Ule, Jernej

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

Licatalosi, D. D., Mele, A., Fak, J. J., Ule, J., Kayikci, M., Chi, S. W., Clark, T. A., Schweitzer, A. C., Blume, J. E., Wang, X., et al. (2008) · Nature

RNA Research and SplicingRNA regulation and disease

Cited by 1,352

Characterizing the RNA targets and position-dependent splicing regulation by TDP-43

Tollervey, J. R., Curk, T., Rogelj, B., Briese, M., Cereda, M., Kayikci, M., König, J., Hortobágyi, T., Nishimura, A. L., Župunski, V., et al. (2011) · Nature Neuroscience

RNA Research and SplicingAmyotrophic Lateral Sclerosis Research

Cited by 1,165

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

König, J., Zarnack, K., Rot, G., Curk, T., Kayikci, M., Zupan, B., Turner, D. J., Luscombe, N. M., & Ule, J. (2010) · Nature Structural & Molecular Biology

RNA Research and SplicingRNA regulation and disease

Cited by 1,126

CLIP Identifies Nova-Regulated RNA Networks in the Brain

Ule, J., Jensen, K. B., Ruggiu, M., Mele, A., Ule, A., & Darnell, R. B. (2003) · Science

RNA Research and SplicingRNA regulation and disease

Cited by 1,120

Alternative Splicing Regulatory Networks: Functions, Mechanisms, and Evolution

Ule, J., & Blencowe, B. J. (2019) · Molecular Cell

RNA Research and SplicingRNA regulation and disease

Cited by 780

Protein–RNA interactions: new genomic technologies and perspectives

König, J., Zarnack, K., Luscombe, N. M., & Ule, J. (2012) · Nature Reviews Genetics

RNA Research and SplicingRNA and protein synthesis mechanisms

Cited by 555

The cyclin K/Cdk12 complex maintains genomic stability via regulation of expression of DNA damage response genes

Blazek, D., Kohoutek, J., Bartholomeeusen, K., Johansen, E., Hulinkova, P., Luo, Z., Cimermancic, P., Ule, J., & Peterlin, B. M. (2011) · Genes & Development

DNA Repair MechanismsCancer-related Molecular Pathways

Cited by 522

Nova regulates brain-specific splicing to shape the synapse

Ule, J., Ule, A., Spencer, J., Williams, A., Hu, J.-S., Cline, M., Wang, H., Clark, T., Fraser, C., Ruggiu, M., et al. (2005) · Nature Genetics

RNA Research and SplicingRNA regulation and disease

Cited by 509

Major Shifts in Glial Regional Identity Are a Transcriptional Hallmark of Human Brain Aging

Soreq, L., Rose, J., Soreq, E., Hardy, J., Trabzuni, D., Cookson, M. R., Smith, C., Ryten, M., Patani, R., & Ule, J. (2017) · Cell Reports

Neuroinflammation and Neurodegeneration MechanismsSingle-cell and spatial transcriptomics

Cited by 419

Widespread binding of FUS along nascent RNA regulates alternative splicing in the brain

Rogelj, B., Easton, L. E., Bogu, G. K., Stanton, L. W., Rot, G., Curk, T., Zupan, B., Sugimoto, Y., Modic, M., Haberman, N., et al. (2012) · Scientific Reports

RNA Research and SplicingAmyotrophic Lateral Sclerosis Research

Cited by 278

Analysis of alternative splicing associated with aging and neurodegeneration in the human brain

Tollervey, J. R., Wang, Z., Hortobágyi, T., Witten, J. T., Zarnack, K., Kayikci, M., Clark, T. A., Schweitzer, A. C., Rot, G., Curk, T., et al. (2011) · Genome Research

RNA Research and SplicingAlzheimer's disease research and treatments

Cited by 252

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

Sugimoto, Y., König, J., Hussain, S., Zupan, B., Curk, T., Frye, M., & Ule, J. (2012) · Genome Biology

RNA Research and SplicingRNA and protein synthesis mechanisms

Cited by 234

Pandemic peak SARS-CoV-2 infection and seroconversion rates in London frontline health-care workers

Houlihan, C. F., Vora, N., Byrne, T., Lewer, D., Kelly, G., Heaney, J., Gandhi, S., Spyer, M. J., Beale, R., Cherepanov, P., et al. (2020) · The Lancet

