A day in the life of the spliceosome

Expansion of the eukaryotic proteome by alternative splicing

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CRM1 Is an Export Receptor for Leucine-Rich Nuclear Export Signals

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Frequent pathway mutations of splicing machinery in myelodysplasia

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Spliceosome Structure and Function

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A single nucleotide in the SMN gene regulates splicing and is responsible for spinal muscular atrophy

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Spliced segments at the 5′ terminus of adenovirus 2 late mRNA

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Understanding alternative splicing: towards a cellular code

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An amazing sequence arrangement at the 5′ ends of adenovirus 2 messenger RNA

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Are snRNPs involved in splicing?

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Splicing regulation: From a parts list of regulatory elements to an integrated splicing code

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U1 snRNP regulates cancer cell migration and invasion in vitro

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A brave new world of RNA-binding proteins

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Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)

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Transcriptome Engineering with RNA-Targeting Type VI-D CRISPR Effectors

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RNA in cancer

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Circular RNA and its mechanisms in disease: From the bench to the clinic

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RNA splicing factors as oncoproteins and tumour suppressors

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Efficient backsplicing produces translatable circular mRNAs

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Therapeutic targeting of splicing in cancer

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A guide to membraneless organelles and their various roles in gene regulation

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Aberrant RNA splicing in cancer; expression changes and driver mutations of splicing factor genes

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Cancer-Associated SF3B1 Hotspot Mutations Induce Cryptic 3′ Splice Site Selection through Use of a Different Branch Point

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Insights into circular RNA biology

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SMN2 splice modulators enhance U1–pre-mRNA association and rescue SMA mice

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Supermeres are functional extracellular nanoparticles replete with disease biomarkers and therapeutic targets

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Biogenesis, identification, and function of exonic circular RNAs

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Alternative splicing and related RNA binding proteins in human health and disease

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The neurogenetics of alternative splicing

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Lessons from non-canonical splicing

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The role of alternative splicing in cancer: From oncogenesis to drug resistance

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Splicing regulation by long noncoding RNAs

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Circular RNAs in immune responses and immune diseases

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The powerful world of antisense oligonucleotides: From bench to bedside

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FTO controls reversible m6Am RNA methylation during snRNA biogenesis

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Innate immune evasion strategies of SARS-CoV-2

Minkoff, J. M., & tenOever, B. R. (2023) · Nature Reviews Microbiology · doi:10.1038/s41579-022-00839-1 · Cited by 267

The Spliceosome: The Ultimate RNA Chaperone and Sculptor

Papasaikas, P., & Valcárcel, J. (2015) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2015.11.003 · Cited by 263

Alternative mRNA splicing in cancer immunotherapy

Frankiw, L., Baltimore, D., & Li, G. (2019) · Nature reviews. Immunology · doi:10.1038/s41577-019-0195-7 · Cited by 253

PRMT9 is a Type II methyltransferase that methylates the splicing factor SAP145

Yang, Y., Hadjikyriacou, A., Xia, Z., Gayatri, S., Kim, D., Zurita‐Lopez, C. I., Kelly, R. L., Guo, A., Li, W., Clarke, S. G., et al. (2015) · Nature Communications · doi:10.1038/ncomms7428 · Cited by 240

Control of mammalian gene expression by selective mRNA export

Wickramasinghe, V. O., & Laskey, R. A. (2015) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm4010 · Cited by 238

Cytoplasmic RNA decay pathways - Enzymes and mechanisms

Łabno, A., Tomecki, R., & Dziembowski, A. (2016) · Biochimica et Biophysica Acta (BBA) - Molecular Cell Research · doi:10.1016/j.bbamcr.2016.09.023 · Cited by 243

The role of survival motor neuron protein (SMN) in protein homeostasis

Chaytow, H., Huang, Y.-T., Gillingwater, T. H., & Faller, K. M. E. (2018) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-018-2849-1 · Cited by 240

The Splicing Factor RBM4 Controls Apoptosis, Proliferation, and Migration to Suppress Tumor Progression

