Jiajie Peng

Orcid: 0000-0002-3857-7927

According to our database¹, Jiajie Peng authored at least 71 papers between 2013 and 2024.

Collaborative distances:

Dijkstra number² of four.
Erdős number³ of four.

Timeline

Legend:

Book

In proceedings

Article

PhD thesis

Dataset

Other

Bibliography

2024

Predicting cell-type specific disease genes of diabetes with the biological network.

[BibT_eX]

[DOI]

Comput. Biol. Medicine, February, 2024

CellAgent: An LLM-driven Multi-Agent Framework for Automated Single-cell Data Analysis.

[BibT_eX]

[DOI]

CoRR, 2024

Overview of the CAIL 2023 Argument Mining Track.

[BibT_eX]

[DOI]

CoRR, 2024

Beyond ESM2: Graph-Enhanced Protein Sequence Modeling with Efficient Clustering.

[BibT_eX]

[DOI]

CoRR, 2024

postGWAS: A web server for deciphering the causality post the genome-wide association studies.

[BibT_eX]

[DOI]

Comput. Biol. Medicine, 2024

Accurately deciphering spatial domains for spatially resolved transcriptomics with stCluster.

[BibT_eX]

[DOI]

Briefings Bioinform., 2024

Designing Biological Sequences without Prior Knowledge Using Evolutionary Reinforcement Learning.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Eighth AAAI Conference on Artificial Intelligence, 2024

2023

Collaborative deep learning improves disease-related circRNA prediction based on multi-source functional information.

[BibT_eX]

[DOI]

Briefings Bioinform., March, 2023

DFinder: a novel end-to-end graph embedding-based method to identify drug-food interactions.

[BibT_eX]

[DOI]

Bioinform., January, 2023

DxFormer: a decoupled automatic diagnostic system based on decoder-encoder transformer with dense symptom representations.

[BibT_eX]

[DOI]

Bioinform., January, 2023

A benchmark for automatic medical consultation system: frameworks, tasks and datasets.

[BibT_eX]

[DOI]

Bioinform., January, 2023

DISC-MedLLM: Bridging General Large Language Models and Real-World Medical Consultation.

[BibT_eX]

[DOI]

CoRR, 2023

HQProtoPNet: An Evidence-Based Model for Interpretable Image Recognition.

[BibT_eX]

[DOI]

Proceedings of the International Joint Conference on Neural Networks, 2023

2022

Flexibility and rigidity index for chromosome packing, flexibility and dynamics analysis.

[BibT_eX]

[DOI]

Frontiers Comput. Sci., 2022

Hierarchical reinforcement learning for automatic disease diagnosis.

[BibT_eX]

[DOI]

Bioinform., 2022

A review and performance evaluation of clustering frameworks for single-cell Hi-C data.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

Correction to: Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

A network-based method for brain disease gene prediction by integrating brain connectome and molecular network.

[BibT_eX]

[DOI]

Briefings Bioinform., 2022

A Two Stage Adaptation Framework for Frame Detection via Prompt Learning.

[BibT_eX]

[DOI]

Proceedings of the 29th International Conference on Computational Linguistics, 2022

Discovering eQTL Regulatory Patterns Through eQTLMotif.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Hypergraph-based Gene Ontology Embedding for Disease Gene Prediction.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Deep Representation Debiasing via Mutual Information Minimization and Maximization (Student Abstract).

[BibT_eX]

[DOI]

Proceedings of the Thirty-Sixth AAAI Conference on Artificial Intelligence, 2022

2021

SC2disease: a manually curated database of single-cell transcriptome for human diseases.

[BibT_eX]

[DOI]

Nucleic Acids Res., 2021

ED2: An Environment Dynamics Decomposition Framework for World Model Construction.

[BibT_eX]

[DOI]

CoRR, 2021

A pipeline for RNA-seq based eQTL analysis with automated quality control procedures.

[BibT_eX]

[DOI]

BMC Bioinform., 2021

A novel method for predicting cell abundance based on single-cell RNA-seq data.

[BibT_eX]

[DOI]

Jiajie Peng

Lu Han

Xuequn Shang

BMC Bioinform., 2021

Prediction and collection of protein-metabolite interactions.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Identifying drug-target interactions based on graph convolutional network and deep neural network.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Integrating multi-network topology for gene function prediction using deep neural networks.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

An end-to-end heterogeneous graph representation learning-based framework for drug-target interaction prediction.

[BibT_eX]

[DOI]

Briefings Bioinform., 2021

Curriculum Learning for Vision-and-Language Navigation.

[BibT_eX]

[DOI]

Proceedings of the Advances in Neural Information Processing Systems 34: Annual Conference on Neural Information Processing Systems 2021, 2021

Predicting Hepatoma-Related Genes Based on Representation Learning of PPI network and Gene Ontology Annotations.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

DCAE: Selecting Discriminative Genes on Single-cell RNA-seq Data for Cell-type Quantification.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020

Mining Relationships among Multiple Entities in Biological Networks.

[BibT_eX]

[DOI]

IEEE ACM Trans. Comput. Biol. Bioinform., 2020

A learning-based method for drug-target interaction prediction based on feature representation learning and deep neural network.

