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Progress toward a universal biomedical data translator.
Fecho K, Thessen AE, Baranzini SE, Bizon C, Hadlock JJ, Huang S, Roper RT, Southall N, Ta C, Watkins PB, Williams MD, Xu H, Byrd W, Dančík V, Duby MP, Dumontier M, Glusman G, Harris NL, Hinderer EW, Hyde G, Johs A, Su AI, Qin G, Zhu Q; Biomedical Data Translator Consortium. Fecho K, et al. Among authors: huang s. Clin Transl Sci. 2022 May 25;15(8):1838-47. doi: 10.1111/cts.13301. Online ahead of print. Clin Transl Sci. 2022. PMID: 35611543 Free PMC article. Review.
Taking Systems Medicine to Heart.
Trachana K, Bargaje R, Glusman G, Price ND, Huang S, Hood LE. Trachana K, et al. Among authors: huang s. Circ Res. 2018 Apr 27;122(9):1276-1289. doi: 10.1161/CIRCRESAHA.117.310999. Circ Res. 2018. PMID: 29700072 Free PMC article. Review.
A biomedical open knowledge network harnesses the power of AI to understand deep human biology.
Baranzini SE, Börner K, Morris J, Nelson CA, Soman K, Schleimer E, Keiser M, Musen M, Pearce R, Reza T, Smith B, Herr BW 2nd, Oskotsky B, Rizk-Jackson A, Rankin KP, Sanders SJ, Bove R, Rose PW, Israni S, Huang S. Baranzini SE, et al. Among authors: huang s. AI Mag. 2022 Spring;43(1):46-58. doi: 10.1002/aaai.12037. Epub 2022 Mar 31. AI Mag. 2022. PMID: 36093122 Free PMC article.
Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science.
Unni DR, Moxon SAT, Bada M, Brush M, Bruskiewich R, Caufield JH, Clemons PA, Dancik V, Dumontier M, Fecho K, Glusman G, Hadlock JJ, Harris NL, Joshi A, Putman T, Qin G, Ramsey SA, Shefchek KA, Solbrig H, Soman K, Thessen AE, Haendel MA, Bizon C, Mungall CJ; Biomedical Data Translator Consortium. Unni DR, et al. Clin Transl Sci. 2022 Aug;15(8):1848-1855. doi: 10.1111/cts.13302. Epub 2022 Jun 6. Clin Transl Sci. 2022. PMID: 36125173 Free PMC article. Review.
An approach for collaborative development of a federated biomedical knowledge graph-based question-answering system: Question-of-the-Month challenges.
Fecho K, Bizon C, Issabekova T, Moxon S, Thessen AE, Abdollahi S, Baranzini SE, Belhu B, Byrd WE, Chung L, Crouse A, Duby MP, Ferguson S, Foksinska A, Forero L, Friedman J, Gardner V, Glusman G, Hadlock J, Hanspers K, Hinderer E, Hobbs C, Hyde G, Huang S, Koslicki D, Mease P, Muller S, Mungall CJ, Ramsey SA, Roach J, Rubin I, Schurman SH, Shalev A, Smith B, Soman K, Stemann S, Su AI, Ta C, Watkins PB, Williams MD, Wu C, Xu CH; Biomedical Data Translator Consortium. Fecho K, et al. Among authors: huang s. J Clin Transl Sci. 2023 Sep 14;7(1):e214. doi: 10.1017/cts.2023.619. eCollection 2023. J Clin Transl Sci. 2023. PMID: 37900350 Free PMC article.
Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19.
Su Y, Chen D, Yuan D, Lausted C, Choi J, Dai CL, Voillet V, Duvvuri VR, Scherler K, Troisch P, Baloni P, Qin G, Smith B, Kornilov SA, Rostomily C, Xu A, Li J, Dong S, Rothchild A, Zhou J, Murray K, Edmark R, Hong S, Heath JE, Earls J, Zhang R, Xie J, Li S, Roper R, Jones L, Zhou Y, Rowen L, Liu R, Mackay S, O'Mahony DS, Dale CR, Wallick JA, Algren HA, Zager MA; ISB-Swedish COVID19 Biobanking Unit; Wei W, Price ND, Huang S, Subramanian N, Wang K, Magis AT, Hadlock JJ, Hood L, Aderem A, Bluestone JA, Lanier LL, Greenberg PD, Gottardo R, Davis MM, Goldman JD, Heath JR. Su Y, et al. Among authors: huang s. Cell. 2020 Dec 10;183(6):1479-1495.e20. doi: 10.1016/j.cell.2020.10.037. Epub 2020 Oct 28. Cell. 2020. PMID: 33171100 Free PMC article. Clinical Trial.
Gene-pair expression signatures reveal lineage control.
Heinäniemi M, Nykter M, Kramer R, Wienecke-Baldacchino A, Sinkkonen L, Zhou JX, Kreisberg R, Kauffman SA, Huang S, Shmulevich I. Heinäniemi M, et al. Among authors: huang s. Nat Methods. 2013 Jun;10(6):577-83. doi: 10.1038/nmeth.2445. Epub 2013 Apr 21. Nat Methods. 2013. PMID: 23603899 Free PMC article.
Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.
Su Y, Chen D, Lausted C, Yuan D, Choi J, Dai C, Voillet V, Scherler K, Troisch P, Duvvuri VR, Baloni P, Qin G, Smith B, Kornilov S, Rostomily C, Xu A, Li J, Dong S, Rothchild A, Zhou J, Murray K, Edmark R, Hong S, Jones L, Zhou Y, Roper R, Mackay S, O'Mahony DS, Dale CR, Wallick JA, Algren HA, Michael ZA, Magis A, Wei W, Price ND, Huang S, Subramanian N, Wang K, Hadlock J, Hood L, Aderem A, Bluestone JA, Lanier LL, Greenberg P, Gottardo R, Davis MM, Goldman JD, Heath JR. Su Y, et al. Among authors: huang s. bioRxiv [Preprint]. 2020 Jul 31:2020.07.27.224063. doi: 10.1101/2020.07.27.224063. bioRxiv. 2020. PMID: 32766585 Free PMC article. Preprint.
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