Published in Molecular Therapy, 2015
Recommended citation: Biswal, M.R., Ildefonso, C., Wang, Z., Mao, H., Li, H., Zhu, P., Quinones, G., & Lewin, A.S. (2015). Effectiveness of Antioxidant Gene Therapy in Delaying Retinal Degeneration. Molecular Therapy, 23, S156.
Published in Investigative Ophthalmology & Visual Science, 2015
Recommended citation: Biswal, M.R., Ildefonso, C.J., Rossmiller, B.P., Mao, H., Li, H., Han, P., Zhu, P., Quinones, G., & Lewin, A.S. (2015). Delaying Retinal Degeneration in a Mouse Model of Geographic Atrophy: An Antioxidant Gene Therapy Approach. Investigative Ophthalmology & Visual Science, 56(7), 3189-3189.
Published in Genome Research, 2018
Recommended citation: Hsiao, Y.-H. E. et al. RNA editing in nascent RNA affects pre-mRNA splicing. Genome Res. 28, 812–823 (2018).
Published in Communications Biology, 2019
Recommended citation: Quinones-Valdez, G., Tran, S.S., Jun, HI. et al. Regulation of RNA editing by RNA-binding proteins in human cells. Commun Biol 2, 19 (2019). https://doi.org/10.1038/s42003-018-0271-8
Published in Nature, 2020
Recommended citation: The ENCODE Project Consortium. (2020). Perspectives on ENCODE. Nature, 583, 693–698. https://doi.org/10.1038/s41586-020-2449-8
Published in Genome Biology, 2020
Recommended citation: Chan, T.F., Bahn, J.H., Jun, H.I., Lee, J.H., Quinones-Valdez, G., Cheng, C., & Xiao, X. (2020). RNA editing in cancer impacts mRNA abundance in immune response pathways. Genome Biology, 21, 268. https://doi.org/10.1186/s13059-020-02171-4
Published in Nature, 2020
Recommended citation: Moore, J.E., Purcaro, M.J., Pratt, H.E., et al. (2020). Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature 583, 699–710. https://doi.org/10.1038/s41586-020-2493-4
Published in Science Advances, 2022
Recommended citation: Quinones-Valdez, G., Fu, T., Chan, T.W., & Xiao, X. (2022). scAllele: A versatile tool for the detection and analysis of variants in scRNA-seq. Science Advances, 8(35), eabn6398. https://doi.org/10.1126/sciadv.abn6398
Published in Genome Biology, 2023
Recommended citation: Liu, Z., Quinones-Valdez, G., Fu, T., Huang, E., Choudhury, M., Reese, F., & Xiao, X. (2023). L-GIREMI uncovers RNA editing sites in long-read RNA-seq. Genome Biology, 24, 171. https://doi.org/10.1186/s13059-023-02999-1
Published in Molecular Cell, 2024
Recommended citation: Zheng, R., Dunlap, M., Bobkov, G.O.M., Gonzalez-Figueroa, C., Patel, K.J., Lyu, J., Quinones-Valdez, G., & Xiao, X. (2024). hnRNPM protects against the dsRNA-mediated interferon response by repressing LINE-associated cryptic splicing. Molecular Cell. https://doi.org/10.1016/j.molcel.2024.05.010
Published in bioRxiv, 2024
Recommended citation: Quinones-Valdez, G., Amoah, K., & Xiao, X. (2024). Long-read RNA-seq demarcates cis- and trans-directed alternative RNA splicing. bioRxiv. https://doi.org/10.1101/2024.06.14.599101
Published in The American Journal of Human Genetics, 2024
Recommended citation: Hervoso, J.L., Amoah, K., Dodson, J., Choudhury, M., Bhattacharya, A., Quinones-Valdez, G., & Xiao, X. (2024). Splicing-specific transcriptome-wide association uncovers genetic mechanisms for schizophrenia. The American Journal of Human Genetics, 111(8), 1573-1587. https://doi.org/10.1016/j.ajhg.2024.08.012
Published:
Selected talk for the International Society for Computational Biology
Published:
Plenary talk at the anual meeting of the American Society of Human Genetics.
Technical workshop, UCLA QCBio Collaboratory, 2020
I taught this workshop in the summer of 2020 as temporary instructor for the QCBio Collaboratory. The workshop was held online due to the pandemic. The material consists on a hand-on tutorial on the best practices protocol from GATK for small germline variant calling.
Technical workshop, UCLA QCBio Collaboratory, 2022
This workshop introduces the basic concepts and algorithms necessary to analyze single-cell RNA-sequencing data using the R package Seurat. The workshop is hands-on and covers both theoretical and computational aspects of the analysis of this type of data. Among the topics covered are: