Role of Long Noncoding RNAs in Cancer and Development

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Bharadwaj, T., Acharya, A., Khan, F. U., Khan, S., Ullah, I., Schrauwen, I., Ahmad, W., & Leal, S. M. (2024). THBS1 is a new autosomal recessive non-syndromic hearing impairment gene. BMC Medical Genomics, 17(1). https://doi.org/10.1186/s12920-024-02060-w
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Yang, Z., Cieza, B., Reyes‐Dumeyer, D., Lee, A. J., Dugger, B. N., Jin, L., Murray, M. E., Dickson, D. W., Pericak‐Vance, M. A., Vance, J. M., Foroud, T. M., Teich, A. F., Mayeux, R., & Tosto, G. (2024). A multiethnic transcriptome for Alzheimer Disease identifies cross‐ancestry and ancestry‐specific expression profiles. Alzheimer’s & Dementia, 20(S1). Portico. https://doi.org/10.1002/alz.092011
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Yalcouyé, A., Schrauwen, I., Traoré, O., Bamba, S., Aboagye, E. T., Acharya, A., Bharadwaj, T., Latanich, R., Esoh, K., Fortes-Lima, C. A., de Kock, C., Jonas, M., Maiga, A. dit B., Cissé, C. A. K., Sangaré, M. A., Guinto, C. O., Landouré, G., Leal, S. M., & Wonkam, A. (2025). Whole-exome sequencing reveals known and candidate genes for hearing impairment in Mali. Human Genetics and Genomics Advances, 6(1), 100391. https://doi.org/10.1016/j.xhgg.2024.100391
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Banu, M. A., Dovas, A., Argenziano, M. G., Zhao, W., Sperring, C. P., Cuervo Grajal, H., Liu, Z., Higgins, D. M., Amini, M., Pereira, B., Ye, L. F., Mahajan, A., Humala, N., Furnari, J. L., Upadhyayula, P. S., Zandkarimi, F., Nguyen, T. T., Teasley, D., Wu, P. B., … Canoll, P. (2024). A cell state-specific metabolic vulnerability to GPX4-dependent ferroptosis in glioblastoma. The EMBO Journal. https://doi.org/10.1038/s44318-024-00176-4
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Mazul, A. L., Barrett, T. F., Colditz, G., Parikh, A. S., Ramadan, S., Zevallos, J. P., Rich, J. T., Harbison, R. A., Jackson, R. S., Pipkorn, P., Zolkind, P., Tirosh, I., & Puram, S. V. (2024). A hybrid epithelial/mesenchymal state in head and neck cancer: A biomarker for survival with differential prognosis by self-reported race. Med, 5(7), 826-831.e3. https://doi.org/10.1016/j.medj.2024.05.014
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O’Reilly, M. E., Ho, S., Coronel, J., Zhu, L., Liu, W., Xue, C., Kim, E., Cynn, E., Matias, C. V., Soni, R. K., Wang, C., Ionita-Laza, I., Bauer, R. C., Ross, L., Zhang, Y., Corvera, S., Fried, S. K., & Reilly, M. P. (2024). linc-ADAIN, a human adipose lincRNA, regulates adipogenesis by modulating KLF5 and IL-8 mRNA stability. Cell Reports, 43(5), 114240. https://doi.org/10.1016/j.celrep.2024.114240
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Einson, J., Minaeva, M., Rafi, F., & Lappalainen, T. (2024). The impact of genetically controlled splicing on exon inclusion and protein structure. PLOS ONE, 19(3), e0291960. https://doi.org/10.1371/journal.pone.0291960
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Katsushima, K., Joshi, K., Yuan, M., Romero, B., Batish, M., Stapleton, S., Jallo, G., Kolanthai, E., Seal, S., Saulnier, O., Taylor, M. D., Wechsler-Reya, R. J., Eberhart, C. G., & Perera, R. J. (2024). A therapeutically targetable positive feedback loop between lnc-HLX-2-7, HLX, and MYC that promotes group 3 medulloblastoma. Cell Reports, 43(3), 113938. https://doi.org/10.1016/j.celrep.2024.113938
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Al-Dalahmah, O., Argenziano, M. G., Kannan, A., Mahajan, A., Furnari, J., Paryani, F., Boyett, D., Save, A., Humala, N., Khan, F., Li, J., Lu, H., Sun, Y., Tuddenham, J. F., Goldberg, A. R., Dovas, A., Banu, M. A., Sudhakar, T., Bush, E., … Canoll, P. (2023). Re-convolving the compositional landscape of primary and recurrent glioblastoma reveals prognostic and targetable tissue states. Nature Communications, 14(1). https://doi.org/10.1038/s41467-023-38186-1
