ArticleNucleic acids research2021
BioSeq-BLM: a platform for analyzing DNA, RNA and protein sequences based on biological language models.
Article in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 126 papers, 2 of them syntheses that pooled it.
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Who cites it
126 citing papers in PubMed, 2 syntheses or guidelines pooled it, 244 citations in OpenAlex.
- Current computational tools for protein lysine acylation site prediction.Briefings in bioinformatics · 2024Pooled it
- Advances in the Application of Protein Language Modeling for Nucleic Acid Protein Binding Site Prediction.Genes · 2024Pooled it
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- Enhancing cross-context generalization in drug perturbation prediction with a multimodal conditional diffusion framework.Bioinformatics (Oxford, England) · 2026Article
- AGCECDA: attention-guided heterogeneous graph collaborative embedding for circRNA-drug sensitivity association prediction.BMC biology · 2026Article
- Prediction of Digestible and Metabolizable Energy in Swine Feed Using Machine Learning.ACS omega · 2026Article
- MVFAN-Kcr: A Multi-View Feature Fusion and Attention-Based Network for Lysine Crotonylation Site Identification.Interdisciplinary sciences, computational life sciences · 2026Article
- Predicting enhancer-promoter interactions using a stacking-based ensemble strategy.Bioinformatics (Oxford, England) · 2026Article
- KmalPred: a deep learning framework for lysine malonylation site prediction using protein language model representations.BMC biology · 2026Article
- CataCon: a contrastive graph representation learning framework for catalyst prediction.Journal of cheminformatics · 2026Article
- ac4C modification sites prediction in human mRNA: a complete review.Briefings in bioinformatics · 2026Review
- HNRM: hyperedge neighborhood-based representation for predicting N6-methyladenosine-related regulatory pathways.BMC biology · 2026Article
- MsgaBpred: A B-cell epitope predictor integrating AlphaFold3-predicted structures with multi-scale GCNs and pre-trained language model ESM-C.PLoS computational biology · 2026Article
- TF-loop: deciphering the transcription factor regulatory language for CTCF-mediated chromatin loop based on BERT.Briefings in bioinformatics · 2026Article
- DeepSGE: predicting spatial gene expression using residual network with efficient channel attention and dynamic graph attention network.BMC genomics · 2026Article
- FKSUDDAPre: A drug-disease association prediction framework based on F-TEST feature selection and AMDKSU resampling with interpretability analysis.PLoS computational biology · 2026Article
- deMEM: a novel divide-and-conquer framework based on de Bruijn graph for scalable multiple sequence alignment.GigaScience · 2026Article
- Bioinformatics insights into plant genomic imprinting: approaches, challenges, and future perspectives.Briefings in functional genomics · 2026Review
66 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In order to uncover the meanings of 'book of life', 155 different biological language models (BLMs) for DNA, RNA and protein sequence analysis are discussed in this study, which are able to extract the linguistic properties of 'book of life'. We also extend the BLMs into a system called BioSeq-BLM for automatically representing and analyzing the sequence data. Experimental results show that the predictors generated by BioSeq-BLM achieve comparable or even obviously better performance than the exiting state-of-the-art predictors published in literatures, indicating that BioSeq-BLM will provide new approaches for biological sequence analysis based on natural language processing technologies, and contribute to the development of this very important field. In order to help the readers to use BioSeq-BLM for their own experiments, the corresponding web server and stand-alone package are established and released, which can be freely accessed at http://bliulab.net/BioSeq-BLM/.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.