[BibT_eX]

[DOI]

Jiajie Peng

Jingyi Li

Xuequn Shang

BMC Bioinform., 2020

Combining sequence and network information to enhance protein-protein interaction prediction.

[BibT_eX]

[DOI]

BMC Bioinform., 2020

DeepLGP: a novel deep learning method for prioritizing lncRNA target genes.

[BibT_eX]

[DOI]

Bioinform., 2020

Identifying emerging phenomenon in long temporal phenotyping experiments.

[BibT_eX]

[DOI]

Bioinform., 2020

Efficient Deep Reinforcement Learning via Adaptive Policy Transfer.

[BibT_eX]

[DOI]

Proceedings of the Twenty-Ninth International Joint Conference on Artificial Intelligence, 2020

Automatic Term Name Generation for Gene Ontology: Task and Dataset.

[BibT_eX]

[DOI]

Proceedings of the Findings of the Association for Computational Linguistics: EMNLP 2020, 2020

Efficient Deep Reinforcement Learning through Policy Transfer.

[BibT_eX]

[DOI]

Proceedings of the 19th International Conference on Autonomous Agents and Multiagent Systems, 2020

2019

Predicting disease-related phenotypes using an integrated phenotype similarity measurement based on HPO.

[BibT_eX]

[DOI]

Hansheng Xue

Jiajie Peng

Xuequn Shang

BMC Syst. Biol., 2019

LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

Prioritizing candidate diseases-related metabolites based on literature and functional similarity.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

Combining gene ontology with deep neural networks to enhance the clustering of single cell RNA-Seq data.

[BibT_eX]

[DOI]

Jiajie Peng

Xiaoyu Wang

Xuequn Shang

BMC Bioinform., 2019

TS-GOEA: a web tool for tissue-specific gene set enrichment analysis based on gene ontology.

[BibT_eX]

[DOI]

BMC Bioinform., 2019

A learning-based framework for miRNA-disease association identification using neural networks.

[BibT_eX]

[DOI]

Bioinform., 2019

Integrating Multi-Network Topology via Deep Semi-supervised Node Embedding.

[BibT_eX]

[DOI]

Proceedings of the 28th ACM International Conference on Information and Knowledge Management, 2019

A deconvolution method for predicting cell abundance based on single cell RNA-seq data.

[BibT_eX]

[DOI]

Jiajie Peng

Lu Han

Xuequn Shang

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Integrating Sequence and Network Information to Enhance Protein-Protein Interaction Prediction Using Graph Convolutional Networks.

[BibT_eX]

[DOI]

Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Towards Gene Function Prediction via Multi-Networks Representation Learning.

[BibT_eX]

[DOI]

Hansheng Xue

Jiajie Peng

Xuequn Shang

Proceedings of the Thirty-Third AAAI Conference on Artificial Intelligence, 2019

2018

Deep Feature Learning of Multi-Network Topology for Node Classification.

[BibT_eX]

[DOI]

Hansheng Xue

Jiajie Peng

Xuequn Shang

CoRR, 2018

Improving the measurement of semantic similarity by combining gene ontology and co-functional network: a random walk based approach.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2018

Measuring phenotype-phenotype similarity through the interactome.

[BibT_eX]

[DOI]

Jiajie Peng

Weiwei Hui

Xuequn Shang

BMC Bioinform., 2018

Identifying Representative Network Motifs for Inferring Higher-order Structure of Biological Networks.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Predicting candidate disease-related lncRNAs based on network random walk.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

TSGOE: A web tool for tissue-specific gene ontology enrichment.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017

A novel method to measure the semantic similarity of HPO terms.

[BibT_eX]

[DOI]

Int. J. Data Min. Bioinform., 2017

Identifying term relations cross different gene ontology categories.

[BibT_eX]

[DOI]

BMC Bioinform., 2017

Investigations on factors influencing HPO-based semantic similarity calculation.

[BibT_eX]

[DOI]

Jiajie Peng

Qianqian Li

Xuequn Shang

J. Biomed. Semant., 2017

2016

Extending gene ontology with gene association networks.

[BibT_eX]

[DOI]

Bioinform., 2016

Joint detection of copy number variations in parent-offspring trios.

[BibT_eX]

[DOI]

Bioinform., 2016

Measuring phenotype semantic similarity using Human Phenotype Ontology.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Analyzing factors involved in the HPO-based semantic similarity calculation.

[BibT_eX]

[DOI]

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015

LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression.

[BibT_eX]

[DOI]

Nucleic Acids Res., 2015

Measuring semantic similarities by combining gene ontology annotations and gene co-function networks.

[BibT_eX]

[DOI]

BMC Bioinform., 2015

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks.

[BibT_eX]

[DOI]

Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2014

An integrative approach for measuring semantic similarities using gene ontology.

[BibT_eX]

[DOI]

BMC Syst. Biol., 2014

Towards integrative gene functional similarity measurement.

[BibT_eX]

[DOI]

Jiajie Peng

Yadong Wang

Jin Chen

BMC Bioinform., 2014

2013

Identifying cross-category relations in gene ontology and constructing genome-specific term association networks.

[BibT_eX]

[DOI]

Jiajie Peng

Jin Chen

Yadong Wang

BMC Bioinform., 2013

Jiajie Peng

Timeline

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Bibliography

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