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Flynn, B. I., Javan, E. M., Lin, E., Trutner, Z., Koenig, K., Anighoro, K. O., Kun, E., Gupta, A., Singh, T., Jayakumar, P., & Narasimhan, V. M. (2023). Deep learning based phenotyping of medical images improves power for gene discovery of complex disease. Npj Digital Medicine, 6(1). https://doi.org/10.1038/s41746-023-00903-x
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Chung, C. J., Hermes, B. M., Gupta, Y., Ibrahim, S., Belheouane, M., & Baines, J. F. (2023). Genome-wide mapping of gene-microbe interactions in the murine lung microbiota based on quantitative microbial profiling. Animal Microbiome, 5(1). https://doi.org/10.1186/s42523-023-00250-y
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Slowly, M., Domingo-Relloso, A., Santella, R. M., Haack, K., Fallin, D. M., Terry, M. B., Rhoades, D. A., Herreros-Martinez, M., Garcia-Esquinas, E., Cole, S. A., Tellez-Plaza, M., Navas-Acien, A., & Wu, H.-C. (2023). Blood DNA methylation and liver cancer in American Indians: evidence from the Strong Heart Study. Cancer Causes & Control, 35(4), 661–669. https://doi.org/10.1007/s10552-023-01822-8
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Minns, H., Padilla, O., Wei, H.-J., Gartrell, R. D., Webster-Carrion, A., Tazhibi, M., McQuillan, N., Zhang, X., Gallitto, M., Yeh, R., Zhang, Z., Hei, T., Szalontay, L., Pavisic, J., Garty, G., Garvin, J., Canoll, P., Vanpouille-Box, C., Menon, V., … Wu, C.-C. (2023). 53 Inducing immune response with FLASH and conventional radiation in diffuse midline glioma (DMG). Regular and Young Investigator Award Abstracts. https://doi.org/10.1136/jitc-2023-sitc2023.0053
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Jash, A., Hay, A., Keele, G., Churchill, G., Hudson, K., & Zimring, J. (2023). OA2‐AM23‐MN‐19 | Genetic Loci Containing Immunoregulatory IFIT Genes are Associated with RBC Alloimmunization in an Outbred Mouse Population. Transfusion, 63(S5). Portico. https://doi.org/10.1111/trf.45_17554
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Sugiura, K., Masuike, Y., Suzuki, K., Shin, A. E., Sakai, N., Matsubara, H., Otsuka, M., Sims, P. A., Lengner, C. J., & Rustgi, A. K. (2023). LIN28B promotes cell invasion and colorectal cancer metastasis via CLDN1 and NOTCH3. JCI Insight, 8(14). https://doi.org/10.1172/jci.insight.167310
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Liu, Y., Liu, Y., Ye, S., Feng, H., & Ma, L. (2023). A new ferroptosis-related signature model including messenger RNAs and long non-coding RNAs predicts the prognosis of gastric cancer patients. Journal of Translational Internal Medicine, 11(2), 145–155. https://doi.org/10.2478/jtim-2023-0089
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Dermawan, J. K. T., Nafa, K., Mohanty, A., Xu, Y., Rijo, I., Casanova, J., Villafania, L., Benhamida, J., Kelly, C. M., Tap, W. D., Boland, P. J., Fabbri, N., Healey, J. H., Ladanyi, M., Lu, C., & Hameed, M. (2023). Distinct IDH1/2-associated Methylation Profile and Enrichment ofTP53andTERTMutations Distinguish Dedifferentiated Chondrosarcoma from Conventional Chondrosarcoma. Cancer Research Communications, 3(3), 431–443. https://doi.org/10.1158/2767-9764.crc-22-0397
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Katsushima, K., Pokhrel, R., Mahmud, I., Yuan, M., Murad, R., Baral, P., Zhou, R., Chapagain, P., Garrett, T., Stapleton, S., Jallo, G., Bettegowda, C., Raabe, E., Wechsler-Reya, R. J., Eberhart, C. G., & Perera, R. J. (2023). The oncogenic circular RNA circ_63706 is a potential therapeutic target in sonic hedgehog-subtype childhood medulloblastomas. Acta Neuropathologica Communications, 11(1). https://doi.org/10.1186/s40478-023-01521-0
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Naderi, E., Cornejo-Sanchez, D. M., Li, G., Schrauwen, I., Wang, G. T., Dewan, A. T., & Leal, S. M. (2023). The genetic contribution of the X chromosome in age-related hearing loss. Frontiers in Genetics, 14. https://doi.org/10.3389/fgene.2023.1106328