SARS-CoV-2 and COVID-19 ResearchCOVID-19 epidemiological studies

Cited by 219

Cytotoxic T-cells mediate exercise-induced reductions in tumor growth

Rundqvist, H., Veliça, P., Barbieri, L., Gameiro, P. A., Bargiela, D., Gojkovic, M., Mijwel, S., Reitzner, S. M., Wulliman, D., Ahlstedt, E., et al. (2020) · eLife

Cancer Immunotherapy and BiomarkersImmune cells in cancer

Cited by 216

Neuronal Elav-like (Hu) proteins regulate RNA splicing and abundance to control glutamate levels and neuronal excitability

Ince-Dunn, G., Okano, H. J., Jensen, K. B., Park, W.-Y., Zhong, R., Ule, J., Mele, A., Fak, J. J., Yang, C., Zhang, C., et al. (2012) · Neuron

RNA Research and SplicingNeuroscience and Neuropharmacology Research

Cited by 212

Progressive Motor Neuron Pathology and the Role of Astrocytes in a Human Stem Cell Model of VCP-Related ALS

Hall, C. E., Yao, Z., Choi, M., Tyzack, G. E., Serio, A., Luisier, R., Harley, J., Preza, E., Arber, C., Crisp, S. J., et al. (2017) · Cell Reports

Amyotrophic Lateral Sclerosis ResearchPluripotent Stem Cells Research

Cited by 179

Common Molecular Pathways Mediate Long-Term Potentiation of Synaptic Excitation and Slow Synaptic Inhibition

Huang, C. S., Shi, S.-H., Ule, J., Ruggiu, M., Barker, L. A., Darnell, R. B., Jan, Y. N., & Jan, L. Y. (2005) · Cell

Neuroscience and Neuropharmacology ResearchMemory and Neural Mechanisms

Cited by 157

A Global Regulatory Mechanism for Activating an Exon Network Required for Neurogenesis

Raj, B., Irimia, M., Braunschweig, U., Sterne-Weiler, T., O’Hanlon, D., Lin, Z.-Y., Chen, G. I., Easton, L. E., Ule, J., Gingras, A.-C., et al. (2014) · Molecular Cell

RNA Research and SplicingRNA regulation and disease

Cited by 132

CELF4 regulates translation and local abundance of a vast set of mRNAs, including genes associated with regulation of synaptic function

Wagnon, J. L., Briese, M., Sun, W., Mahaffey, C. L., Curk, T., Rot, G., Ule, J., & Frankel, W. N. (2012) · PLoS Genetics

RNA Research and SplicingGenetics and Neurodevelopmental Disorders

Cited by 125

Subcellular mRNA localization regulates ribosome biogenesis in migrating cells

Dermit, M., Dodel, M., Lee, F. C. Y., Azman, M. S., Schwenzer, H., Jones, J. L., Blagden, S. P., Ule, J., & Mardakheh, F. K. (2019) · Developmental Cell

RNA and protein synthesis mechanismsRNA Research and Splicing

Cited by 96

Regulation of constitutive and alternative mRNA splicing across the human transcriptome by PRPF8 is determined by 5′ splice site strength

Wickramasinghe, V. O., Gonzàlez-Porta, M., Perera, D., Bartolozzi, A. R., Sibley, C. R., Hallegger, M., Ule, J., Marioni, J. C., & Venkitaraman, A. R. (2015) · Genome Biology

RNA Research and SplicingRNA and protein synthesis mechanisms

Cited by 91

Aberrant sodium channel activity in the complex seizure disorder of Celf4 mutant mice

Sun, W., Wagnon, J. L., Mahaffey, C. L., Briese, M., Ule, J., & Frankel, W. N. (2013) · The Journal of Physiology

Epilepsy research and treatmentIon channel regulation and function

Cited by 36

Mutual homeostasis of charged proteins

Faraway, R., Heaven, N. C., Digby, H., Wilkins, O. G., Chakrabarti, A. M., Iosub, I. A., Knez, L., Ameres, S. L., Plaschka, C., & Ule, J. (2023) · Nature

RNA Research and SplicingRNA and protein synthesis mechanisms

Cited by 24

Short RNA chaperones promote aggregation-resistant TDP-43 conformers to mitigate neurodegeneration

Copley, K. E., Mauna, J. C., Danielson, H. L., Chen, Q., Ozguney, B., Ngo, M., Xie, L., Smirnov, A., Davis, M., Mayne, L., et al. (2026) · Science

Amyotrophic Lateral Sclerosis ResearchAlzheimer's disease research and treatments

Cited by 16