Computational and RNA Biology

  1. Published

    Tumor antigens as proteogenomic biomarkers in invasive ductal carcinomas

    Olsen, L. R., Campos, B., Winther, Ole, Sgroi, D. C., Karger, B. L. & Brusic, V., 2014, In: B M C Medical Genomics. 7, 3, p. 1-13 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  2. Published

    TrustGWAS: A full-process workflow for encrypted GWAS using multi-key homomorphic encryption and pseudorandom number perturbation

    YANG, Meng, Zhang, C., Wang, X., Liu, X., Li, S., Huang, J., Feng, Z., Sun, X., Chen, F., Yang, S., Ni, M., Li, L., Cao, Y. & Mu, F., 2022, In: Cell Systems. 13, 9, p. 752-767.e6 23 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Published

    True single-molecule DNA sequencing of a pleistocene horse bone

    Orlando, L. A. A., Ginolhac, A., Raghavan, M., Mouatt, J. T. V., Rasmussen, M., Magnussen, K., Steinmann, K. E., Kapranov, P., Thompson, J. F., Zazula, G., Froese, D., Moltke, Ida, Shapiro, B., Hofreiter, M., Al-Rasheid, K. A. S., Gilbert, M Thomas P & Willerslev, Eske, 2011, In: Genome Research. 21, 10, p. 1705-1719 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  4. Published

    Transition1x: a dataset for building generalizable reactive machine learning potentials

    Schreiner, M., Bhowmik, A., Vegge, T., Busk, J. & Winther, Ole, 2022, In: Scientific Data. 9, 1, 9 p., 779.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. Published

    Transfer learning reveals sequence determinants of regulatory element accessibility

    Salvatore, Marco, Horlacher, M., Winther, Ole & Andersson, Robin, 2022, bioRxiv, 24 p.

    Research output: Working paperPreprintResearch

  6. Published

    Transfer learning identifies sequence determinants of cell-type specific regulatory element accessibility

    Salvatore, Marco, Horlacher, M., Marsico, A., Winther, Ole & Andersson, Robin, 2023, In: NAR Genomics and Bioinformatics. 5, 2, 10 p., 026.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. Published

    Transfer RNA instability as a stress response in Escherichia coli: rapid dynamics of the tRNA pool as a function of demand

    Sørensen, Michael Askvad, Fehler, A. O. & Svenningsen, Sine Lo, 2018, In: RNA Biology. 15, 4/5, p. 586-593 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. Published

    Transcriptome dynamics of the microRNA inhibition response

    Wen, J., Leucci, E., Vendramin, R., Kauppinen, S., Lund, Anders H., Krogh, Anders & Parker, B. J., 2015, In: Nucleic Acids Research. 43, 13, p. 6207-6221 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Published

    Transcriptome analysis of recurrently deregulated genes across multiple cancers identifies new pan-cancer biomarkers

    Kaczkowski, B., Tanaka, Y., Kawaji, H., Sandelin, Albin Gustav, Andersson, Robin, Itoh, M., Lassmann, T., the FANTOM5 consortium, Hayashizaki, Y., Carninci, P. & Forrest, A. R. R., 2016, In: Cancer Research. 76, 2, p. 216-226

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Published

    Transcriptome Analysis Identifies GATA3-AS1 as a Long Noncoding RNA Associated with Resistance to Neoadjuvant Chemotherapy in Locally Advanced Breast Cancer Patients

    Contreras-Espinosa, L., Alcaraz, N., De La Rosa-Velázquez, I. A., Díaz-Chávez, J., Cabrera-Galeana, P., Rebollar-Vega, R., Reynoso-Noverón, N., Maldonado-Martínez, H. A., González-Barrios, R., Montiel-Manríquez, R., Bautista-Sánchez, D., Castro-Hernández, C., Alvarez-Gomez, R. M., Jiménez-Trejo, F., Tapia-Rodríguez, M., García-Gordillo, J. A., Pérez-Rosas, A., Bargallo-Rocha, E., Arriaga-Canon, C. & Herrera, L. A., 2021, In: Journal of Molecular Diagnostics. 23, 10, p. 1306-1323 18 p.

    Research output: Contribution to journalJournal articleResearchpeer-review