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Michael Knudsen

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  1. 2023
  2. Published
    Improved protocol for single-nucleus RNA-sequencing of frozen human bladder tumor biopsies. / Schmøkel, Sofie S.; Nordentoft, Iver; Lindskrog, Sia V. et al.
    In: Nucleus, Vol. 14, No. 1, 2186686, 12.2023.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  3. Published
    Circular stable intronic RNAs possess distinct biological features and are deregulated in bladder cancer. / Rasmussen, Asta M.; Okholm, Trine Line H.; Knudsen, Michael et al.
    In: NAR cancer, Vol. 5, No. 3, zcad041, 09.2023.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  4. Published
    Single-nucleus and Spatially Resolved Intratumor Subtype Heterogeneity in Bladder Cancer. / Lindskrog, Sia V.; Schmøkel, Sofie S.; Nordentoft, Iver et al.
    In: European Urology Open Science, Vol. 51, 05.2023, p. 78-88.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  5. Published
    Cell-free urine- and plasma DNA mutational analysis predicts neoadjuvant chemotherapy response and outcome in patients with muscle invasive bladder cancer. / Christensen, Emil; Nordentoft, Iver; Birkenkamp-Demtroder, Karin et al.
    In: Clinical Cancer Research, Vol. 29, No. 8, 04.2023, p. 1582–1591.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  6. Published
    Noninvasive prenatal screening for cystic fibrosis using circulating trophoblasts: Detection of the 50 most common disease-causing variants. / Jeppesen, Line Dahl; Lildballe, Dorte Launholt; Hatt, Lotte et al.
    In: Prenatal Diagnosis, Vol. 43, No. 1, 01.2023, p. 3-13.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  7. 2022
  8. Published
    Classifying cGAS-STING Activity Links Chromosomal Instability with Immunotherapy Response in Metastatic Bladder Cancer. / Sokac, Mateo; Ahrenfeldt, Johanne; Litchfield, Kevin et al.
    In: Cancer Research Communications, Vol. 2, No. 8, 08.2022, p. 762-771.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  9. Published
    Classifying cGAS-STING Activity Links Chromosomal Instability with Immunotherapy Response in Metastatic Bladder Cancer. / Sokač, Mateo; Ahrenfeldt, Johanne; Litchfield, Kevin et al.
    In: Cancer Research Communications, Vol. 2, No. 8, 08.2022, p. 762-771.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  10. Published
    Circulating tumor DNA for prognosis assessment and postoperative management after curative-intent resection of colorectal liver metastases. / Reinert, Thomas; Petersen, Lena Marie Skindhøj; Henriksen, Tenna Vesterman et al.
    In: International Journal of Cancer, Vol. 150, No. 9, 05.2022, p. 1537-1548.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  11. Published
    Author Correction: Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis. / Taber, Ann; Christensen, Emil; Lamy, Philippe et al.
    In: Nature Communications, Vol. 13, No. 1, 1916, 04.2022.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Comment/debate/letter to the editor › Research › peer-review

  12. 2020
  13. Published
    Molecular correlates of cisplatin-based chemotherapy response in muscle invasive bladder cancer by integrated multi-omics analysis. / Taber, Ann; Christensen, Emil; Lamy, Philippe et al.
    In: Nature Communications, Vol. 11, No. 1, 4858, 09.2020.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  14. 2019
  15. Published
    Validation of computational determination of microsatellite status using whole exome sequencing data from colorectal cancer patients. / Johansen, Amanda Frydendahl Boll; Kassentoft, Christine Gaasdal; Knudsen, Michael et al.
    In: BMC Cancer, Vol. 19, No. 1, 971, 21.10.2019.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  16. Published
    Correlation between early dynamics in circulating tumour DNA and outcome from FOLFIRI treatment in metastatic colorectal cancer. / Lyskjær, Iben; Kronborg, Camilla Skovhus; Rasmussen, Mads Heilskov et al.
    In: Scientific Reports, Vol. 9, No. 1, 11542, 08.08.2019.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  17. Published
    Analysis of Plasma Cell-Free DNA by Ultradeep Sequencing in Patients With Stages I to III Colorectal Cancer. / Reinert, Thomas; Henriksen, Tenna Vesterman; Christensen, Emil et al.
    In: JAMA Oncology, Vol. 5, No. 8, 01.08.2019, p. 1124-1131.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  18. Published
    Early Detection of Metastatic Relapse and Monitoring of Therapeutic Efficacy by Ultra-Deep Sequencing of Plasma Cell-Free DNA in Patients With Urothelial Bladder Carcinoma. / Christensen, Emil; Birkenkamp-Demtröder, Karin; Sethi, Himanshu et al.
    In: Journal of Clinical Oncology, Vol. 37, No. 18, 06.2019, p. 1547-1557.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  19. Published
    Hierarchical classification of cancers of unknown primary using multi-omics data. / Bavafaye Haghighi, Elham; Knudsen, Michael; Laursen, Britt Elmedal et al.
    In: Cancer Informatics, Vol. 18, 2019.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  20. 2018
  21. Published
    Serial plasma ctDNA sequencing for early detection of metastatic relapse and monitoring of therapeutic efficacy in Bladder Cancer. / Birkenkamp-Demtröder, Karin; Christensen, Emil; Sethi, Himanshu et al.
    2018. Poster session presented at 2nd Annual Research Meeting at the Department of Clinical Medicine, Aarhus, Denmark.