Wang, Y., Chen, D., Qian, H., Tsai, Y., Shao, S., Liu, Q., Dominguez, D., & Wang, Z. (2014) · Cancer Cell · doi:10.1016/j.ccr.2014.07.010 · Cited by 224

PRMT5 Regulates DNA Repair by Controlling the Alternative Splicing of Histone-Modifying Enzymes

Hamard, P.-J., Santiago, G. E., Liu, F., Karl, D. L., Martínez, C., Man, N., Mookhtiar, A. K., Duffort, S., Greenblatt, S. M., Verdún, R. E., et al. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.08.002 · Cited by 232

RNA Splicing and Disease: Animal Models to Therapies

Montes, M., Sanford, B. L., Comiskey, D. F., & Chandler, D. S. (2018) · Trends in Genetics · doi:10.1016/j.tig.2018.10.002 · Cited by 225

Defective control of pre–messenger RNA splicing in human disease

Chabot, B., & Shkreta, L. (2016) · The Journal of Cell Biology · doi:10.1083/jcb.201510032 · Cited by 220

Alternative Splicing and Protein Diversity: Plants Versus Animals

Chaudhary, S., Khokhar, W., Jabre, I., Reddy, A. S. N., Byrne, L. J., Wilson, C. M., & Syed, N. H. (2019) · Frontiers in Plant Science · doi:10.3389/fpls.2019.00708 · Cited by 209

Modular Assembly of the Bacterial Large Ribosomal Subunit

Davis, J. H., Tan, Y. Z., Carragher, B. O., Potter, C. S., Lyumkis, D., & Williamson, J. R. (2016) · Cell · doi:10.1016/j.cell.2016.11.020 · Cited by 212

The Short- and Long-Range RNA-RNA Interactome of SARS-CoV-2

Ziv, O., Price, J. L., Shalamova, L. A., Kamenova, T., Goodfellow, I., Weber, F., & Miska, E. A. (2020) · Molecular Cell · doi:10.1016/j.molcel.2020.11.004 · Cited by 203

Tau-mediated disruption of the spliceosome triggers cryptic rna splicing and neurodegeneration in Alzheimer's Disease

Hsieh, Y.-C., Guo, C., Yalamanchili, H. K., Abreha, M., Al-Ouran, R., Li, Y., Dammer, E. B., Lah, J. J., Levey, A. I., Bennett, D. A., et al. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.08.104 · Cited by 196

Punctuated evolution of canonical genomic aberrations in uveal melanoma

Field, M. G., Durante, M. A., Anbunathan, H., CAI, L. Z., Decatur, C. L., Bowcock, A. M., Kurtenbach, S., & Harbour, J. W. (2018) · Nature Communications · doi:10.1038/s41467-017-02428-w · Cited by 198

Alternative Splicing in Neurogenesis and Brain Development

Su, C.-H., Dhananjaya, D., & Tarn, W. (2018) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2018.00012 · Cited by 204

Alternative splicing in prostate cancer

Paschalis, A., Sharp, A., Welti, J. C., Neeb, A., Raj, G. V., Luo, J., Plymate, S. R., & Bono, J. S. D. (2018) · Nature Reviews Clinical Oncology · doi:10.1038/s41571-018-0085-0 · Cited by 190

Circular RNA expression in human hematopoietic cells is widespread and cell-type specific

Nicolet, B. P., Engels, S., Aglialoro, F., van den Akker, E., Lindern, M. V., & Wolkers, M. C. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky721 · Cited by 188

Widespread Transcriptional Scanning in the Testis Modulates Gene Evolution Rates

Xia, B., Yan, Y., Baron, M., Wagner, F., Barkley, D., Chiodin, M., Kim, S. Y., Keefe, D. L., Alukal, J. P., Boeke, J. D., et al. (2020) · Cell · doi:10.1016/j.cell.2019.12.015 · Cited by 190

