Research output per year
Research output per year
Search results
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2024
AI techniques have facilitated the understanding of epitranscriptome distribution
Huang, D., Meng, J. & Chen, K., 11 Dec 2024, In: Cell Genomics. 4, 12, 100718.Research output: Contribution to journal › Comment/debate
Open Access -
Detection and Quantification of 5moU RNA Modification from Direct RNA Sequencing Data
Li, J., Sun, F., He, K., Zhang, L., Meng, J., Huang, D. & Zhang, Y., 2024, In: Current Genomics. 25, 3, p. 212-225 14 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Developing a Semi-Supervised Approach Using a PU-Learning-Based Data Augmentation Strategy for Multitarget Drug Discovery
Hao, Y., Li, B., Huang, D., Wu, S., Wang, T., Fu, L. & Liu, X., Aug 2024, In: International Journal of Molecular Sciences. 25, 15, 8239.Research output: Contribution to journal › Article › peer-review
Open Access -
m 6 A-Atlas v2.0: updated resources for unraveling the N 6 -methyladenosine (m 6 A) epitr anscript ome among multiple species
Liang, Z., Ye, H., Ma, J., Wei, Z., Wang, Y., Zhang, Y., Huang, D., Song, B., Meng, J., Rigden, D. J. & Chen, K., 5 Jan 2024, In: Nucleic Acids Research. 52, D1, p. D194-D202Research output: Contribution to journal › Article › peer-review
Open Access -
NanoMUD: Profiling of pseudouridine and N1-methylpseudouridine using Oxford Nanopore direct RNA sequencing
Zhang, Y., Yan, H., Wei, Z., Hong, H., Huang, D., Liu, G., Qin, Q., Rong, R., Gao, P., Meng, J. & Ying, B., Jun 2024, In: International Journal of Biological Macromolecules. 270, 132433.Research output: Contribution to journal › Article › peer-review
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2023
DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology
Zhang, Y., Jiang, J., Ma, J., Wei, Z., Wang, Y., Song, B., Meng, J., Jia, G., De Magalhães, J. P., Rigden, D. J., Huang, D. & Chen, K., 6 Jan 2023, In: Nucleic Acids Research. 51, D1, p. D106-D116Research output: Contribution to journal › Article › peer-review
Open Access -
m6A-Atlas v2.0: updated resources for unraveling the N 6-methyladenosine (m6A) epitranscriptome among multiple species.
Wei, Z., Meng, J., Wang, Y. & Huang, D., 2023, In: Nucleic Acids Research.Research output: Contribution to journal › Article › peer-review
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m6A-TSHub: Unveiling the Context-Specific m6A Methylation and m6A-Affecting Mutations in 23 Human Tissues: Unveiling the Context-specific m6A Methylation and m6A-affecting Mutations in 23 Human Tissues
Song, B., Huang, D., Zhang, Y., Wei, Z., Su, J., Pedro de Magalhães, J., Rigden, D. J., Meng, J. & Chen, K., Aug 2023, In: Genomics, Proteomics and Bioinformatics. 21, 4, p. 678-694 17 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Multi-task adaptive pooling enabled synergetic learning of RNA modification across tissue, type and species from low-resolution epitranscriptomes
Song, Y., Wang, Y., Wang, X., Huang, D., Nguyen, A. & Meng, J., 1 May 2023, In: Briefings in Bioinformatics. 24, 3, bbad105.Research output: Contribution to journal › Article › peer-review
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RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication
Song, B., Wang, X., Liang, Z., Ma, J., Huang, D., Wang, Y., de Magalhães, J. P., Rigden, D. J., Meng, J., Liu, G., Chen, K. & Wei, Z., 6 Jan 2023, In: Nucleic Acids Research. 51, D1, p. D1388-D1396Research output: Contribution to journal › Article › peer-review
Open Access -
2022
4acCPred: Weakly supervised prediction of N4-acetyldeoxycytosine DNA modification from sequences
Zhou, J., Wang, X., Wei, Z., Meng, J. & Huang, D., 13 Dec 2022, In: Molecular Therapy - Nucleic Acids. 30, p. 337-345 9 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Comparing Bayesian‐Based Reconstruction Strategies in Topology‐Based Pathway Enrichment Analysis
Wang, Y., Li, J., Huang, D., Hao, Y., Li, B., Wang, K., Chen, B., Li, T. & Liu, X., Jul 2022, In: Biomolecules. 12, 7, 906.Research output: Contribution to journal › Article › peer-review
Open Access -
Detecting RNA modification using direct RNA sequencing: A systematic review
Zhao, X., Zhang, Y., Hang, D., Meng, J. & Wei, Z., Jan 2022, In: Computational and Structural Biotechnology Journal. 20, p. 5740-5749 10 p.Research output: Contribution to journal › Review article › peer-review
Open Access -
Discovery of Stomach Adenocarcinoma Biomarkers by Consensus Scoring of Random Sampling and Machine Learning Modeling
Chen, J., Hao, Y., Wang, T., Huang, D. & Liu, X., 2022, 2022 10th International Conference on Bioinformatics and Computational Biology, ICBCB 2022. Institute of Electrical and Electronics Engineers Inc., p. 112-115 4 p. (2022 10th International Conference on Bioinformatics and Computational Biology, ICBCB 2022).Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
