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Song Feng, Ph. D. - Publications

Affiliations: 
2013-2016 School of Life Sciences University of Warwick, Coventry, England, United Kingdom 
 2016-2019 Center for Nonlinear Studies Los Alamos National Laboratory, Los Alamos, NM, United States 
 2019- Biological Science Division Pacific Northwest National Laboratory, Richland, WA, United States 
Area:
Systems Biology, Evolution, Multiscale Modeling, Machine Learning
Website:
http://fengsong.github.io
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15 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 Kochen MA, Wiley HS, Feng S, Sauro HM. SBbadger: Biochemical Reaction Networks with Definable Degree Distributions. Bioinformatics (Oxford, England). PMID 36111865 DOI: 10.1093/bioinformatics/btac630  0.422
2022 Woo J, Clair GC, Williams SM, Feng S, Tsai CF, Moore RJ, Chrisler WB, Smith RD, Kelly RT, Paša-Tolić L, Ansong C, Zhu Y. Three-dimensional feature matching improves coverage for single-cell proteomics based on ion mobility filtering. Cell Systems. PMID 35298923 DOI: 10.1016/j.cels.2022.02.003  0.256
2021 Clair G, Bramer LM, Misra R, McGraw MD, Bhattacharya S, Kitzmiller JA, Feng S, Danna VG, Bandyopadhyay G, Bhotika H, Huyck HL, Deutsch GH, Mariani TJ, Carson J, Whitsett JA, et al. Proteomic Analysis of Human Lung Development. American Journal of Respiratory and Critical Care Medicine. PMID 34752721 DOI: 10.1164/rccm.202008-3303OC  0.216
2021 Woo J, Williams SM, Markillie LM, Feng S, Tsai CF, Aguilera-Vazquez V, Sontag RL, Moore RJ, Hu D, Mehta HS, Cantlon-Bruce J, Liu T, Adkins JN, Smith RD, Clair GC, et al. High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip. Nature Communications. 12: 6246. PMID 34716329 DOI: 10.1038/s41467-021-26514-2  0.262
2021 Li X, Day NJ, Feng S, Gaffrey MJ, Lin TD, Paurus VL, Monroe ME, Moore RJ, Yang B, Xian M, Qian WJ. Mass spectrometry-based direct detection of multiple types of protein thiol modifications in pancreatic beta cells under endoplasmic reticulum stress. Redox Biology. 46: 102111. PMID 34425387 DOI: 10.1016/j.redox.2021.102111  0.288
2021 Feng S, Heath E, Jefferson B, Joslyn C, Kvinge H, Mitchell HD, Praggastis B, Eisfeld AJ, Sims AC, Thackray LB, Fan S, Walters KB, Halfmann PJ, Westhoff-Smith D, Tan Q, et al. Hypergraph models of biological networks to identify genes critical to pathogenic viral response. Bmc Bioinformatics. 22: 287. PMID 34051754 DOI: 10.1186/s12859-021-04197-2  0.382
2019 Lin YT, Feng S, Hlavacek WS. Scaling methods for accelerating kinetic Monte Carlo simulations of chemical reaction networks. The Journal of Chemical Physics. 150: 244101. PMID 31255063 DOI: 10.1063/1.5096774  0.567
2019 Feng S, Soyer OS. In Silico Evolution of Signaling Networks Using Rule-Based Models: Bistable Response Dynamics. Methods in Molecular Biology (Clifton, N.J.). 1945: 315-339. PMID 30945254 DOI: 10.1007/978-1-4939-9102-0_15  0.675
2019 Shirin A, Klickstein IS, Feng S, Lin YT, Hlavacek WS, Sorrentino F. Prediction of Optimal Drug Schedules for Controlling Autophagy. Scientific Reports. 9: 1428. PMID 30723233 DOI: 10.1038/S41598-019-38763-9  0.572
2018 Suderman R, Mitra ED, Lin YT, Erickson KE, Feng S, Hlavacek WS. Generalizing Gillespie's Direct Method to Enable Network-Free Simulations. Bulletin of Mathematical Biology. PMID 29594824 DOI: 10.1007/S11538-018-0418-2  0.641
2018 Jiang X, Zerfaß C, Feng S, Eichmann R, Asally M, Schäfer P, Soyer OS. Impact of spatial organization on a novel auxotrophic interaction among soil microbes. The Isme Journal. PMID 29572468 DOI: 10.1038/S41396-018-0095-Z  0.599
2017 Cavaliere M, Feng S, Soyer O, Jimenez JI. Cooperation in microbial communities and their biotechnological applications. Environmental Microbiology. PMID 28447371 DOI: 10.1111/1462-2920.13767  0.61
2016 Feng S, Sáez M, Wiuf C, Feliu E, Soyer OS. Core signalling motif displaying multistability through multi-state enzymes. Journal of the Royal Society, Interface. 13. PMID 27733693 DOI: 10.1098/Rsif.2016.0524  0.611
2016 Feng S, Ollivier JF, Soyer OS. Enzyme Sequestration as a Tuning Point in Controlling Response Dynamics of Signalling Networks. Plos Computational Biology. 12: e1004918. PMID 27163612 DOI: 10.1371/Journal.Pcbi.1004918  0.665
2015 Feng S, Ollivier JF, Swain PS, Soyer OS. BioJazz: in silico evolution of cellular networks with unbounded complexity using rule-based modeling. Nucleic Acids Research. PMID 26101250 DOI: 10.1093/Nar/Gkv595  0.665
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