The Many Facets of Therapy Resistance and Tumor Recurrence in Glioblastoma

Goenka, A., Tiek, D., Song, X., Huang, T., Hu, B., & Cheng, S.-Y. (2021) · Cells · doi:10.3390/cells10030484 · Cited by 169

The emerging role of alternative splicing in senescence and aging

Deschênes, M., & Chabot, B. (2017) · Aging Cell · doi:10.1111/acel.12646 · Cited by 172

Design and synthesis of analogues of natural products

Maier, M. E. (2015) · Organic & Biomolecular Chemistry · doi:10.1039/c5ob00169b · Cited by 169

Cajal bodies are linked to genome conformation

Wang, Q., Sawyer, I. A., Sung, M.-H., Sturgill, D., Shevtsov, S. P., Pegoraro, G., Hakim, O., Baek, S., Hager, G. L., & Dundr, M. (2016) · Nature Communications · doi:10.1038/ncomms10966 · Cited by 164

Diabetic neuropathy and the sensory neuron: New aspects of pathogenesis and their treatment implications

Kobayashi, M., & Zochodne, D. W. (2018) · Journal of Diabetes Investigation · doi:10.1111/jdi.12833 · Cited by 167

A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells

Braselmann, E., Wierzba, A. J., Polaski, J. T., Chromiński, M., Holmes, Z. E., Hung, S., Batan, D., Wheeler, J. R., Parker, R., Jimenez, R., et al. (2018) · Nature Chemical Biology · doi:10.1038/s41589-018-0103-7 · Cited by 159

An extensive program of periodic alternative splicing linked to cell cycle progression

Dominguez, D., Tsai, Y., Weatheritt, R. J., Wang, Y., Blencowe, B. J., & Wang, Z. (2016) · eLife · doi:10.7554/elife.10288 · Cited by 167

The RNA Splicing Response to DNA Damage

Shkreta, L., & Chabot, B. (2015) · Biomolecules · doi:10.3390/biom5042935 · Cited by 156

The pathogenicity of splicing defects: mechanistic insights into pre‐mRNA processing inform novel therapeutic approaches

Daguenet, É., Dujardin, G., & Valcárcel, J. (2015) · EMBO Reports · doi:10.15252/embr.201541116 · Cited by 159

Altered RNA Processing in Cancer Pathogenesis and Therapy

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Splicing modulators act at the branch point adenosine binding pocket defined by the PHF5A–SF3b complex

Teng, T., Tsai, J., Puyang, X., Seiler, M., Peng, S., Prajapati, S., Aird, D. R., Buonamici, S., Caleb, B. L., Chan, B., et al. (2017) · Nature Communications · doi:10.1038/ncomms15522 · Cited by 139

The Glucocorticoid Receptor: Isoforms, Functions, and Contribution to Glucocorticoid Sensitivity

Lockett, J., Inder, W. J., & Clifton, V. L. (2024) · Endocrine Reviews · doi:10.1210/endrev/bnae008 · Cited by 135

Illuminating RNA Biology: Tools for Imaging RNA in Live Mammalian Cells

Braselmann, E., Rathbun, C. M., Richards, E. M., & Palmer, A. E. (2020) · Cell chemical biology · doi:10.1016/j.chembiol.2020.06.010 · Cited by 134

Decoding mechanisms by which silent codon changes influence protein biogenesis and function

Bali, V., & Bebok, Z. M. (2015) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/j.biocel.2015.03.011 · Cited by 136

Alternative splicing: the pledge, the turn, and the prestige

Gallego-Paez, L. M., Bordone, M. C., Leote, A. C., Saraiva-Agostinho, N., Ascensão-Ferreira, M., & Barbosa‐Morais, N. L. (2017) · Human Genetics · doi:10.1007/s00439-017-1790-y · Cited by 143

Rethinking gene regulatory networks in light of alternative splicing, intrinsically disordered protein domains, and post-translational modifications

Niklas, K. J., Bondos, S. E., Dunker, A. K., & Newman, S. A. (2015) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2015.00008 · Cited by 136

