Media Coverage of ASHG Award
Trainee Research Excellence Award mentions in different websites
Posts by Collection
blog
portfolio
publications
Delaying Retinal Degeneration in a Mouse Model of Geographic Atrophy: An Antioxidant Gene Therapy Approach Permalink
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.
RNA editing in nascent RNA affects pre-mRNA splicing Permalink
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).
RNA editing in nascent RNA affects pre-mRNA splicing Permalink
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).
Expanded encyclopaedias of DNA elements in the human and mouse genomes Permalink
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
Perspectives on ENCODE Permalink
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
RNA editing in cancer impacts mRNA abundance in immune response pathways Permalink
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
Regulation of RNA editing by RNA-binding proteins in human cells Permalink
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
scAllele: A versatile tool for the detection and analysis of variants in scRNA-seq Permalink
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
L-GIREMI uncovers RNA editing sites in long-read RNA-seq Permalink
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
hnRNPM protects against the dsRNA-mediated interferon response by repressing LINE-associated cryptic splicing Permalink
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
Long-read RNA-seq demarcates cis- and trans-directed alternative RNA splicing Permalink
Published in Nature Communications, 2024
Recommended citation: Quinones-Valdez, G., Amoah, K., & Xiao, X. (2025). Long-read RNA-seq demarcates cis- and trans-directed alternative RNA splicing. Nature Communications. https://www.nature.com/articles/s41467-025-64605-6
Splicing-specific transcriptome-wide association uncovers genetic mechanisms for schizophrenia Permalink
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
talks
scAllele: a versatile tool for the detection and analysis of variants in scRNA-seq
Published:
Invited talk at QCBio Seminar Series.
Function an Regulation of Nucleotide Variants in RNA
Published:
Invited talk at Open Box Science discussing my work on understanding the function and regulation of nucleotide variants in RNA.
Long-read RNA-seq demarcates cis- and trans-directed alternative RNA splicing
Published:
Selected talk for the International Society for Computational Biology
Long-read RNA-seq demarcates cis- and trans-directed alternative RNA splicing
Published:
Plenary talk at the anual meeting of the American Society of Human Genetics.
teaching
Variant Calling with GATK
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.
Single cell RNA-sequencing data analysis with R
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: