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Articles published in PLoS Comput Biol

Retrieve available abstracts of 43 articles:
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Single Articles


    February 2021
  1. JAEGER KH, Wall S, Tveito A
    Computational prediction of drug response in short QT syndrome type 1 based on measurements of compound effect in stem cell-derived cardiomyocytes.
    PLoS Comput Biol. 2021;17:e1008089.
    PubMed     Abstract available


    January 2021
  2. MARTINEZ-GARCIA PM, Garcia-Torres M, Divina F, Terron-Bautista J, et al
    Genome-wide prediction of topoisomerase IIbeta binding by architectural factors and chromatin accessibility.
    PLoS Comput Biol. 2021;17:e1007814.
    PubMed     Abstract available


  3. LOUIE W, Shen MW, Tahiry Z, Zhang S, et al
    Machine learning based CRISPR gRNA design for therapeutic exon skipping.
    PLoS Comput Biol. 2021;17:e1008605.
    PubMed     Abstract available


  4. GIAMMONA J, Campas O
    Physical constraints on early blastomere packings.
    PLoS Comput Biol. 2021;17:e1007994.
    PubMed     Abstract available


    December 2020
  5. CARCAMO-ORIVE I, Henrion MYR, Zhu K, Beckmann ND, et al
    Predictive network modeling in human induced pluripotent stem cells identifies key driver genes for insulin responsiveness.
    PLoS Comput Biol. 2020;16:e1008491.
    PubMed     Abstract available


    October 2020
  6. LIU YYF, Lu Y, Oh S, Conduit GJ, et al
    Machine learning to predict mesenchymal stem cell efficacy for cartilage repair.
    PLoS Comput Biol. 2020;16:e1008275.
    PubMed     Abstract available


    September 2020
  7. TRAN TN, Bader GD
    Tempora: Cell trajectory inference using time-series single-cell RNA sequencing data.
    PLoS Comput Biol. 2020;16:e1008205.
    PubMed     Abstract available


  8. RAPHEL F, De Korte T, Lombardi D, Braam S, et al
    A greedy classifier optimization strategy to assess ion channel blocking activity and pro-arrhythmia in hiPSC-cardiomyocytes.
    PLoS Comput Biol. 2020;16:e1008203.
    PubMed     Abstract available


    August 2020
  9. KERNIK DC, Yang PC, Kurokawa J, Wu JC, et al
    A computational model of induced pluripotent stem-cell derived cardiomyocytes for high throughput risk stratification of KCNQ1 genetic variants.
    PLoS Comput Biol. 2020;16:e1008109.
    PubMed     Abstract available


    July 2020
  10. ZHENG X, Huang Y, Zou X
    scPADGRN: A preconditioned ADMM approach for reconstructing dynamic gene regulatory network using single-cell RNA sequencing data.
    PLoS Comput Biol. 2020;16:e1007471.
    PubMed     Abstract available


  11. WILSON JL, Lu D, Corr N, Fullerton A, et al
    An in vitro quantitative systems pharmacology approach for deconvolving mechanisms of drug-induced, multilineage cytopenias.
    PLoS Comput Biol. 2020;16:e1007620.
    PubMed     Abstract available


    April 2020
  12. VASCONCELOS E SA J, Simao D, Terrasso AP, Silva MM, et al
    Unveiling dynamic metabolic signatures in human induced pluripotent and neural stem cells.
    PLoS Comput Biol. 2020;16:e1007780.
    PubMed     Abstract available


  13. BUSTO-MONER L, Morival J, Ren H, Fahim A, et al
    Stochastic modeling reveals kinetic heterogeneity in post-replication DNA methylation.
    PLoS Comput Biol. 2020;16:e1007195.
    PubMed     Abstract available


    January 2020
  14. TAYLOR-KING JP, Riseth AN, Macnair W, Claassen M, et al
    Dynamic distribution decomposition for single-cell snapshot time series identifies subpopulations and trajectories during iPSC reprogramming.
    PLoS Comput Biol. 2020;16:e1007491.
    PubMed     Abstract available


