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Charles Tapley Hoyt, Ph.D. - Publications

Affiliations: 
2011-2015 Department of Chemistry and Chemical Biology Northeastern University, Boston, MA, United States 
 2015-2019 Bonn Aachen International Center for Information Technology University of Bonn, Bonn, Nordrhein-Westfalen, Germany 
 2016-2019 Department of Bioinformatics Fraunhofer SCAI 
 2020-2020 Computational Biology Enveda Biosciences 
 2021- Laboratory of Systems Pharmacology Harvard Medical School, Boston, MA, United States 
Area:
Computational Biology, Bioinformatics, Chemistry, Cheminformatics
Website:
https://cthoyt.com
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21 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Doherty LM, Mills CE, Boswell SA, Liu X, Hoyt CT, Gyori B, Buhrlage SJ, Sorger PK. Integrating multi-omics data reveals function and therapeutic potential of deubiquitinating enzymes. Elife. 11. PMID 35737447 DOI: 10.7554/eLife.72879  0.509
2022 Balabin H, Hoyt CT, Birkenbihl C, Gyori BM, Bachman J, Kodamullil AT, Plöger PG, Hofmann-Apitius M, Domingo-Fernández D. STonKGs: A Sophisticated Transformer Trained on Biomedical Text and Knowledge Graphs. Bioinformatics (Oxford, England). PMID 34986221 DOI: 10.1093/bioinformatics/btac001  0.543
2021 Khatami SG, Domingo-Fernández D, Mubeen S, Hoyt CT, Robinson C, Karki R, Iyappan A, Kodamullil AT, Hofmann-Apitius M. A Systems Biology Approach for Hypothesizing the Effect of Genetic Variants on Neuroimaging Features in Alzheimer's Disease. Journal of Alzheimer's Disease : Jad. PMID 33554913 DOI: 10.3233/JAD-201397  0.539
2020 Muslu O, Hoyt CT, De Lacerda MP, Hofmann-Apitius M, Froehlich H. GuiltyTargets: Prioritization of Novel Therapeutic Targets with Deep Network Representation Learning. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 32750869 DOI: 10.1109/Tcbb.2020.3003830  0.549
2020 Emon MA, Domingo-Fernández D, Hoyt CT, Hofmann-Apitius M. PS4DR: a multimodal workflow for identification and prioritization of drugs based on pathway signatures. Bmc Bioinformatics. 21: 231. PMID 32503412 DOI: 10.1186/S12859-020-03568-5  0.565
2020 Mubeen S, Hoyt CT, Gemünd A, Hofmann-Apitius M, Fröhlich H, Domingo-Fernández D. Corrigendum: The Impact of Pathway Database Choice on Statistical Enrichment Analysis and Predictive Modeling. Frontiers in Genetics. 11: 436. PMID 32411185 DOI: 10.3389/Fgene.2020.00436  0.547
2020 Humayun F, Domingo-Fernández D, Paul George AA, Hopp MT, Syllwasschy BF, Detzel MS, Hoyt CT, Hofmann-Apitius M, Imhof D. A Computational Approach for Mapping Heme Biology in the Context of Hemolytic Disorders. Frontiers in Bioengineering and Biotechnology. 8: 74. PMID 32211383 DOI: 10.3389/Fbioe.2020.00074  0.583
2020 Bradford RJ, Davenport JH, England M, Errami H, Gerdt VP, Grigoriev D, Hoyt CT, Kosta M, Radulescu O, Sturm T, Weber A. Identifying the parametric occurrence of multiple steady states for some biological networks Journal of Symbolic Computation. 98: 84-119. DOI: 10.1016/J.Jsc.2019.07.008  0.317
2019 Golriz Khatami S, Robinson C, Birkenbihl C, Domingo-Fernández D, Hoyt CT, Hofmann-Apitius M. Challenges of Integrative Disease Modeling in Alzheimer's Disease. Frontiers in Molecular Biosciences. 6: 158. PMID 31993440 DOI: 10.3389/Fmolb.2019.00158  0.587
