Jan Gorodkin

Jan Gorodkin

Professor

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    1 - 25 out of 151Page size: 25
    1. 2024
    2. E-pub ahead of print

      Systematic analysis and characterization of long non-coding RNA genes in inflammatory bowel disease

      Velissari, R., Ilieva, M., Dao, J., Miller, H. E., Madsen, J. H., Gorodkin, Jan, Aikawa, M., Ishii, H. & Uchida, S., 2024, (E-pub ahead of print) In: Briefings in Functional Genomics.

      Research output: Contribution to journal › Journal article › Research › peer-review

    3. 2023
    4. Published

      Alteration of microglial metabolism and inflammatory profile contributes to neurotoxicity in a hiPSC-derived microglia model of frontotemporal dementia 3

      Haukedal, H., Syshøj Lorenzen, S., Westi, Emil Winther, Corsi, G., Gadekar, V. P., McQuade, A., Davtyan, H., Doncheva, Nadezhda Tsankova, Schmid, B., Chandrasekaran, Abinaya, Seemann, Ernst Stefan, Cirera, Susanna, Blurton-Jones, M., Meyer, M., Gorodkin, Jan, Aldana, Blanca & Freude, Kristine, 2023, In: Brain, Behavior, and Immunity. 113, p. 353-373

      Research output: Contribution to journal › Journal article › Research › peer-review

    5. Published

      CRISPRi screen for enhancing heterologous alpha-amylase yield in Bacillus subtilis

      Geissler, Adrian Sven, Fehler, A. O., Poulsen, L. D., Gonzalez-Tortuero, E., Kallehauge, T. B., Alkan, F., Anthon, Christian, Seemann, Ernst Stefan, Rasmussen, M. D., Breuener, A., Hjort, C., Vinther, Jeppe & Gorodkin, Jan, 2023, In: Journal of Industrial Microbiology and Biotechnology. 50, 1, 16 p., kuac028.

      Research output: Contribution to journal › Journal article › Research › peer-review

    6. Published

      Cross-species high-resolution transcriptome profiling suggests biomarkers and therapeutic targets for ulcerative colitis

      Yarani, R., Palasca, Oana, Doncheva, Nadezhda Tsankova, Anthon, Christian, Pilecki, B., Svane, C. A. S., Mirza, A. H., Litman, Thomas, Holmskov, U., Bang-Berthelsen, C. H., Vilien, M., Jensen, Lars Juhl, Gorodkin, Jan & Pociot, Flemming, 2023, In: Frontiers in Molecular Biosciences. 9, 1081176.

      Research output: Contribution to journal › Journal article › Research › peer-review

    7. Published

      Golgi fragmentation: One of the earliest organelle phenotypes in Alzheimer's disease neurons

      Haukedal, H., Corsi, G. I., Gadekar, V. P., Doncheva, N. T., Kedia, S., de Haan, N., Chandrasekaran, A., Jensen, P., Schiønning, P., Vallin, S., Marlet, F. R., Poon, A., Pires, C., Agha, F. K., Wandall, H. H., Cirera, S., Simonsen, A. H., Nielsen, T. T., Nielsen, J. E., Hyttel, P. & 7 others, Muddashetty, R., Aldana, Blanca, Gorodkin, Jan, Nair, D., Meyer, M., Larsen, M. R. & Freude, Kristine, 2023, In: Frontiers in Neuroscience. 17, 17 p., 1120086.

      Research output: Contribution to journal › Journal article › Research › peer-review

    8. Published

      Letter to the editor: Testing on external independent datasets is necessary to corroborate machine learning model improvement

      Corsi, G. I., Anthon, Christian & Gorodkin, Jan, 2023, In: Bioinformatics. 39, 6, btad327.

      Research output: Contribution to journal › Letter › Research › peer-review

    9. Published

      Progress and harmonization of gene editing to treat human diseases: Proceeding of COST Action CA21113 GenE-HumDi

      Cavazza, A., Hendel, A., Bak, R. O., Rio, P., Güell, M., Lainšček, D., Arechavala-Gomeza, V., Peng, L., Hapil, F. Z., Harvey, J., Ortega, F. G., Gonzalez-Martinez, C., Lederer, C. W., Mikkelsen, K., Gasiunas, G., Kalter, N., Gonçalves, M. A. F. V., Petersen, J., Garanto, A., Montoliu, L. & 20 others, Maresca, M., Seemann, Ernst Stefan, Gorodkin, Jan, Mazini, L., Sanchez, R., Rodriguez-Madoz, J. R., Maldonado-Pérez, N., Laura, T., Schmueck-Henneresse, M., Maccalli, C., Grünewald, J., Carmona, G., Kachamakova-Trojanowska, N., Miccio, A., Martin, F., Turchiano, G., Cathomen, T., Luo, Y., Tsai, S. Q. & Benabdellah, K., 2023, In: Molecular Therapy Nucleic Acids. 34, 14 p., 102066.

      Research output: Contribution to journal › Review › Research › peer-review

    10. Published

      RNA-Seq Study on the Longissimus thoracis Muscle of Italian Large White Pigs Fed Extruded Linseed with or without Antioxidants and Polyphenols

      Vegni, J., Sun, Y., Seemann, Ernst Stefan, Zappaterra, M., Davoli, R., Dall’Olio, S., Gorodkin, Jan & Zambonelli, P., 2023, In: Animals. 13, 7, 1187.

      Research output: Contribution to journal › Journal article › Research › peer-review

    11. Published

      The transcriptomic landscape of neurons carrying PSEN1 mutations reveals changes in extracellular matrix components and non-coding gene expression

      Corsi, G. I., Gadekar, V. P., Haukedal, H., Doncheva, Nadezhda Tsankova, Anthon, Christian, Ambardar, S., Palakodeti, D., Hyttel, P., Freude, Kristine, Seemann, Ernst Stefan & Gorodkin, Jan, 2023, In: Neurobiology of Disease. 178, 17 p., 105980.

      Research output: Contribution to journal › Journal article › Research › peer-review

    12. Published

      Translational control of furina by an RNA regulon is important for left-right patterning, heart morphogenesis and cardiac valve function

      Nagorska, A., Zaucker, A., Lambert, F., Inman, A., Toral-Perez, S., Gorodkin, Jan, Wan, Y., Smutny, M. & Sampath, K., 2023, In: Development (Cambridge). 150, 23, 15 p., 201657.

      Research output: Contribution to journal › Journal article › Research › peer-review

    13. Published

      Utilizing directed evolution to interrogate and optimize CRISPR/Cas guide RNA scaffolds

      Bush, K., Corsi, G. I., Yan, A. C., Haynes, K., Layzer, J. M., Zhou, J. H., Llanga, T., Gorodkin, Jan & Sullenger, B. A., 2023, In: Cell Chemical Biology. 30, 8, p. 879-892.e5

      Research output: Contribution to journal › Journal article › Research › peer-review

    14. 2022
    15. Published

      Single cell mapping the evolution of the spatial processing centre within the brain

      Ralbovszki, Dorottya Maria, Bertelsen, Mads Frost, Buchmann, Kurt, Mori, Yuki, Gorodkin, Jan, Hemberg, M., Seemann, Ernst Stefan, Khodosevich, Konstantin & Hall, Vanessa Jane, 1 May 2022.

      Research output: Contribution to conference › Poster › Communication

    16. Published

      CRISPR/Cas9 gRNA activity depends on free energy changes and on the target PAM context

      Corsi, G. I., Qu, Kunli, Alkan, F., Pan, Xiaoguang, Luo, Y. & Gorodkin, Jan, 2022, In: Nature Communications. 13, 14 p., 3006.

      Research output: Contribution to journal › Journal article › Research › peer-review

    17. Published

      CRISPRon/off: CRISPR/Cas9 on- and off-target gRNA design

      Anthon, Christian, Corsi, G. I. & Gorodkin, Jan, 2022, In: Bioinformatics. 38, 24, p. 5437-5439 3 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    18. Published

      CRISPRroots: On-and off-target assessment of RNA-seq data in CRISPR-Cas9 edited cells

      Corsi, G. I., Gadekar, V. P., Gorodkin, Jan & Seemann, Ernst Stefan, 2022, In: Nucleic Acids Research. 50, 4, 12 p., E20.

      Research output: Contribution to journal › Journal article › Research › peer-review

    19. Published

      Differentially Expressed miRNAs in Ulcerative Colitis and Crohn's Disease

      Yarani, R., Shojaeian, A., Palasca, Oana, Doncheva, Nadezhda Tsankova, Jensen, Lars Juhl, Gorodkin, Jan & Pociot, Flemming, 2022, In: Frontiers in Immunology. 13, 21 p., 865777.

      Research output: Contribution to journal › Review › Research › peer-review

    20. Published

      Does rapid sequence divergence preclude RNA structure conservation in vertebrates?

      Seemann, Ernst Stefan, Mirza, A. H., Bang-Berthelsen, C. H., Garde, C., Christensen-Dalsgaard, M., Workman, C. T., Pociot, Flemming, Tommerup, Niels, Gorodkin, Jan & Ruzzo, W. L., 2022, In: Nucleic Acids Research. 50, 5, p. 2452-2463 12 p.

      Research output: Contribution to journal › Journal article › Research › peer-review

    21. Published

      Flagella disruption in Bacillus subtilis increases amylase production yield

      Fehler, A. O., Kallehauge, T. B., Geissler, Adrian Sven, González-Tortuero, E., Seemann, Ernst Stefan, Gorodkin, Jan & Vinther, Jeppe, 2022, In: Microbial Cell Factories. 21, 11 p., 131.

