The ribosome-engaged landscape of alternative splicing

Cited by (168)

Items 101–168 of 168

1. Protein Sequencing with Single Amino Acid Resolution Discerns Peptides That Discriminate Tropomyosin Proteoforms
   Sittipongpittaya, Natchanon, Skinner, Kenneth A., Jeffery, Erin D., Watts, Emily F., Sheynkman, Gloria M. · 2025 · Journal of Proteome Research
2. Salt Stress Adaptations in Soybean Involve Alterations in Pre‐mRNA Processing
   Shoudong Zhang, Zhixia Xiao, Ai‐Lin Liu, Dongpeng Ren, Shengjie Chen, Hanxue Zhang, Li Zhang, Zhili Wang, Jun Yang, Hon‐Ming Lam · 2025 · Plant Cell & Environment
3. Impact of alternative splicing on Arabidopsis proteome
   Andres V. Reyes, Christopher Zhang, Sumudu S Karunadasa, Ruben Shrestha, TaraBryn S Grismer, Danbi Byun, Shou‐Ling Xu · 2026 · Nucleic Acids Research
4. Nanopore sequencing unveils the complexity of the cold-activated murine brown adipose tissue transcriptome
   Christoph Andreas Engelhard, Sajjad Khani, Sophia V. Derdak, Martin Bilban, Jan‐Wilhelm Kornfeld · 2023 · iScience
5. An Optimized Protocol for the Mapping of Cell Type–Specific Ribosome-Associated Transcript Isoforms from Small Mouse Brain Regions
   Giulia Di Bartolomei, Peter Scheiffele · 2022 · Methods in molecular biology
6. Polysome fractionation analysis reveals features important for human nonsense-mediated mRNA decay
   James P. B. Lloyd, Courtney E. French, Steven E. Brenner · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
7. A unified model for the surveillance of translation in diverse noncoding sequences
   Jordan S. Kesner, Ziheng Chen, Alexis O. Aparicio, Xuebing Wu · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
8. Isoform-specific m6A deposition and coordinated splicing shape mammalian transcriptome evolution
   Gabriela Santos Rodriguez, Akanksha Srivastava, Agin Ravindran, Favour Oluwapelumi Oyelami, Chi Kin Ip, Pallavi Gupta, Jeanette Villanueva, Helen A. King, Abigail K. Grootveld, Alexandra Sneddon et al. · 2026 · Nature Communications
9. Mechanisms suppressing noncoding translation
   Jordan S. Kesner, Xuebing Wu · 2024 · Trends in Cell Biology
10. Splicing dysfunction and disease: The case of granulopoiesis
    Maria-Cristina Keightley, Graham John Lieschke · 2017 · Seminars in Cell and Developmental Biology
11. Perplexity as a metric for isoform diversity in the human transcriptome
    Megan D. Schertzer, S H Park, Jiayu Su, Fairlie Reese, Gloria M. Sheynkman, David A. Knowles · 2026 · Genome biology
12. Co-expression networks uncover regulation of splicing and transcription markers of disease
    Pan Zhang, Bruce R. Southey, Sandra L. Rodriguez‐Zas · 2020 · EPiC series in computing
13. Specific expression of alternatively spliced genes in the turkey (Meleagris gallopavo) reproductive tract revealed their function in spermatogenesis and post-testicular sperm maturation
    Łukasz Paukszto, Joanna Wiśniewska, Ewa Liszewska, Marta Majewska, J Jastrzebski, J. Jankowski, Andrzej Ciereszko, Mariola Słowińska · 2023 · Poultry Science
14. Quantification of translation uncovers the functions of the alternative transcriptome
    Lorenzo Calviello, Antje Hirsekorn, Uwe Ohler · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
15. SaTAnn quantifies translation on the functionally heterogeneous transcriptome
    Lorenzo Calviello, Antje Hirsekorn, Uwe Ohler · 2019 · MDC Repository (Max-Delbrueck-Center for Molecular Medicine)
16. Coupling mechanisms coordinating mRNA translation with stages of the mRNA lifecycle
    Valeria Famà, Lucia Coscujuela Tarrero, Roberto Albanese, Lorenzo Calviello, Stefano Biffo, Mattia Pelizzola, Mattia Furlan · 2025 · RNA Biology
17. Unveiling alternative splicing dynamics in activated T lymphocytes and their implications for immune checkpoint blockade efficacy
