephen P; Ramadan, Kristijan; Kuznetsov, Sergey G; Biroccio, Annamaria; Sale, Julian E; Tarsounas, Madalena (2016). Targeting BRCA1 and BRCA2 deficiencies with G-Quadruplex-interacting compounds Molecular Cell, 61(3):449-460.

• 2015

  • Pfister, Sophia X; Markkanen, Enni; Jiang, Yanyan; Sarkar, Sovan; Woodcock, Mick; Orlando, Giulia; Mavrommati, Ioanna; Pai, Chen-Chun; Zalmas, Lykourgos-Panagiotis; Drobnitzky, Neele; Dianov, Grigory L; Verrill, Clare; Macaulay, Valentine M; Ying, Songmin; La Thangue, Nicholas B; D'Angiolella, Vincenzo; Ryan, Anderson J; Humphrey, Timothy C (2015). Inhibiting WEE1 selectively kills histone H3K36me3-deficient cancers by dNTP starvation Cancer Cell, 28(5):557-568.
  • Markkanen, E; Fischer, R; Ledentcova, M; Kessler, B M; Dianov, G L (2015). Cells deficient in base-excision repair reveal cancer hallmarks originating from adjustments to genetic instability Nucleic Acids Research, 43(7):3667-3679.