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BioSimulators: a central registry of simulation engines and services for recommending specific tools.
Shaikh B, Smith LP, Vasilescu D, Marupilla G, Wilson M, Agmon E, Agnew H, Andrews SS, Anwar A, Beber ME, Bergmann FT, Brooks D, Brusch L, Calzone L, Choi K, Cooper J, Detloff J, Drawert B, Dumontier M, Ermentrout GB, Faeder JR, Freiburger AP, Fröhlich F, Funahashi A, Garny A, Gennari JH, Gleeson P, Goelzer A, Haiman Z, Hasenauer J, Hellerstein JL, Hermjakob H, Hoops S, Ison JC, Jahn D, Jakubowski HV, Jordan R, Kalaš M, König M, Liebermeister W, Sheriff RSM, Mandal S, McDougal R, Medley JK, Mendes P, Müller R, Myers CJ, Naldi A, Nguyen TVN, Nickerson DP, Olivier BG, Patoliya D, Paulevé L, Petzold LR, Priya A, Rampadarath AK, Rohwer JM, Saglam AS, Singh D, Sinha A, Snoep J, Sorby H, Spangler R, Starruß J, Thomas PJ, van Niekerk D, Weindl D, Zhang F, Zhukova A, Goldberg AP, Schaff JC, Blinov ML, Sauro HM, Moraru II, Karr JR. Shaikh B, et al. Among authors: spangler r. Nucleic Acids Res. 2022 Jul 5;50(W1):W108-W114. doi: 10.1093/nar/gkac331. Nucleic Acids Res. 2022. PMID: 35524558 Free PMC article.
Simultaneous cross-evaluation of heterogeneous E. coli datasets via mechanistic simulation.
Macklin DN, Ahn-Horst TA, Choi H, Ruggero NA, Carrera J, Mason JC, Sun G, Agmon E, DeFelice MM, Maayan I, Lane K, Spangler RK, Gillies TE, Paull ML, Akhter S, Bray SR, Weaver DS, Keseler IM, Karp PD, Morrison JH, Covert MW. Macklin DN, et al. Among authors: spangler rk. Science. 2020 Jul 24;369(6502):eaav3751. doi: 10.1126/science.aav3751. Science. 2020. PMID: 32703847 Free PMC article.
Exploring Integrative Analysis Using the BioMedical Evidence Graph.
Struck A, Walsh B, Buchanan A, Lee JA, Spangler R, Stuart JM, Ellrott K. Struck A, et al. Among authors: spangler r. JCO Clin Cancer Inform. 2020 Feb;4:147-159. doi: 10.1200/CCI.19.00110. JCO Clin Cancer Inform. 2020. PMID: 32097025 Free PMC article.
A community challenge to evaluate RNA-seq, fusion detection, and isoform quantification methods for cancer discovery.
Creason A, Haan D, Dang K, Chiotti KE, Inkman M, Lamb A, Yu T, Hu Y, Norman TC, Buchanan A, van Baren MJ, Spangler R, Rollins MR, Spellman PT, Rozanov D, Zhang J, Maher CA, Caloian C, Watson JD, Uhrig S, Haas BJ, Jain M, Akeson M, Ahsen ME; SMC-RNA Challenge Participants; Stolovitzky G, Guinney J, Boutros PC, Stuart JM, Ellrott K. Creason A, et al. Among authors: spangler r. Cell Syst. 2021 Aug 18;12(8):827-838.e5. doi: 10.1016/j.cels.2021.05.021. Epub 2021 Jun 18. Cell Syst. 2021. PMID: 34146471 Free PMC article.
Purification and biological characterization of an adenovirus type 2 E1A protein expressed in Escherichia coli.
Bruner M, Dalie B, Spangler R, Harter ML. Bruner M, et al. Among authors: spangler r. J Biol Chem. 1988 Mar 15;263(8):3984-9. J Biol Chem. 1988. PMID: 2964445 Free article.
The E1A so purified is biologically active, stimulating cellular DNA synthesis following microinjection into quiescent NIH 3T3 and REF52 cells. In another report (Spangler, R., Bruner, M., Dalie, B., and Harter, M. L. (1987) Science 237, 1044-1046) we have also show …
The E1A so purified is biologically active, stimulating cellular DNA synthesis following microinjection into quiescent NIH 3T3 and REF52 cel …
A conserved chronobiological complex times C. elegans development.
Spangler RK, Ashley GE, Braun K, Wruck D, Ramos-Coronado A, Ragle JM, Iesmantavicius V, Hess D, Partch CL, Großhans H, Ward JD. Spangler RK, et al. bioRxiv [Preprint]. 2024 May 9:2024.05.09.593322. doi: 10.1101/2024.05.09.593322. bioRxiv. 2024. PMID: 38766223 Free PMC article. Preprint.
131 results