    Elad Zisman, Ori Stern, Reyut Lewis, Shay Tzaban, Thomas Eisenhaure, Sarah Emily Henrickson, Moshe Sade-Feldman, Shira Silberman-Klein, Galit Eisenberg, Nir Hacohen et al. · 2025 · iScience
18. Mutant mice lacking alternatively spliced p53 isoforms unveil Ackr4 as a male-specific prognostic factor in Myc-driven B-cell lymphomas
    Anne Fajac, Iva Simeonova, Julia Leemput, Marc Gabriel, Aurélie Morin, Vincent Lejour, Annaïg Hamon, Jeanne Rakotopare, Wilhelm Vaysse-Zinkhöfer, Eliana Eldawra et al. · 2024 · eLife
19. Detecting Differential Alternative Splicing in Mass Spectrometry-based Proteomics Data
    Constantin Ammar, Gergely Csaba, Armin Hadziahmetovic, Catherine G. Vasilopoulou, Markus Gruber, Matthias Mann, Ralf Zimmer · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
20. Establishment of an alternative splicing prognostic risk model and identification of FN1 as a potential biomarker in glioblastoma multiforme
    Xi Liu, Jinming Song, Zhiming Zhou, Yuting He, Shao‐Chun Wu, Yang Jin, Zhonglu Ren · 2025 · Scientific Reports
21. Differential alternative splicing in brain regions of rats selected for aggressive behavior
    Vladimir N. Babenko, Брагин Анатолий Олегович, Чадаева Ирина Витальевна, А. L. Markel, Yuriy Lvovich Orlov · 2017 · Molecular Biology
22. Transcriptome-Wide Analyses Identify Dominant as the Predominantly Non-Conservative Alternative Splicing Inheritance Patterns in F1 Chickens
    Xin Qi, Hongchang Gu, Lujiang Qu · 2021 · Frontiers in Genetics
23. Assessment of molecular and morphological dynamics during long-time in vitro cultivation of cryopreserved human ovarian tissue: risk of genetic alterations
    Wanxue Wang, Plamen Todorov, Evgenia Isachenko, Gohar Rahimi, Markus Merzenich, Nina Gottschalk, Yang Zhou, Jilong Yao, Xuemei Li, Volodimir Isachenko · 2025 · Frontiers in Endocrinology
24. The conserved landscape of RNA modifications and transcript diversity across mammalian evolution
    Gabriela Santos Rodriguez, A Srivastava, Agin Ravindran, Favour Oluwapelumi Oyelami, Chi Kin Ip, Pallavi Gupta, Jeanette E. Villanueva, HE King, Abigail K. Grootveld, James Blackburn et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
25. Cross-tissue isoform switches by human transcription factors suggest a widespread regulatory mechanism
    Sviatoslav Sidorov, Koustav Pal, Boris Lenhard, Nicholas M. Luscombe · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
26. Male specific conserved LncRNA TSCL1 regulated target mRNA translation by interaction with PIWIL1
    Shuai Lü, Yang Li, Chenmeijie Li, Zhongyu Zou, Xiaoxi Xu, Shijie Zhu, Beibei Yang, Gaoming Tang, Haoran Chen, Yuchen Wang et al. · 2025 · Cell Death and Differentiation
27. The differential subcellular localization of soybean transcripts, an additional regulatory mechanism of gene activity
    Sutton Tennant, Erik J. Amézquita, Yaohua Li, Benjamin E. Smith, Sai Subhash Mahamkali Venkata Subramanyam, Sergio Alan Cervantes-Pérez, Sandra Thibivilliers, Samik Bhattacharya, Jasper Kläver, Marc Libault · 2025 · Genome biology
28. Ninein isoform contributions to intracellular processes and macrophage immune function
    Safia Omer, Elizabeth Persaud, Safia Mohammad, Bolu Ayo-Farinloye, Rebecca Emily-Sue Heineman, Emily Wellwood, G. Adam Mott, Rene E. Harrison · 2025 · Journal of Biological Chemistry
29. Assessing Conservation of Alternative Splicing with Evolutionary Splicing Graphs
    Diego Javier Zea, Sofya Laskina, Alexis Baudin, Hugues Richard, Élodie Laine · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
30. Editorial: RNA machines
    Nikolay E. Shirokikh, Kirk B. Jensen, Nehal Thakor · 2023 · Frontiers in Genetics
31. SPARP-seq reveals poly(A) tail shortening as a hallmark of the active human translatome
    Shu Yi, Juzuo Li, Zhiyuan Sun, Yanping Li, Wenqin Lu, Yanping Long, Xi Chen, Sisi Li, Wei Chen, Jixian Zhai · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