    Research output: Contribution to conference › Poster › Research › peer-review

  22. Published
    A Rare Case of Embryonal Carcinoma in a Patient with Turner Syndrome without Y Chromosomal Material but Mutations in KIT, AKT1, and ZNF358 Demonstrated Using Exome Sequencing. / Gravholt, Claus H; Dollerup, Ole L; Duval, Lone et al.
    In: Sexual Development, Vol. 11, No. 5-6, 2018, p. 262-268.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  23. Published
    Characterization of genetic intratumor heterogeneity in colorectal cancer and matching patient-derived spheroid cultures. / Árnadóttir, Sigrid S; Jeppesen, Maria; Lamy, Philippe et al.
    In: Molecular Oncology, Vol. 12, No. 1, 2018, p. 132–147.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  24. 2017
  25. Published
    Liquid Biopsies for monitoring treatment response and metastatic relapse in bladder cancer patients. / Birkenkamp-Demtröder, Karin; Christensen, Emil; Nordentoft, Iver Kristiansen et al.
    2017. Poster session presented at 1st Annual Research Meeting at the Department of Clinical Medicine, Aarhus, Denmark.

    Research output: Contribution to conference › Poster › Research

  26. Published
    Monitoring treatment response and metastatic relapse in advanced bladder cancer by liquid biopsy analysis. / Birkenkamp-Demtröder, Karin; Christensen, Emil; Nordentoft, Iver Kristiansen et al.
    In: European Urology, Vol. 73, No. 4, 25.09.2017, p. 535-540.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  27. Published
    Clinical implications of monitoring circulating tumor DNA in patients with colorectal cancer. / Schøler, Lone V; Reinert, Thomas; Ørntoft, Mai-Britt W et al.
    In: Clinical Cancer Research, Vol. 23, No. 18, 09.2017, p. 5437-5445.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  28. 2016
  29. Published
    Computational Classification of P-Type ATPases. / Søndergaard, Dan Ariel; Knudsen, Michael; Pedersen, Christian Storm.
    In: Methods in Molecular Biology, Vol. 1377, 2016, p. 493-502.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  30. Published
    Computational discovery of specificity-conferring sites in non-ribosomal peptide synthetases. / Knudsen, Michael; Søndergaard, Dan Ariel; Tofting-Olesen, Claus et al.
    In: Bioinformatics, Vol. 32, No. 3, 2016, p. 325-329.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  31. 2014
  32. Published
    Combinatorics of Non-Ribosomal Peptide Synthetases. / Knudsen, Michael; Søndergaard, Dan; Pedersen, Christian Nørgaard Storm.
    2014.

    Research output: Contribution to conference › Poster › Research › peer-review

  33. Published
    Machine learning approaches to functional prediction of P-Type ATPases. / Søndergaard, Dan; Knudsen, Michael; Pedersen, Christian Nørgaard Storm.
    2014.

    Research output: Contribution to conference › Poster › Research › peer-review

  34. Published
    Fungal NRPS-dependent siderophores: From function to prediction. / Sørensen, Jens Laurids; Knudsen, Michael; Hansen, Frederik Teilfeldt et al.
    Biosynthesis and Molecular Genetics of Fungal Secondary Metabolites. ed. / Juan-Francisco Martin; Carlos Garcia-Estrada; Susanne Zeilinger. Springer, 2014. p. 317-339 (Fungal Biology).

