Jiajie Peng

Orcid: 0000-0002-3857-7927

According to our database1, Jiajie Peng authored at least 66 papers between 2013 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2024
Predicting cell-type specific disease genes of diabetes with the biological network.
Comput. Biol. Medicine, February, 2024

Designing Biological Sequences without Prior Knowledge Using Evolutionary Reinforcement Learning.
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.
Briefings Bioinform., March, 2023

DFinder: a novel end-to-end graph embedding-based method to identify drug-food interactions.
Bioinform., January, 2023

DxFormer: a decoupled automatic diagnostic system based on decoder-encoder transformer with dense symptom representations.
Bioinform., January, 2023

A benchmark for automatic medical consultation system: frameworks, tasks and datasets.
Bioinform., January, 2023

DISC-MedLLM: Bridging General Large Language Models and Real-World Medical Consultation.
CoRR, 2023

HQProtoPNet: An Evidence-Based Model for Interpretable Image Recognition.
Proceedings of the International Joint Conference on Neural Networks, 2023

2022
Flexibility and rigidity index for chromosome packing, flexibility and dynamics analysis.
Frontiers Comput. Sci., 2022

Hierarchical reinforcement learning for automatic disease diagnosis.
Bioinform., 2022

A review and performance evaluation of clustering frameworks for single-cell Hi-C data.
Briefings Bioinform., 2022

Correction to: Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform., 2022

Enhancing discoveries of molecular QTL studies with small sample size using summary statistic imputation.
Briefings Bioinform., 2022

A network-based method for brain disease gene prediction by integrating brain connectome and molecular network.
Briefings Bioinform., 2022

A Two Stage Adaptation Framework for Frame Detection via Prompt Learning.
Proceedings of the 29th International Conference on Computational Linguistics, 2022

Discovering eQTL Regulatory Patterns Through eQTLMotif.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Hypergraph-based Gene Ontology Embedding for Disease Gene Prediction.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022

Deep Representation Debiasing via Mutual Information Minimization and Maximization (Student Abstract).
Proceedings of the Thirty-Sixth AAAI Conference on Artificial Intelligence, 2022

2021
SC2disease: a manually curated database of single-cell transcriptome for human diseases.
Nucleic Acids Res., 2021

ED2: An Environment Dynamics Decomposition Framework for World Model Construction.
CoRR, 2021

A pipeline for RNA-seq based eQTL analysis with automated quality control procedures.
BMC Bioinform., 2021

A novel method for predicting cell abundance based on single-cell RNA-seq data.
BMC Bioinform., 2021

Prediction and collection of protein-metabolite interactions.
Briefings Bioinform., 2021

Identifying drug-target interactions based on graph convolutional network and deep neural network.
Briefings Bioinform., 2021

Integrating multi-network topology for gene function prediction using deep neural networks.
Briefings Bioinform., 2021

An end-to-end heterogeneous graph representation learning-based framework for drug-target interaction prediction.
Briefings Bioinform., 2021

Curriculum Learning for Vision-and-Language Navigation.
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.
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.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020
Mining Relationships among Multiple Entities in Biological Networks.
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.
BMC Bioinform., 2020

Combining sequence and network information to enhance protein-protein interaction prediction.
BMC Bioinform., 2020

DeepLGP: a novel deep learning method for prioritizing lncRNA target genes.
Bioinform., 2020

Identifying emerging phenomenon in long temporal phenotyping experiments.
Bioinform., 2020

Efficient Deep Reinforcement Learning via Adaptive Policy Transfer.
Proceedings of the Twenty-Ninth International Joint Conference on Artificial Intelligence, 2020

Automatic Term Name Generation for Gene Ontology: Task and Dataset.
Proceedings of the Findings of the Association for Computational Linguistics: EMNLP 2020, 2020

Efficient Deep Reinforcement Learning through Policy Transfer.
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.
BMC Syst. Biol., 2019

LncDisAP: a computation model for LncRNA-disease association prediction based on multiple biological datasets.
BMC Bioinform., 2019

Prioritizing candidate diseases-related metabolites based on literature and functional similarity.
BMC Bioinform., 2019

Combining gene ontology with deep neural networks to enhance the clustering of single cell RNA-Seq data.
BMC Bioinform., 2019

TS-GOEA: a web tool for tissue-specific gene set enrichment analysis based on gene ontology.
BMC Bioinform., 2019

A learning-based framework for miRNA-disease association identification using neural networks.
Bioinform., 2019

Integrating Multi-Network Topology via Deep Semi-supervised Node Embedding.
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.
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.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Towards Gene Function Prediction via Multi-Networks Representation Learning.
Proceedings of the Thirty-Third AAAI Conference on Artificial Intelligence, 2019

2018
Deep Feature Learning of Multi-Network Topology for Node Classification.
CoRR, 2018

Improving the measurement of semantic similarity by combining gene ontology and co-functional network: a random walk based approach.
BMC Syst. Biol., 2018

Measuring phenotype-phenotype similarity through the interactome.
BMC Bioinform., 2018

Identifying Representative Network Motifs for Inferring Higher-order Structure of Biological Networks.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Predicting candidate disease-related lncRNAs based on network random walk.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

TSGOE: A web tool for tissue-specific gene ontology enrichment.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017
A novel method to measure the semantic similarity of HPO terms.
Int. J. Data Min. Bioinform., 2017

Identifying term relations cross different gene ontology categories.
BMC Bioinform., 2017

Investigations on factors influencing HPO-based semantic similarity calculation.
J. Biomed. Semant., 2017

2016
Extending gene ontology with gene association networks.
Bioinform., 2016

Joint detection of copy number variations in parent-offspring trios.
Bioinform., 2016

Measuring phenotype semantic similarity using Human Phenotype Ontology.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

Analyzing factors involved in the HPO-based semantic similarity calculation.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016

2015
LncRNA2Target: a database for differentially expressed genes after lncRNA knockdown or overexpression.
Nucleic Acids Res., 2015

Measuring semantic similarities by combining gene ontology annotations and gene co-function networks.
BMC Bioinform., 2015

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks.
Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2014
An integrative approach for measuring semantic similarities using gene ontology.
BMC Syst. Biol., 2014

Towards integrative gene functional similarity measurement.
BMC Bioinform., 2014

2013
Identifying cross-category relations in gene ontology and constructing genome-specific term association networks.
BMC Bioinform., 2013


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