32. Transcripts’ evolutionary history and structural dynamics give mechanistic insights into the functional diversity of the JNK family
    Adel Ait-hamlat, Diego Javier Zea, Antoine Labeeuw, Lélia Polit, Hugues Richard, Élodie Laine · 2017 · bioRxiv (Cold Spring Harbor Laboratory)
33. АЛЬТЕРНАТИВНЫЙ СПЛАЙСИНГ В?ОТДЕЛАХ ГОЛОВНОГО МОЗГА СЕЛЕКТИРОВАННЫХ ПО АГРЕССИВНОСТИ КРЫС, "Молекулярная биология"
    Vladimir N. Babenko, Брагин Анатолий Олегович, Чадаева Ирина Витальевна, А. L. Markel, Yuriy Lvovich Orlov · 2017 · Molecular Biology
34. Protein structure and function analyses to understand the implication of mutually exclusive splicing
    Su Datt Lam, Christine Anne Orengo, Jonathan Gill Lees · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
35. Development of novel analysis and data integration systems to understand human gene regulation
    Rahman, Raza-Ur · 2018
36. Functional impact of alternative splicing in vertebrate proteomes across tissues and cell types
    Tapial Rodríguez, Javier Javier · 2018 · LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Científicas)
37. Dysregulated Spliceosome Gene Expression May Be a Common Process in Brains of Neurological and Psychiatric Disorders
    Cuihua Xia, Rujia Dai, Jing Yu, Chunling Zhang, Ma‐Li Wong, Chunyu Liu · 2021 · Research Square
38. New approaches and software for sequence function prediction and gene design integrating specific knowledge on protein structure and translation
    Dominic Simm · 2022
39. Alternative Splicing
    Iakes Ezkurdia, Alfonso Valencia, Michael L. Tress · 2019 · Springer eBooks
40. Desregulación del splicing del gen PALB2 en cáncer de mama hereditario
    Alberto Valenzuela‐Palomo · 2022
41. Mutant mice lacking alternatively spliced p53 isoforms unveil Ackr4 as a male-specific prognostic factor in Myc-driven B-cell lymphomas
    Anne Fajac, Iva Simeonova, Julia Leemput, Marc Gabriel, Aurélie Morin, Vincent Lejour, Annaïg Hamon, Jeanne Rakotopare, Wilhelm Vaysse-Zinkhöfer, Eliana Eldawra et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
42. Mutant mice lacking alternatively spliced p53 isoforms unveil Ackr4 as a male-specific prognostic factor in Myc-driven B-cell lymphomas
    Anne Fajac, Iva Simeonova, Julia Leemput, Marc Gabriel, Aurélie Morin, Vincent Lejour, Annaïg Hamon, Wilhelm Vaysse-Zinkhöfer, Eliana Eldawra, Jeanne Rakotopare et al. · 2024 · eLife
43. Additional file 4 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Yang, Xiaoyu, Bo Song, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
44. Additional file 5 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Yang, Xiaoyu, Bo Song, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
45. Additional file 3 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Xiaoyu Yang, Bo Song, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
46. Additional file 1 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Xiaoyu Yang, Song, Bo, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
47. Additional file 7 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Xiaoyu Yang, Bo Song, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
48. Additional file 6 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Yang, Xiaoyu, Bo Song, Jie Cui, Lina Wang, Shuoshuo Wang, Linlin Luo, Lei Gao, Beixin Mo, Yu Yu, Lin Liu · 2021 · Figshare
49. Premature cleavage and polyadenylation in the minor intron of PTEN modulate its expression and generates a functional long non-coding RNA in breast cancer
    Mariam Elesnawy, Rim Elghandour, Hana Hasna, Aisha D. Fakhroo, Boshra AlSulaiti, Ihab Younis · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
50. Mutant mice lacking alternatively spliced p53 isoforms unveil Ackr4 as a male-specific prognostic factor in Myc-driven B-cell lymphomas
    Anne Fajac, Iva Simeonova, Julia Leemput, Marc Gabriel, Aurélie Morin, Vincent Lejour, Annaïg Hamon, Jeanne Rakotopare, Wilhelm Vaysse-Zinkhöfer, Eliana Eldawra et al. · 2024 · eLife
51. Mutant mice lacking alternatively spliced p53 isoforms unveil Ackr4 as a male-specific prognostic factor in Myc-driven B-cell lymphomas
    Anne Fajac, Iva Simeonova, Julia Leemput, Marc Gabriel, Aurélie Morin, Vincent Lejour, Annaïg Hamon, Jeanne Rakotopare, Wilhelm Vaysse-Zinkhöfer, Eliana Eldawra et al. · 2024 · eLife
52. Anomalies des transcrits: épissage et diagnostic
    Julie Amiot, Claude Houdayer · 2025 · Revue Francophone des Laboratoires
53. Additional file 2 of Comparative ribosome profiling reveals distinct translational landscapes of salt-sensitive and -tolerant rice
    Yang, Xiaoyu, Bo Song, Cui, Jie, Wang, Lina, Wang, Shuoshuo, Luo, Linlin, Gao, Lei, Mo, Beixin, Yu, Yu, Liu, Lin · 2021 · Figshare
54. Precision Profiling of the Cardiovascular Post-Translationally Modified Proteome
    Thakorn Pruktanakul, Konstantinos Theofilatos · 2026 · Journal of Cardiovascular Development and Disease
55. Regulation of alternative splicing and polyadenylation by genotoxic anti-cancer agents
    Iris Tanaka · 2019 · theses.fr (ABES)
56. Regulation of mRNA translation during the inflammatory response in murine macrophages
    Juliana Blin · 2020 · theses.fr (ABES)
57. Approche à large échelle visant à détecter de nouveaux régulateurs de l'épissage alternatif au cours de la transition épithélio-mésenchymateuse.
    Jean-Philippe Villemin · 2020
58. Identifier et exploiter de nouvelles vulnérabilités à potentiel thérapeutique dans les leucémies aiguës myéloïdes
    Camille Vaganay · 2023
59. Conséquences pathologiques des dérégulations de la voie p53-DREAM : insuffisance médullaire, microcéphalie et cancer
    Jeanne Rakotopare · 2024 · theses.fr (ABES)
60. FXR1 ‐Directed Alternative Splicing of MK5 Drives Hepatocellular Carcinoma Progression by Activating GSK3β Signaling
    Yutong Li, Jin Xiang, Bin Cheng, Chenhao Li, Kai Wang, Ni Tang, Luyi Huang · 2026 · Cancer Science
61. Premature cleavage and polyadenylation in the minor intron of PTEN modulate its expression and generate a functional long non-coding RNA
    Mariam Elesnawy, Rim Elghandour, Hana Hasna, Aisha D. Fakhroo, Boshra AlSulaiti, Ihab Younis · 2026 · iScience
62. Structure-aware protein function prediction at isoform resolution
    Felicia T. Jiang, Run-Hao Zhao, F. Liang, Xiang Zhao, Tao-Yong Cui, Zhen-Chao Tang, Ying-Han Zhang, Dan-Yu Chen, Ming-Hao Xu, Yi Shuai et al. · 2026 · bioRxiv
63. IsoPepTracker: An interactive web application for peptide-driven isoform analysis
    Araf Mahmud, Chen Huang (202847) · 2026 · PLoS Computational Biology
64. Population-specific alternative splicing responses to heat stress in the range-expanding intertidal snail Nerita yoldii
    Chao Zhai, Jie Wang, Yun‐Wei Dong · 2026 · Marine Biology
65. Alternative Splicing and Its Impact on the Proteome Diversity
    Salomé Sabatié, Benoît Laurent · 2026 · Encyclopedia of Life Sciences
66. Splicing genes as main targets of differential splicing
    Torstein Tengs, Thomas LaFramboise, Yossef Baidi, Rameen Beroukhim, Won-Young Choi, Hyo Young Choi, David Neil Hayes · 2026 · G3 Genes Genomes Genetics
67. The expanding functional landscape of alternative splicing in plants
    Marı́a José Iglesias, Yamila C. Agrofoglio, Łukasz Szewc, Julieta Lisa Mateos · 2026 · Trends in Biochemical Sciences
68. Switches in alternatively spliced isoforms impact protein and drug interactions in melanoma, ovarian cancer, and acute myeloid leukemia
    Tülay Karakulak, Ruedi H. Aebersold, Melike Ak, Faisal Alquaddoomi, Silvana Iuliana Albert, Jonas B. Albinus, Ilaria Alborelli, Sonali Andani, Per-Olof Attinger, Marina Bacac et al. · 2026 · British Journal of Cancer