| Issue Date | Title | Author(s) | Relation | scopus | WOS | Fulltext/Archive link |
| 2024 | A longer time to relapse is associated with a larger increase in differences between paired primary and recurrent IDH wild-type glioblastomas at both the transcriptomic and genomic levels | Wei-Min Ho; Chia-Ying Chen; Tai-Wei Chiang; Trees-Juen Chuang | ACTA NEUROPATHOLOGICA COMMUNICATIONS 12, 77 | | | |
| 2018 | An evolutionary landscape of A-to-I RNA editome across metazoan species | Li-Yuan Hung; Yen-Ju Chen; Te-Lun Mai; Chia-Ying Chen; Min-Yu Yang; Tai-Wei Chiang; Yi-Da Wang; Trees-Juen Chuang | Genome Biology and Evolution 10(2), 521-537 | | | |
| 2023 | Assessing the impacts of various factors on circular RNA reliability | Trees-Juen Chuang ; Tai-Wei Chiang; Chia-Ying Chen | LIFE SCIENCE ALLIANCE 6(5), e202201793 | | | |
| 2017 | Assessment of imprinting- and genetic variation-dependent monoallelic expression using reciprocal allele descendants between human family trios | Trees-Juen Chuang ; Yu-Hsiang Tseng; Chia-Ying Chen; Yi-Da Wang | SCIENTIFIC REPORTS 7, 7038 | | | |
| 2015 | Biogenesis, identification, and function of exonic circular RNAs | Iju Chen; Chia-Ying Chen; Trees-Juen Chuang | WIREs RNA 6(5), 563-79 (SCI impact factor: 6.019; Rank (CELL BIOLOGY): 38/185; Q1) | | | |
| 2018 | Comment on “A comprehensive overview and evaluation of circular RNA detection tools” | Chia-Ying Chen; Chuang, Trees-Juen | PLOS COMPUTATIONAL BIOLOGY | | | |
| 2023 | Detecting intragenic trans-splicing events from non-co-linearly spliced junctions by hybrid sequencing | Yu-Chen Chen; Chia-Ying Chen; Tai-Wei Chiang; Ming-Hsien Chan; Michael Hsiao ; Huei-Mien Ke; Isheng Jason Tsai ; Trees-Juen Chuang | Nucleic Acids Research 51(15), 7777-7797 | | | |
| 2024 | FL-circAS: an integrative resource and analysis for full-length sequences and alternative splicing of circular RNAs with nanopore sequencing | Tai-Wei Chiang; Song-En Jhong; Yu-Chen Chen; Chia-Ying Chen; Wei-Sheng Wu; Trees-Juen Chuang | NUCLEIC ACIDS RESEARCH 52(D1), D115-D123 | | | |
| 2020 | Genome-wide, integrative analysis of circular RNA dysregulation and the corresponding circular RNA-microRNA-mRNA regulatory axes in autism | Yen-Ju Chen; Chia-Ying Chen; Te-Lun Mai; Chih-Fan Chuang; Yu-Chen Chen; Sachin Kumar Gupta; Laising Yen; Yi-Da Wang; Trees-Juen Chuang | GENOME RESEARCH 30(3), 375-391 | | | |
| 2023 | Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision | Marieke Vromman; Jasper Anckaert; Stefania Bortoluzzi; Alessia Buratin; Chia-Ying Chen; Qinjie Chu; Trees-Juen Chuang ; Roozbeh Dehghannasiri; Christoph Dieterich; Xin Dong; Paul Flicek; Enrico Gaffo; Wanjun Gu; Chunjiang He; Steve Hoffmann; Osagie Izuogu; Michael S. Jackson; Tobias Jakobi; Eric C. Lai; Justine Nuytens; Julia Salzman; Mauro Santibanez-Koref; Peter Stadler; Olivier Thas; Eveline Vanden Eynde; Kimberly Verniers; Guoxia Wen; Jakub Westholm; Li Yang; Chu-Yu Ye; Nurten Yigit; Guo-Hua Yuan; Jinyang Zhang; Fangqing Zhao; Jo Vandesompele; Pieter-Jan Volders | NATURE METHODS 20, 1159-1169 | | | |
| 2019 | NCLcomparator: systematically post-screening non-co-linear transcripts (circular, trans-spliced, or fusion RNAs) identified from various detectors | Chia-Ying Chen; Trees-Juen Chuang | BMC BIOINFORMATICS 20, 3 | | | |
| 2016 | NCLscan: accurate identification of non-co-linear transcripts (fusion, trans-splicing, and circular RNA) with a good balance between sensitivity and precision | Trees-Juen Chuang; Chan-Shuo Wu; Chia-Ying Chen; Li-Yang Hung; Tai-Wei Chiang; Min-Yu Yang | NUCLEIC ACIDS RESEARCH 44(3), e29. (SCI: 9.112; ranking: 6.9%) | | | |
| 2022 | Trans-genetic effects of circular RNA expression quantitative trait loci and potential causal mechanisms in autism | Te-Lun Mai; Chia-Ying Chen; Yu-Chen Chen; Tai-Wei Chiang; Trees-Juen Chuang | MOLECULAR PSYCHIATRY 27, 4695-4706 | | | |
| 2019 | Transcriptomopathies of Pre- and Post-Symptomatic Frontotemporal Dementia-like Mice with TDP-43 Depletion in Forebrain Neurons | Lien-Szu Wu; Wei-Cheng Cheng; Chia-Ying Chen; Ming-Che Wu; Yi-Chi Wang; Yu-Hsiang Tseng; Trees-Juen Chuang ; C-K James Shen | Acta Neuropathologica Communications 7(1), 50 | | | |