2019 Mubeen S, Hoyt CT, Gemünd A, Hofmann-Apitius M, Fröhlich H, Domingo-Fernández D. The Impact of Pathway Database Choice on Statistical Enrichment Analysis and Predictive Modeling. Frontiers in Genetics. 10: 1203. PMID 31824580 DOI: 10.3389/Fgene.2019.01203  0.585
2019 Karki R, Kodamullil AT, Hoyt CT, Hofmann-Apitius M. Quantifying mechanisms in neurodegenerative diseases (NDDs) using candidate mechanism perturbation amplitude (CMPA) algorithm. Bmc Bioinformatics. 20: 494. PMID 31604427 DOI: 10.1186/S12859-019-3101-1  0.618
2019 Hoyt CT, Domingo-Fernández D, Aldisi R, Xu L, Kolpeja K, Spalek S, Wollert E, Bachman J, Gyori BM, Greene P, Hofmann-Apitius M. Re-curation and rational enrichment of knowledge graphs in Biological Expression Language. Database : the Journal of Biological Databases and Curation. 2019. PMID 31225582 DOI: 10.1093/Database/Baz068  0.571
2019 Domingo-Fernández D, Mubeen S, Marín-Llaó J, Hoyt CT, Hofmann-Apitius M. PathMe: merging and exploring mechanistic pathway knowledge. Bmc Bioinformatics. 20: 243. PMID 31092193 DOI: 10.1186/S12859-019-2863-9  0.601
2019 Domingo-Fernández D, Hoyt CT, Bobis-Álvarez C, Marín-Llaó J, Hofmann-Apitius M. Erratum: Publisher Correction: ComPath: an ecosystem for exploring, analyzing, and curating mappings across pathway databases. Npj Systems Biology and Applications. 5: 10. PMID 30854225 DOI: 10.1038/s41540-019-0082-7  0.49
2019 Ali M, Hoyt CT, Domingo-Fernández D, Lehmann J, Jabeen H. BioKEEN: A library for learning and evaluating biological knowledge graph embeddings. Bioinformatics (Oxford, England). PMID 30768158 DOI: 10.1093/Bioinformatics/Btz117  0.359
2019 Domingo-Fernández D, Hoyt CT, Bobis-Álvarez C, Marín-Llaó J, Hofmann-Apitius M.. ComPath: an ecosystem for exploring, analyzing, and curating mappings across pathway databases. Npj Syst Biol Appl.. PMID 30564458 DOI: 10.1038/s41540-018-0078-8  0.548
2018 Hoyt CT, Domingo-Fernández D, Hofmann-Apitius M.. BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database. PMID 30576488 DOI: 10.1093/Database/Bay126  0.588
2018 Gündel M, Hoyt CT, Hofmann-Apitius M.. BEL2ABM: agent-based simulation of static models in Biological Expression Language. Bioinformatics. 34: 2316-2318. PMID 29949955 DOI: 10.1093/Bioinformatics/Bty107  0.555
2018 Hoyt CT, Domingo-Fernández D, Balzer N, Güldenpfennig A, Hofmann-Apitius M.. A systematic approach for identifying shared mechanisms in epilepsy and its comorbidities. Database. PMID 29873705 DOI: 10.1093/Database/Bay050  0.576
2018 Hoyt CT, Konotopez A, Ebeling C, Wren J. PyBEL: a computational framework for Biological Expression Language. Bioinformatics (Oxford, England). 34: 703-704. PMID 29048466 DOI: 10.1093/Bioinformatics/Btx660  0.355
2014 Amata E, Bland ND, Hoyt CT, Settimo L, Campbell RK, Pollastri MP. Repurposing human PDE4 inhibitors for neglected tropical diseases: design, synthesis and evaluation of cilomilast analogues as Trypanosoma brucei PDEB1 inhibitors. Bioorganic & Medicinal Chemistry Letters. 24: 4084-9. PMID 25127163 DOI: 10.1016/J.Bmcl.2014.07.063  0.66
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