Hypoxia-induced alternative splicing: the 11th Hallmark of Cancer

Farina, A. R., Cappabianca, L. A., Sebastiano, M., Zelli, V., Guadagni, S., & Mackay, A. R. (2020) · Journal of Experimental & Clinical Cancer Research · doi:10.1186/s13046-020-01616-9 · Cited by 134

Modifications in small nuclear RNAs and their roles in spliceosome assembly and function

Bohnsack, M. T., & Sloan, K. E. (2018) · Biological Chemistry · doi:10.1515/hsz-2018-0205 · Cited by 130

Plant Small Non-coding RNAs and Their Roles in Biotic Stresses

Brant, E. J., & Budak, H. (2018) · Frontiers in Plant Science · doi:10.3389/fpls.2018.01038 · Cited by 127

RNA splicing analysis using heterogeneous and large RNA-seq datasets

Vaquero-Garcia, J., Aicher, J. K., Jewell, S., Gazzara, M. R., Radens, C. M., Jha, A., Green, C. J., Norton, S., Lahens, N. F., Grant, G. R., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-36585-y · Cited by 129

The life of U6 small nuclear RNA, from cradle to grave

Didychuk, A. L., Butcher, S. E., & Brow, D. A. (2018) · RNA · doi:10.1261/rna.065136.117 · Cited by 123

SRSF1 inhibits autophagy through regulating Bcl-x splicing and interacting with PIK3C3 in lung cancer

Lv, Y., Zhang, W., Zhao, J., Sun, B., Qi, Y., Ji, H., Chen, C., Zhang, J., Sheng, J., Wang, T., et al. (2021) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-021-00495-6 · Cited by 122

A mouse tissue atlas of small noncoding RNA

Isakova, A., Fehlmann, T., Keller, A., & Quake, S. R. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2002277117 · Cited by 119

PRMT5 Modulates Splicing for Genome Integrity and Preserves Proteostasis of Hematopoietic Stem Cells

Tan, D. Q., Li, Y., Yang, C., Li, J., Tan, S. H., Chin, D. W. L., Nakamura‐Ishizu, A., Yang, H. H., & Suda, T. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.02.001 · Cited by 123

Comprehensive characterization of the alternative splicing landscape in head and neck squamous cell carcinoma reveals novel events associated with tumorigenesis and the immune microenvironment

Li, Z., Zheng, Z., Wei, Z.-H., Zhang, L., Li, F., Lin, L., Liu, R., Huang, X., Lv, J., Chen, F., et al. (2019) · Theranostics · doi:10.7150/thno.36585 · Cited by 114

Mutations in spliceosomal proteins and retina degeneration

Rùzicková, Š., & Staněk, D. (2016) · RNA Biology · doi:10.1080/15476286.2016.1191735 · Cited by 117

The Role of Pontin and Reptin in Cellular Physiology and Cancer Etiology

Mao, Y.-Q., & Houry, W. A. (2017) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2017.00058 · Cited by 113

Quantitative analysis of cryptic splicing associated with TDP-43 depletion

Humphrey, J., Emmett, W., Fratta, P., Isaacs, A. M., & Plagnol, V. (2017) · BMC Medical Genomics · doi:10.1186/s12920-017-0274-1 · Cited by 116

SRSF10-mediated IL1RAP alternative splicing regulates cervical cancer oncogenesis via mIL1RAP-NF-κB-CD47 axis

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Rectifier of aberrant mRNA splicing recovers tRNA modification in familial dysautonomia

Yoshida, M., Kataoka, N., Miyauchi, K., Ohe, K., Iida, K., Yoshida, S., Nojima, T., Okuno, Y., Onogi, H., Usui, T., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1415525112 · Cited by 111

Influenza virus mRNA trafficking through host nuclear speckles

Mor, A., White, A., Zhang, K., Thompson, M. G., Esparza, M. A., Muñoz-Moreno, R., Koide, K., Lynch, K. W., García‐Sastre, A., & Fontoura, B. M. A. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2016.69 · Cited by 111