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Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation
Huang, D., Chen, K., Song, B., Wei, Z., Su, J., Coenen, F., De Magalhães, J. P., Rigden, D. J. & Meng, J., 14 Oct 2022, In: Nucleic Acids Research. 50, 18, p. 10290-10310 21 p.Research output: Contribution to journal › Article › peer-review
Open Access -
M5C-Atlas: A comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome
Ma, J., Song, B., Wei, Z., Huang, D., Zhang, Y., Su, J., De Magalhães, J. P., Rigden, D. J., Meng, J. & Chen, K., 7 Jan 2022, In: Nucleic Acids Research. 50, D1, p. D196-D203Research output: Contribution to journal › Article › peer-review
Open Access -
m6A-Maize: Weakly supervised prediction of m6A-carrying transcripts and m6A-affecting mutations in maize (Zea mays)
Liang, Z., Zhang, L., Chen, H., Huang, D. & Song, B., Jul 2022, In: Methods. 203, p. 226-232 7 p.Research output: Contribution to journal › Article › peer-review
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Prediction and Motif Analysis of 2’-O-methylation Using a Hybrid Deep Learning Model from RNA Primary Sequence and Nanopore Signals
Pan, S., Zhang, Y., Wei, Z., Meng, J. & Huang, D., Nov 2022, In: Current Bioinformatics. 17, 9, p. 873-882 10 p.Research output: Contribution to journal › Article › peer-review
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Primary sequence-assisted prediction of m6A RNA methylation sites from Oxford nanopore direct RNA sequencing data
Zhang, Y., Huang, D., Wei, Z. & Chen, K., Jul 2022, In: Methods. 203, p. 62-69 8 p.Research output: Contribution to journal › Article › peer-review
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RC-Net: Regression Correction for End-To-End Chromosome Instance Segmentation
Liu, H., Wang, G., Song, S., Huang, D. & Zhang, L., 18 May 2022, In: Frontiers in Genetics. 13, 895099.Research output: Contribution to journal › Article › peer-review
Open Access -
RNADSN: Transfer-Learning 5-Methyluridine (m5U) Modification on mRNAs from Common Features of tRNA
Li, Z., Mao, J., Huang, D., Song, B. & Meng, J., Nov 2022, In: International Journal of Molecular Sciences. 23, 21, 13493.Research output: Contribution to journal › Article › peer-review
Open Access -
2021
A Novel Application of Image-to-Image Translation: Chromosome Straightening Framework by Learning from a Single Image
Song, S., Huang, D., Hu, Y., Yang, C., Meng, J., Ma, F., Coenen, F., Zhang, J. & Su, J., 2021, Proceedings - 2021 14th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2021. Li, Q., Wang, L., Wang, Y. & Li, W. (eds.). Institute of Electrical and Electronics Engineers Inc., (Proceedings - 2021 14th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2021).Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
Open Access -
Attention-based multi-label neural networks for integrated prediction and interpretation of twelve widely occurring RNA modifications
Song, Z., Huang, D., Song, B., Chen, K., Song, Y., Liu, G., Su, J., Magalhães, J. P. D., Rigden, D. J. & Meng, J., 1 Dec 2021, In: Nature Communications. 12, 1, 4011.Research output: Contribution to journal › Article › peer-review
Open Access -
Prediction of m6A Reader Substrate Sites Using Deep Convolutional and Recurrent Neural Network
Wu, Y., Zhang, Y., Wang, R., Meng, J., Chen, K., Song, Y. & Huang, D., 20 Jul 2021, Proceedings of the 5th International Conference on Biological Information and Biomedical Engineering, BIBE 2021. Chen, B. (ed.). Association for Computing Machinery, 3469706. (ACM International Conference Proceeding Series).Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
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Weakly supervised learning of RNA modifications from low-resolution epitranscriptome data
Huang, D., Song, B., Wei, J., Su, J., Coenen, F. & Meng, J., 1 Jul 2021, In: Bioinformatics. 37, Supplement_1, p. I222-I230Research output: Contribution to journal › Article › peer-review
Open Access -
2020
Generalization and Visual Comprehension of CNN Models on Chromosome Images
Wang, C., Huang, D., Su, J., Yu, L. & Ma, F., 8 Apr 2020, In: Journal of Physics: Conference Series. 1487, 1, 012027.Research output: Contribution to journal › Conference article › peer-review
Open Access -
2019
Re-Identification Based Automatic Matching and Annotation of Chromosome
Wang, C., Huang, D., Guo, J., Su, J., Ma, F. & Yu, L., Oct 2019, Proceedings - 2019 12th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2019. Li, Q. & Wang, L. (eds.). Institute of Electrical and Electronics Engineers Inc., 8966038. (Proceedings - 2019 12th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2019).Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review