| m6A-Atlas: a comprehensive knowledgebase for unraveling the N6-methyladenosine (m6A) epitranscriptome Y Tang, K Chen, B Song, J Ma, X Wu, Q Xu, Z Wei, J Su, G Liu, R Rong, ... Nucleic acids research 49 (D1), D134-D143, 2021 | 220 | 2021 |
| WHISTLE: a high-accuracy map of the human N6-methyladenosine (m6A) epitranscriptome predicted using a machine learning approach K Chen, Z Wei, Q Zhang, X Wu, R Rong, Z Lu, J Su, JP De Magalhães, ... Nucleic acids research 47 (7), e41-e41, 2019 | 188 | 2019 |
| m7GHub: deciphering the location, regulation and pathogenesis of internal mRNA N7-methylguanosine (m7G) sites in human B Song, Y Tang, K Chen, Z Wei, R Rong, Z Lu, J Su, JP De Magalhães, ... Bioinformatics 36 (11), 3528-3536, 2020 | 94 | 2020 |
| RMDisease: a database of genetic variants that affect RNA modifications, with implications for epitranscriptome pathogenesis K Chen, B Song, Y Tang, Z Wei, Q Xu, J Su, JP De Magalhães, DJ Rigden, ... Nucleic acids research 49 (D1), D1396-D1404, 2021 | 75 | 2021 |
| Attention-based multi-label neural networks for integrated prediction and interpretation of twelve widely occurring RNA modifications Z Song, D Huang, B Song, K Chen, Y Song, G Liu, J Su, JP Magalhães, ... Nature communications 12 (1), 4011, 2021 | 70 | 2021 |
| m5C-Atlas: a comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome J Ma, B Song, Z Wei, D Huang, Y Zhang, J Su, JP De Magalhães, ... Nucleic Acids Research 50 (D1), D196-D203, 2022 | 65 | 2022 |
| Bioinformatics approaches for deciphering the epitranscriptome: recent progress and emerging topics L Liu, B Song, J Ma, Y Song, SY Zhang, Y Tang, X Wu, Z Wei, K Chen, ... Computational and structural biotechnology journal 18, 1587-1604, 2020 | 53 | 2020 |
| DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology Y Zhang, J Jiang, J Ma, Z Wei, Y Wang, B Song, J Meng, G Jia, ... Nucleic Acids Research 51 (D1), D106-D116, 2023 | 47 | 2023 |
| m6A Reader: Epitranscriptome Target Prediction and Functional Characterization of N6-Methyladenosine (m6A) Readers D Zhen, Y Wu, Y Zhang, K Chen, B Song, H Xu, Y Tang, Z Wei, J Meng Frontiers in cell and developmental biology 8, 741, 2020 | 40 | 2020 |
| ConsRM: collection and large-scale prediction of the evolutionarily conserved RNA methylation sites, with implications for the functional epitranscriptome B Song, K Chen, Y Tang, Z Wei, J Su, JP De Magalhães, DJ Rigden, ... Briefings in Bioinformatics 22 (6), bbab088, 2021 | 38 | 2021 |
| PIANO: a web server for pseudouridine-site (Ψ) identification and functional annotation B Song, Y Tang, Z Wei, G Liu, J Su, J Meng, K Chen Frontiers in genetics 11, 88, 2020 | 36 | 2020 |
| m6Acomet: large-scale functional prediction of individual m6A RNA methylation sites from an RNA co-methylation network X Wu, Z Wei, K Chen, Q Zhang, J Su, H Liu, L Zhang, J Meng BMC bioinformatics 20, 1-12, 2019 | 35 | 2019 |
| m5UPred: a web server for the prediction of RNA 5-methyluridine sites from sequences J Jiang, B Song, Y Tang, K Chen, Z Wei, J Meng Molecular Therapy-Nucleic Acids 22, 742-747, 2020 | 29 | 2020 |
| m6A-TSHub: Unveiling the Context-Specific m6A Methylation and m6A-Affecting Mutations in 23 Human Tissues B Song, D Huang, Y Zhang, Z Wei, J Su, J Pedro de Magalhães, ... Genomics, Proteomics & Bioinformatics 21 (4), 678-694, 2023 | 28 | 2023 |
| DRUM: Inference of Disease-Associated m6A RNA Methylation Sites From a Multi-Layer Heterogeneous Network Y Tang, K Chen, X Wu, Z Wei, SY Zhang, B Song, SW Zhang, Y Huang, ... Frontiers in Genetics 10, 266, 2019 | 28 | 2019 |
| RMDisease V2. 0: an updated database of genetic variants that affect RNA modifications with disease and trait implication B Song, X Wang, Z Liang, J Ma, D Huang, Y Wang, JP de Magalhães, ... Nucleic Acids Research 51 (D1), D1388-D1396, 2023 | 27 | 2023 |
| Regulation of programmed cell death by Brd4 J Hu, D Pan, G Li, K Chen, X Hu Cell death & disease 13 (12), 1059, 2022 | 23 | 2022 |
| Predict Epitranscriptome Targets and Regulatory Functions of N6-Methyladenosine (m6A) Writers and Erasers Y Song, Q Xu, Z Wei, D Zhen, J Su, K Chen, J Meng Evolutionary Bioinformatics 15, 1176934319871290, 2019 | 22 | 2019 |
| m6A-Atlas v2.0: updated resources for unraveling the N6-methyladenosine (m6A) epitranscriptome among multiple species Z Liang, H Ye, J Ma, Z Wei, Y Wang, Y Zhang, D Huang, B Song, J Meng, ... Nucleic Acids Research 52 (D1), D194-D202, 2024 | 21 | 2024 |
| Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation D Huang, K Chen, B Song, Z Wei, J Su, F Coenen, JP De Magalhães, ... Nucleic acids research 50 (18), 10290-10310, 2022 | 19 | 2022 |