Dysregulation of the splicing machinery is directly associated to aggressiveness of prostate cancer

Jiménez‐Vacas, J. M., Herrero‐Aguayo, V., Montero‐Hidalgo, A. J., Gómez‐Gómez, E., Fuentes-Fayos, A. C., León‐González, A. J., Sáez-Martínez, P., Alors‐Pérez, E., Pedraza‐Arévalo, S., González-Serrano, T., et al. (2020) · EBioMedicine · doi:10.1016/j.ebiom.2019.11.008 · Cited by 111

A review of craniofacial disorders caused by spliceosomal defects

Lehalle, D., Wieczorek, D., Zechi‐Ceide, R. M., Passos‐Bueno, M. R., Lyonnet, S., Amiel, J., & Gordon, C. T. (2015) · Clinical Genetics · doi:10.1111/cge.12596 · Cited by 110

2′- O -Methylation can increase the abundance and lifetime of alternative RNA conformational states

Assi, H. A., Rangadurai, A., Shi, H., Liu, B., Clay, M. C., Erharter, K., Kreutz, C., Holley, C. L., & Al‐Hashimi, H. M. (2020) · Nucleic Acids Research · doi:10.1093/nar/gkaa928 · Cited by 109

Alternative Splicing in Angiogenesis

Bowler, E., & Oltean, S. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20092067 · Cited by 111

Regulation of alternative mRNA splicing: old players and new perspectives

Dvinge, H. (2018) · FEBS Letters · doi:10.1002/1873-3468.13119 · Cited by 118

SAM68: Signal Transduction and RNA Metabolism in Human Cancer

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The Coilin Interactome Identifies Hundreds of Small Noncoding RNAs that Traffic through Cajal Bodies

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A benchmark study of ab initio gene prediction methods in diverse eukaryotic organisms

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Dyskerin: an essential pseudouridine synthase with multifaceted roles in ribosome biogenesis, splicing, and telomere maintenance

Garus, A., & Autexier, C. (2021) · RNA · doi:10.1261/rna.078953.121 · Cited by 104

Cyclic Nucleotide Monophosphates and Their Cyclases in Plant Signaling

Gehring, C., & Turek, I. (2017) · Frontiers in Plant Science · doi:10.3389/fpls.2017.01704 · Cited by 101

Alternative splicing in cancers: From aberrant regulation to new therapeutics

Song, X., Zeng, Z., Wei, H. Y., & Wang, Z. (2017) · Seminars in Cell and Developmental Biology · doi:10.1016/j.semcdb.2017.09.018 · Cited by 103

Physical Activity Associated Proteomics of Skeletal Muscle: Being Physically Active in Daily Life May Protect Skeletal Muscle From Aging

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RNA-Binding Proteins: Splicing Factors and Disease

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The spliceosome assembly factor GEMIN2 attenuates the effects of temperature on alternative splicing and circadian rhythms

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Splicing machinery dysregulation drives glioblastoma development/aggressiveness: oncogenic role of SRSF3

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Ribosomal Proteins Rpl22 and Rpl22l1 Control Morphogenesis by Regulating Pre-mRNA Splicing

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Splicing at the phase-separated nuclear speckle interface: a model

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Emerging regulatory mechanisms and functions of biomolecular condensates: implications for therapeutic targets

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Extensive cryptic splicing upon loss of RBM17 and TDP43 in neurodegeneration models

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Assembly of the U5 snRNP component PRPF8 is controlled by the HSP90/R2TP chaperones

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Spliceator: multi-species splice site prediction using convolutional neural networks

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

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Integrator: surprisingly diverse functions in gene expression

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Diversification of the muscle proteome through alternative splicing

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Structural basis for DEAH-helicase activation by G-patch proteins

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Identification and characterization of small molecule inhibitors of pre-mRNA splicing that block spliceosome assembly at novel stages

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Transcriptome-wide splicing network reveals specialized regulatory functions of the core spliceosome

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RNA Splicing and Genes

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Spliceosomes

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The nuts and bolts of the endogenous spliceosome

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