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Cynn, E., Li, D. Y., O’Reilly, M. E., Wang, Y., Bashore, A. C., Jha, A., Foulkes, A. S., Zhang, H., Winter, H., Maegdefessel, L., Yan, H., Li, M., Ross, L., Xue, C., & Reilly, M. P. (2023). Human Macrophage Long Intergenic Noncoding RNA, SIMALR , Suppresses Inflammatory Macrophage Apoptosis via NTN1 (Netrin-1). Arteriosclerosis, Thrombosis, and Vascular Biology, 43(2), 286–299. https://doi.org/10.1161/atvbaha.122.318353
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Kameda-Smith, M. M., Zhu, H., Luo, E.-C., Suk, Y., Xella, A., Yee, B., Chokshi, C., Xing, S., Tan, F., Fox, R. G., Adile, A. A., Bakhshinyan, D., Brown, K., Gwynne, W. D., Subapanditha, M., Miletic, P., Picard, D., Burns, I., Moffat, J., … Singh, S. K. (2022). Characterization of an RNA binding protein interactome reveals a context-specific post-transcriptional landscape of MYC-amplified medulloblastoma. Nature Communications, 13(1). https://doi.org/10.1038/s41467-022-35118-3
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Tavernier, L. J. M., Vanpoucke, T., Schrauwen, I., Van Camp, G., & Fransen, E. (2022). Targeted Resequencing of Otosclerosis Patients from Different Populations Replicates Results from a Previous Genome-Wide Association Study. Journal of Clinical Medicine, 11(23), 6978. https://doi.org/10.3390/jcm11236978
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Hazra, R., Brine, L., Garcia, L., Benz, B., Chirathivat, N., Shen, M. M., Wilkinson, J. E., Lyons, S. K., & Spector, D. L. (2022). Platr4 is an early embryonic lncRNA that exerts its function downstream on cardiogenic mesodermal lineage commitment. Developmental Cell, 57(21), 2450-2468.e7. https://doi.org/10.1016/j.devcel.2022.10.002
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Duca, R. B., Massillo, C., Farré, P. L., Graña, K. D., Moro, J., Gardner, K., Lacunza, E., & De Siervi, A. (2022). Hsa-miR-133a-3p, miR-1-3p, GOLPH3 and JUP combination results in a good biomarker to distinguish between prostate cancer and non-prostate cancer patients. Frontiers in Oncology, 12. https://doi.org/10.3389/fonc.2022.997457
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Liu, Y., Liu, Y., Ye, S., Feng, H., & Ma, L. (2022). Development and validation of cuproptosis-related gene signature in the prognostic prediction of liver cancer. Frontiers in Oncology, 12. https://doi.org/10.3389/fonc.2022.985484
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Kang, S., Park, M., Cho, J. Y., Ahn, S. jin, Yoon, C., Kim, S. G., & Cho, S.-J. (2022). Tumorigenic mechanisms of estrogen and Helicobacter pylori cytotoxin-associated gene A in estrogen receptor α-positive diffuse-type gastric adenocarcinoma. Gastric Cancer, 25(4), 678–696. https://doi.org/10.1007/s10120-022-01290-0
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Myer, P. A., Kim, H., Blümel, A. M., Finnegan, E., Kel, A., Thompson, T. V., Greally, J. M., Prehn, J. HM., O’Connor, D. P., Friedman, R. A., Floratos, A., & Das, S. (2022). Master Transcription Regulators and Transcription Factors Regulate Immune-Associated Differences Between Patients of African and European Ancestry With Colorectal Cancer. Gastro Hep Advances, 1(3), 328–341. https://doi.org/10.1016/j.gastha.2022.01.004
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Gao, L., Yang, J., Li, Y., Liu, K., Sun, H., Tang, J., Xia, Z., Zhang, L., & Hu, Z. (2022). Long Noncoding RNA SCIRT Promotes HUVEC Angiogenesis via Stabilizing VEGFA mRNA Induced by Hypoxia. Oxidative Medicine and Cellular Longevity, 2022, 1–14. https://doi.org/10.1155/2022/9102978
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Li, Z., Guo, W., Ding, S., Feng, K., Lu, L., Huang, T., & Cai, Y. (2022). Detecting Blood Methylation Signatures in Response to Childhood Cancer Radiotherapy via Machine Learning Methods. Biology, 11(4), 607. https://doi.org/10.3390/biology11040607
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Li, Z., Wang, D., Liao, H., Zhang, S., Guo, W., Chen, L., Lu, L., Huang, T., & Cai, Y.-D. (2022). Exploring the Genomic Patterns in Human and Mouse Cerebellums Via Single-Cell Sequencing and Machine Learning Method. Frontiers in Genetics, 13. https://doi.org/10.3389/fgene.2022.857851
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