      Research output: Contribution to journal › Journal article › Research › peer-review

    22. Published

      Massively targeted evaluation of therapeutic CRISPR off-targets in cells

      Pan, X., Qu, K., Yuan, H., Xiang, X., Anthon, C., Pashkova, L., Liang, X., Han, P., Corsi, G. I., Xu, F., Liu, P., Zhong, J., Zhou, Y., Ma, T., Jiang, H., Liu, J., Wang, J., Jessen, N., Bolund, L., Yang, H. & 5 others, Xu, X., Church, G. M., Gorodkin, Jan, Lin, L. & Luo, Y., 2022, In: Nature Communications. 13, 14 p., 4049.

      Research output: Contribution to journal › Journal article › Research › peer-review

    23. Published

      Production of human entorhinal stellate cell-like cells by forward programming shows an important role of Foxp1 in reprogramming

      Bergmann, T., Liu, Y., Skov, J., Mogus, L., Lee, J., Pfisterer, U., Handfield, L. F., Asenjo-Martinez, A., Lisa-Vargas, I., Seemann, S. E., Lee, J. T. H., Patikas, N., Kornum, B. R., Denham, M., Hyttel, P., Witter, M. P., Gorodkin, J., Pers, T. H., Hemberg, M., Khodosevich, K. & 1 others, Hall, Vanessa Jane, 2022, In: Frontiers in Cell and Developmental Biology. 10, 976549.

      Research output: Contribution to journal › Journal article › Research › peer-review

    24. Published

      The Bacillaceae-1 RNA motif comprises two distinct classes

      González-Tortuero, E., Anthon, Christian, Havgaard, Jakob Hull, Geissler, Adrian Sven, Breüner, A., Hjort, C., Gorodkin, Jan & Seemann, Ernst Stefan, 2022, In: Gene. 841, 146756.

      Research output: Contribution to journal › Journal article › Research › peer-review

    25. Published

      The impact of PrsA over-expression on the Bacillus subtilis transcriptome during fed-batch fermentation of alpha-amylase production

      Geissler, Adrian Sven, Poulsen, L. D., Doncheva, Nadezhda Tsankova, Anthon, Christian, Seemann, Ernst Stefan, González-Tortuero, E., Breüner, A., Jensen, Lars Juhl, Hjort, C., Vinther, Jeppe & Gorodkin, Jan, 2022, In: Frontiers in Microbiology. 13, 17 p., 909493.

      Research output: Contribution to journal › Journal article › Research › peer-review

    26. 2021
    27. Published

      A non-enzymatic, isothermal strand displacement and amplification assay for rapid detection of SARS-CoV-2 RNA

      Mohammadniaei, M., Zhang, M., Ashley, J., Christensen, U. B., Friis-Hansen, L. J., Gregersen, R., Lisby, J. G., Benfield, Thomas, Nielsen, F. E., Henning Rasmussen, J., Pedersen, E. B., Olinger, A. C. R., Kolding, L. T., Naseri, M., Zheng, T., Wang, W., Gorodkin, Jan & Sun, Y., 2021, In: Nature Communications. 12, 5089.

      Research output: Contribution to journal › Journal article › Research › peer-review

    28. Published

      Astrocytic reactivity triggered by defective autophagy and metabolic failure causes neurotoxicity in frontotemporal dementia type 3

      Chandrasekaran, A., Dittlau, K. S., Corsi, G. I., Haukedal, H., Doncheva, N. T., Ramakrishna, S., Ambardar, S., Salcedo, C., Schmidt, S. I., Zhang, Y., Cirera, S., Pihl, M., Schmid, B., Nielsen, T. T., Nielsen, J. E., Kolko, M., Kobolák, J., Dinnyés, A., Hyttel, P., Palakodeti, D. & 5 others, Gorodkin, Jan, Muddashetty, R. S., Meyer, M., Aldana, Blanca & Freude, Kristine, 2021, In: Stem Cell Reports. 16, 11, p. 2736-2751

      Research output: Contribution to journal › Journal article › Research › peer-review

    29. Published

      Bsgatlas: A unified bacillus subtilis genome and transcriptome annotation atlas with enhanced information access

      Geissler, Adrian Sven, Anthon, Christian, Alkan, F., González-Tortuero, E., Poulsen, L. D., Kallehauge, T. B., Breüner, A., Seemann, Ernst Stefan, Vinther, Jeppe & Gorodkin, Jan, 2021, In: Microbial Genomics. 7, 2, 17 p., 000524.

      Research output: Contribution to journal › Journal article › Research › peer-review

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    ID: 4356276