    Research output: Contribution to book/anthology/report/proceeding › Book chapter › Research › peer-review

  35. 2012
  36. Published
    A bimodular mechanism of calcium control in eukaryotes. / Tidow, Henning; Poulsen, Lisbeth Rosager; Andreeva, Antonina et al.
    In: Nature, Vol. 491, 15.11.2012, p. 468-472.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  37. Published
    Exact Analysis of Intrinsic Qualitative Features of Phosphorelays using Mathematical Models. / Knudsen, Michael; Feliu, Elisenda; Wiuf, Carsten Henrik.
    In: Journal of Theoretical Biology, Vol. 300, 2012, p. 7-18.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  38. Published
    Signaling Cascades: Consequences of Varying Substrate and Phosphatase Levels. / Feliu, Elisenda; Knudsen, Michael; Wiuf, Carsten Henrik.
    In: Advances in Experimental Medicine and Biology, Vol. 736, 2012, p. 81-94.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  39. 2011
  40. Published
    An Algebraic Approach to Signaling Cascades with n Layers. / Feliu, Elisenda; Knudsen, Michael; Andersen, Lars Nørvang et al.
    In: Bulletin of Mathematical Biology, Vol. 74, No. 1, 2011, p. 45-72.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  41. Published
    An Algebro-Topological Description of Protein Domain Structure. / Penner, Robert; Knudsen, Michael; Wiuf, Carsten Henrik et al.
    In: P L o S One, 2011.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  42. Published
    Mathematical Modeling of Phosphorelay Dynamics. / Knudsen, Michael; Feliu, Elisenda; Wiuf, Carsten Henrik.
    2011. Poster session presented at The XII International Congress on Molecular Systems Biology, Lleida, Spain.

    Research output: Contribution to conference › Poster › Research

  43. 2010
  44. Published
    An Algebraic Approach to Signaling Cascades with n Layers. / Feliu, Elisenda; Knudsen, Michael; Wiuf, Carsten Henrik et al.
    2010. Poster session presented at The 11th International Conference on Systems Biology, Edinburgh, United Kingdom.

    Research output: Contribution to conference › Poster › Research

  45. Published
    Fatgraph Models of Proteins. / Penner, Robert; Knudsen, Michael; Wiuf, Carsten Henrik et al.
    In: Communications on Pure and Applied Mathematics, Vol. 63, No. 10, 2010, p. 1249-1297.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  46. Published
    Steady States of Phosphorelays and Two-Component Systems. / Knudsen, Michael; Feliu, Elisenda; Wiuf, Carsten Henrik et al.
    2010. Poster session presented at The 11th International Conference on Systems Biology, Edinburgh, United Kingdom.

    Research output: Contribution to conference › Poster › Research

  47. Published
    The CATH Database. / Knudsen, Michael; Wiuf, Carsten Henrik.
    In: Human Genomics (Online), 2010.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  48. 2009
  49. Published
    Modeling cis- and trans-regulation in Drosophila species. / Knudsen, Michael; Nielsen, Rasmus.
    Tampere International Center for Signal Processing, TICSP Series 48. Tampere International Center for Signal Processing, 2009.

    Research output: Contribution to book/anthology/report/proceeding › Article in proceedings › Research › peer-review

  50. 2008
  51. Published
    A Markov chain approach to Randomly Grown Graphs. / Knudsen, Michael; Wiuf, Carsten.
    In: Journal of Applied Mathematics, 2008.

    Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

  52. Published
    An Algebraic Topology Approach to the Classification of Protein Domain Structures. / Knudsen, Michael; Penner, Robert; Andersen, Jørgen Ellegaard et al.
    2008. Poster session presented at 6th Annual Rocky Mountain Bioinformatics Conference, Snowmass Village, Colorado, United States.

    Research output: Contribution to conference › Poster › Research

  53. Published
    Analysis of biological network data using likelihood-free inference techniques. / Wiuf, Carsten; Ratmann, Oliver; Knudsen, Michael.
    Ikke angivet. ed. / Miika Ahdesmäki; Korbinian Strimmer; Nicole Radde; Jörg Rahnenführer; Konstantin Klemm; Harri Lähdesmäki; Olli Yli-Harja. <Forlag uden navn>, 2008. p. 185-188 (TICPS; No. 41).

    Research output: Contribution to book/anthology/report/proceeding › Article in proceedings › Research › peer-review

  54. Published
    System and method for modelling a molecule with a graph. / Penner, Robert (Inventor); Andersen, Jørgen Ellegaard (Inventor); Wiuf, Carsten Henrik (Inventor) et al.
    Patent No.: PA 2008 01009.

    Research output: Patent