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- research-articleFebruary 2023
Causal associations between neuroinflammation and Alzheimer's disease risk
ICBBS '22: Proceedings of the 2022 11th International Conference on Bioinformatics and Biomedical SciencePages 30–38https://doi.org/10.1145/3571532.3571536Alzheimer's disease (AD) is an age-related disorder characterised by the degeneration of neurons, which leads to cognitive function. Recent research on the genetic basis of AD found some evidence of the potential implication of several risk genes in AD. ...
- research-articleNovember 2020
Predicting Dihydroartemisinin Resistance in Plasmodium falciparum using Pathway Activity Inference
CSBio2020: CSBio '20: Proceedings of the Eleventh International Conference on Computational Systems-Biology and BioinformaticsPages 40–45https://doi.org/10.1145/3429210.3429215Drug resistance threatens the effectiveness of treatments of infectious diseases, particularly on the global scale where mutation is rapid, mechanisms of resistance are developing or unknown, and limited data is available. Pathway activity inference is ...
- abstractNovember 2020
Avocado: Deep tensor factorization characterizes the human epigenome via imputation of tens of thousands of functional experiments
BCB '20: Proceedings of the 11th ACM International Conference on Bioinformatics, Computational Biology and Health InformaticsArticle No.: 37, Page 1https://doi.org/10.1145/3388440.3414215In the past decade, the use of high-throughput sequencing assays has allowed researchers to experimentally acquire thousands of functional measurements for each basepair in the human genome. Despite their value, these measurements are only a small ...
- research-articleNovember 2020
Zero-shot imputations across species are enabled through joint modeling of human and mouse epigenomics
BCB '20: Proceedings of the 11th ACM International Conference on Bioinformatics, Computational Biology and Health InformaticsArticle No.: 39, Pages 1–9https://doi.org/10.1145/3388440.3412412Recent large-scale efforts to characterize functional activity in human have produced thousands of genome-wide experiments that quantify various forms of biochemistry, such as histone modifications, protein binding, transcription, and chromatin ...
- tutorialAugust 2018
ACM-BCB'18 Tutorial: Making Deep Learning Understandable for Analyzing Sequential Data about Gene Regulation
BCB '18: Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health InformaticsPage 556https://doi.org/10.1145/3233547.3233664The past decade has seen a revolution in genomic technologies that enable a flood of genome-wide profiling of many molecular elements on human genomes. This massive-scale "-omics" data provides researchers with an unprecedented opportunity to understand ...
- posterAugust 2018Best Poster
A Manifold Learning Based Approach to Reveal the Functional Linkages across Multiple Gene Networks
BCB '18: Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health InformaticsPage 514https://doi.org/10.1145/3233547.3233622The coordination of functional genomics is a critical and complex process in biological systems, especially across different phenotypes or organism states (e.g., time, disease, organism). Understanding how the interactions of various genomic functions ...
- short-paperAugust 2011
An efficient algorithm for matching protein binding sites for protein function prediction
BCB '11: Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and BiomedicinePages 289–293https://doi.org/10.1145/2147805.2147837Comparing the binding sites of proteins is effective for predicting protein functions based on their structure information. However, it is still very challenging to predict the binding ligands from the atomic structures of protein binding sites. In this ...
- ArticleMarch 2004
Time-frequency feature detection for time-course microarray data
SAC '04: Proceedings of the 2004 ACM symposium on Applied computingPages 128–132https://doi.org/10.1145/967900.967928Gene clustering based on microarray data provides useful functional information to the working biologists. Many current gene-clustering algorithms rely on Euclidean-based distance metrics and fail to capture the time-dependent features of the data, ...
- ArticleJanuary 2004
THEMATICS is effective for active site prediction in comparative model structures
APBC '04: Proceedings of the second conference on Asia-Pacific bioinformatics - Volume 29Pages 209–215THEMATICS (Theoretical Microscopic Titration Curves) is a simple, reliable computational predictor of the active sites of enzymes from structure. Our method, based on well-established Finite Difference Poisson-Boltzmann techniques, identifies the ...
- articleDecember 1998
Drug design, protein secondary structure prediction and functional genomics
Inductive Logic Programming (ILP), Model Based Reasoning, Evolutionary computing, Artificial neural networks, Multivariate statistics. Drug Design, Protein Secondary Structure Prediction, Functional Genomics, Spectral interpretation for process ...
