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Articles published in
PLoS Comput Biol
    June 2022
  1. JANSEN JE, Aschenbrenner D, Uhlig HH, Coles MC, et al
    A method for the inference of cytokine interaction networks.
    PLoS Comput Biol. 2022;18:e1010112.
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    April 2022
  2. LEE D, Wang D, Yang XR, Shi J, et al
    SUITOR: Selecting the number of mutational signatures through cross-validation.
    PLoS Comput Biol. 2022;18:e1009309.
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    March 2022
  3. HOWARD GR, Jost TA, Yankeelov TE, Brock A, et al
    Quantification of long-term doxorubicin response dynamics in breast cancer cell lines to direct treatment schedules.
    PLoS Comput Biol. 2022;18:e1009104.
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  4. JEUKEN GS, Tobin NP, Kall L
    Survival analysis of pathway activity as a prognostic determinant in breast cancer.
    PLoS Comput Biol. 2022;18:e1010020.
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  5. MOHAMMAD MIRZAEI N, Changizi N, Asadpoure A, Su S, et al
    Investigating key cell types and molecules dynamics in PyMT mice model of breast cancer through a mathematical model.
    PLoS Comput Biol. 2022;18:e1009953.
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  6. YAO K, Schaafsma E, Zhang B, Cheng C, et al
    Tumor cell intrinsic and extrinsic features predict prognosis in estrogen receptor positive breast cancer.
    PLoS Comput Biol. 2022;18:e1009495.
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    February 2022
  7. DI FILIPPO M, Pescini D, Galuzzi BG, Bonanomi M, et al
    INTEGRATE: Model-based multi-omics data integration to characterize multi-level metabolic regulation.
    PLoS Comput Biol. 2022;18:e1009337.
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    November 2021
  8. LIMA EABF, Faghihi D, Philley R, Yang J, et al
    Bayesian calibration of a stochastic, multiscale agent-based model for predicting in vitro tumor growth.
    PLoS Comput Biol. 2021;17:e1008845.
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  9. MADSSEN TS, Giskeodegard GF, Smilde AK, Westerhuis JA, et al
    Repeated measures ASCA+ for analysis of longitudinal intervention studies with multivariate outcome data.
    PLoS Comput Biol. 2021;17:e1009585.
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    September 2021
  10. LEE HG, Lee KJ
    Neighbor-enhanced diffusivity in dense, cohesive cell populations.
    PLoS Comput Biol. 2021;17:e1009447.
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  11. TRINCADO JL, Reixachs-Sole M, Perez-Granado J, Fugmann T, et al
    ISOTOPE: ISOform-guided prediction of epiTOPEs in cancer.
    PLoS Comput Biol. 2021;17:e1009411.
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  12. GRANDE GUTIERREZ N, Alber M, Kahn AM, Burns JC, et al
    Computational modeling of blood component transport related to coronary artery thrombosis in Kawasaki disease.
    PLoS Comput Biol. 2021;17:e1009331.
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    July 2021
  13. ROZOVA VS, Anwer AG, Guller AE, Es HA, et al
    Machine learning reveals mesenchymal breast carcinoma cell adaptation in response to matrix stiffness.
    PLoS Comput Biol. 2021;17:e1009193.
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  14. ZHU K, Cai L, Cui C, de Los Toyos JR, et al
    Single-cell analysis reveals the pan-cancer invasiveness-associated transition of adipose-derived stromal cells into COL11A1-expressing cancer-associated fibroblasts.
    PLoS Comput Biol. 2021;17:e1009228.
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    June 2021
  15. ERDEM C, Lee AV, Taylor DL, Lezon TR, et al
    Inhibition of RPS6K reveals context-dependent Akt activity in luminal breast cancer cells.
    PLoS Comput Biol. 2021;17:e1009125.
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  16. TRENTHAM-DIETZ A, Alagoz O, Chapman C, Huang X, et al
    Reflecting on 20 years of breast cancer modeling in CISNET: Recommendations for future cancer systems modeling efforts.
    PLoS Comput Biol. 2021;17:e1009020.
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  17. HELLSTERN M, Ma J, Yue K, Shojaie A, et al
    netgsa: Fast computation and interactive visualization for topology-based pathway enrichment analysis.
    PLoS Comput Biol. 2021;17:e1008979.
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  18. LAL A, Liu K, Tibshirani R, Sidow A, et al
    De novo mutational signature discovery in tumor genomes using SparseSignatures.
    PLoS Comput Biol. 2021;17:e1009119.
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  19. DEUTSCH A, Nava-Sedeno JM, Syga S, Hatzikirou H, et al
    BIO-LGCA: A cellular automaton modelling class for analysing collective cell migration.
    PLoS Comput Biol. 2021;17:e1009066.
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    March 2021
  20. CLIMENTE-GONZALEZ H, Lonjou C, Lesueur F, Stoppa-Lyonnet D, et al
    Boosting GWAS using biological networks: A study on susceptibility to familial breast cancer.
    PLoS Comput Biol. 2021;17:e1008819.
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    February 2021
  21. BEN-ELAZAR S, Aure MR, Jonsdottir K, Leivonen SK, et al
    miRNA normalization enables joint analysis of several datasets to increase sensitivity and to reveal novel miRNAs differentially expressed in breast cancer.
    PLoS Comput Biol. 2021;17:e1008608.
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  22. SUSAK H, Serra-Saurina L, Demidov G, Rabionet R, et al
    Efficient and flexible Integration of variant characteristics in rare variant association studies using integrated nested Laplace approximation.
    PLoS Comput Biol. 2021;17:e1007784.
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  23. SCHNECKENREITHER G, Tschandl P, Rippinger C, Sinz C, et al
    Reproduction of patterns in melanocytic proliferations by agent-based simulation and geometric modeling.
    PLoS Comput Biol. 2021;17:e1008660.
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    January 2021
  24. GORDIN M, Philip H, Zilberberg A, Gidoni M, et al
    Breast cancer is marked by specific, Public T-cell receptor CDR3 regions shared by mice and humans.
    PLoS Comput Biol. 2021;17:e1008486.
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    December 2020
  25. PULKKINEN OI, Gautam P, Mustonen V, Aittokallio T, et al
    Multiobjective optimization identifies cancer-selective combination therapies.
    PLoS Comput Biol. 2020;16:e1008538.
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    November 2020
  26. SETHI R, Becker J, Graaf J, Lower M, et al
    Integrative analysis of structural variations using short-reads and linked-reads yields highly specific and sensitive predictions.
    PLoS Comput Biol. 2020;16:e1008397.
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    October 2020
  27. LYDEAMORE MJ, Campbell PT, Price DJ, Wu Y, et al
    Estimation of the force of infection and infectious period of skin sores in remote Australian communities using interval-censored data.
    PLoS Comput Biol. 2020;16:e1007838.
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    September 2020
  28. VAN DER KLOET FM, Buurmans J, Jonker MJ, Smilde AK, et al
    Increased comparability between RNA-Seq and microarray data by utilization of gene sets.
    PLoS Comput Biol. 2020;16:e1008295.
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    August 2020
  29. LI X, Liu L, Goodall GJ, Schreiber A, et al
    A novel single-cell based method for breast cancer prognosis.
    PLoS Comput Biol. 2020;16:e1008133.
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