Edward R Dougherty
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Explore the profile of Edward R Dougherty including associated specialties, affiliations and a list of published articles.
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176
Citations
2378
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Recent Articles
1.
Luo X, Niyakan S, Johnstone P, McCorkle S, Park G, Lopez-Marrero V, et al.
Front Bioinform
. 2024 May;
4:1280971.
PMID: 38812660
Radiation exposure poses a significant threat to human health. Emerging research indicates that even low-dose radiation once believed to be safe, may have harmful effects. This perception has spurred a...
2.
Qian X, Yoon B, Arroyave R, Qian X, Dougherty E
Patterns (N Y)
. 2023 Nov;
4(11):100863.
PMID: 38035192
Significant acceleration of the future discovery of novel functional materials requires a fundamental shift from the current materials discovery practice, which is heavily dependent on trial-and-error campaigns and high-throughput screening,...
3.
Woo H, Qian X, Tan L, Jha S, Alexander F, Dougherty E, et al.
Patterns (N Y)
. 2023 Nov;
4(11):100875.
PMID: 38035191
The need for efficient computational screening of molecular candidates that possess desired properties frequently arises in various scientific and engineering problems, including drug discovery and materials design. However, the enormous...
4.
Niu P, Soto M, Huang S, Yoon B, Dougherty E, Alexander F, et al.
J Comput Biol
. 2023 Mar;
30(7):751-765.
PMID: 36961389
TRIMER, Transcription Regulation Integrated with MEtabolic Regulation, is a genome-scale modeling pipeline targeting at metabolic engineering applications. Using TRIMER, regulated metabolic reactions can be effectively predicted by integrative modeling of...
5.
Tercan B, Aguilar B, Huang S, Dougherty E, Shmulevich I
iScience
. 2022 Sep;
25(9):104951.
PMID: 36093045
We developed a computational approach to find the best intervention to achieve transcription factor (TF) mediated transdifferentiation. We construct probabilistic Boolean networks (PBNs) from single-cell RNA sequencing data of two...
6.
Robust importance sampling for error estimation in the context of optimal Bayesian transfer learning
Maddouri O, Qian X, Alexander F, Dougherty E, Yoon B
Patterns (N Y)
. 2022 May;
3(3):100428.
PMID: 35510184
Classification has been a major task for building intelligent systems because it enables decision-making under uncertainty. Classifier design aims at building models from training data for representing feature-label distributions-either explicitly...
7.
Maddouri O, Qian X, Alexander F, Dougherty E, Yoon B
Data Brief
. 2022 Apr;
42:108113.
PMID: 35434232
Transfer learning (TL) techniques can enable effective learning in data scarce domains by allowing one to re-purpose data or scientific knowledge available in relevant source domains for predictive tasks in...
8.
Niu P, Soto M, Yoon B, Dougherty E, Alexander F, Blaby I, et al.
STAR Protoc
. 2022 Mar;
3(1):101184.
PMID: 35243375
This protocol explains the pipeline for condition-dependent metabolite yield prediction using Transcription Regulation Integrated with MEtabolic Regulation (TRIMER). TRIMER targets metabolic engineering applications via a hybrid model integrating transcription factor...
9.
Niu P, Soto M, Yoon B, Dougherty E, Alexander F, Blaby I, et al.
iScience
. 2021 Nov;
24(11):103218.
PMID: 34761179
There has been extensive research in predictive modeling of genome-scale metabolic reaction networks. Living systems involve complex stochastic processes arising from interactions among different biomolecules. For more accurate and robust...
10.
Boluki S, Qian X, Dougherty E
Bioinformatics
. 2021 Apr;
37(19):3212-3219.
PMID: 33822889
Motivation: When learning to subtype complex disease based on next-generation sequencing data, the amount of available data is often limited. Recent works have tried to leverage data from other domains...