Xinghua Lu

Orcid: 0000-0002-8599-2269

Affiliations:
  • University of Pittsburgh, Department of Pharmaceutical Sciences, Intelligent Systems Program, Department of Biomedical Informatics, PA, USA


According to our database1, Xinghua Lu authored at least 27 papers between 2004 and 2024.

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

Timeline

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Links

Online presence:

On csauthors.net:

Bibliography

2024
An interpretable deep learning framework for genome-informed precision oncology.
Nat. Mac. Intell., 2024

2022
An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors.
PLoS Comput. Biol., December, 2022

Robust and accurate estimation of cellular fraction from tissue omics data via ensemble deconvolution.
Bioinform., 2022

2020
Explicit representation of protein activity states significantly improves causal discovery of protein phosphorylation networks.
BMC Bioinform., 2020

From Genome to Phenome: Predicting Multiple Cancer Phenotypes Based on Somatic GenomicAlterations via the Genomic Impact Transformer.
Proceedings of the Pacific Symposium on Biocomputing 2020, 2020

Predicting Drug Sensitivity of Cancer Cell Lines via Collaborative Filtering with Contextual Attention.
Proceedings of the Machine Learning for Healthcare Conference, 2020

Learning Latent Causal Structures with a Redundant Input Neural Network.
Proceedings of the 2020 KDD Workshop on Causal Discovery (CD@KDD 2020), 2020

2019
Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference.
PLoS Comput. Biol., 2019

Probing Biomedical Embeddings from Language Models.
CoRR, 2019

Integrating data and knowledge to identify functional modules of genes: a multilayer approach.
BMC Bioinform., 2019

PubMedQA: A Dataset for Biomedical Research Question Answering.
Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing, 2019

Deep Contextualized Biomedical Abbreviation Expansion.
Proceedings of the 18th BioNLP Workshop and Shared Task, 2019

2017
Unsupervised deep learning reveals prognostically relevant subtypes of glioblastoma.
BMC Bioinform., 2017

2016
Learning a hierarchical representation of the yeast transcriptomic machinery using an autoencoder model.
BMC Bioinform., 2016

An exact algorithm for finding cancer driver somatic genome alterations: the weighted mutually exclusive maximum set cover problem.
Algorithms Mol. Biol., 2016

2015
Identifying Driver Genomic Alterations in Cancers by Searching Minimum-Weight, Mutually Exclusive Sets.
PLoS Comput. Biol., 2015

The center for causal discovery of biomedical knowledge from big data.
J. Am. Medical Informatics Assoc., 2015

Knowledge transfer via classification rules using functional mapping for integrative modeling of gene expression data.
BMC Bioinform., 2015

Trans-species learning of cellular signaling systems with bimodal deep belief networks.
Bioinform., 2015

2014
An exact algorithm for the weighed mutually exclusive maximum set cover problem.
CoRR, 2014

2013
An exact algorithm with the time complexity of $O^*(1.299^m)$ for the weighed mutually exclusive set cover problem
CoRR, 2013

Using graph model to find transcription factor modules: the hitting set problem and an exact algorithm.
Algorithms Mol. Biol., 2013

2011
A graph model and an exact algorithm for finding transcription factor modules.
Proceedings of the ACM International Conference on Bioinformatics, 2011

2008
Multi-label literature classification based on the Gene Ontology graph.
BMC Bioinform., 2008

2006
Research Paper: Enhancing Text Categorization with Semantic-enriched Representation and Training Data Augmentation.
J. Am. Medical Informatics Assoc., 2006

2005
UIUC/MUSC at TREC 2005 Genomics Track.
Proceedings of the Fourteenth Text REtrieval Conference, 2005

2004
Automatic annotation of protein motif function with Gene Ontology terms.
BMC Bioinform., 2004


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