    December 2019
  15. ZHANG H, Shao X, Peng Y, Teng Y, et al
    A novel machine learning based approach for iPS progenitor cell identification.
    PLoS Comput Biol. 2019;15:e1007351.
    PubMed     Abstract available


  16. BARRY C, Schmitz MT, Argus C, Bolin JM, et al
    Automated minute scale RNA-seq of pluripotent stem cell differentiation reveals early divergence of human and mouse gene expression kinetics.
    PLoS Comput Biol. 2019;15:e1007543.
    PubMed     Abstract available


    November 2019
  17. SHI J, Li T, Chen L, Aihara K, et al
    Quantifying pluripotency landscape of cell differentiation from scRNA-seq data by continuous birth-death process.
    PLoS Comput Biol. 2019;15:e1007488.
    PubMed     Abstract available


  18. VIJAYABASKAR MS, Goode DK, Obier N, Lichtinger M, et al
    Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells: An integrative approach using high-throughput datasets.
    PLoS Comput Biol. 2019;15:e1007337.
    PubMed     Abstract available


    July 2019
  19. ZHOU D, Luo Y, Dingli D, Traulsen A, et al
    The invasion of de-differentiating cancer cells into hierarchical tissues.
    PLoS Comput Biol. 2019;15:e1007167.
    PubMed     Abstract available


    May 2019
  20. SHARMA AK, Sormanni P, Ahmed N, Ciryam P, et al
    A chemical kinetic basis for measuring translation initiation and elongation rates from ribosome profiling data.
    PLoS Comput Biol. 2019;15:e1007070.
    PubMed     Abstract available


    April 2019
  21. PARK DS, Akuffo AA, Muench DE, Grimes HL, et al
    Clonal hematopoiesis of indeterminate potential and its impact on patient trajectories after stem cell transplantation.
    PLoS Comput Biol. 2019;15:e1006913.
    PubMed     Abstract available


    March 2019
  22. YE Y, Kang X, Bailey J, Li C, et al
    An enriched network motif family regulates multistep cell fate transitions with restricted reversibility.
    PLoS Comput Biol. 2019;15:e1006855.
    PubMed     Abstract available


  23. KHEIFETZ Y, Scholz M
    Modeling individual time courses of thrombopoiesis during multi-cyclic chemotherapy.
    PLoS Comput Biol. 2019;15:e1006775.
    PubMed     Abstract available


    January 2019
  24. OSTBLOM J, Nazareth EJP, Tewary M, Zandstra PW, et al
    Context-explorer: Analysis of spatially organized protein expression in high-throughput screens.
    PLoS Comput Biol. 2019;15:e1006384.
    PubMed     Abstract available


    November 2018
  25. CROOK OM, Mulvey CM, Kirk PDW, Lilley KS, et al
    A Bayesian mixture modelling approach for spatial proteomics.
    PLoS Comput Biol. 2018;14:e1006516.
    PubMed     Abstract available


    October 2018
  26. XU S, Kim S, Chen ISY, Chou T, et al
    Modeling large fluctuations of thousands of clones during hematopoiesis: The role of stem cell self-renewal and bursty progenitor dynamics in rhesus macaque.
    PLoS Comput Biol. 2018;14:e1006489.
    PubMed     Abstract available


    September 2018
  27. BRACKSTON RD, Lakatos E, Stumpf MPH
    Transition state characteristics during cell differentiation.
    PLoS Comput Biol. 2018;14:e1006405.
    PubMed     Abstract available


    August 2018
  28. TSE MJ, Chu BK, Gallivan CP, Read EL, et al
    Rare-event sampling of epigenetic landscapes and phenotype transitions.
    PLoS Comput Biol. 2018;14:e1006336.
    PubMed     Abstract available


    June 2018
  29. MON PERE N, Lenaerts T, Pacheco JM, Dingli D, et al
    Evolutionary dynamics of paroxysmal nocturnal hemoglobinuria.
    PLoS Comput Biol. 2018;14:e1006133.
    PubMed     Abstract available


    April 2018
  30. ZHANG H, Lee CAA, Li Z, Garbe JR, et al
    A multitask clustering approach for single-cell RNA-seq analysis in Recessive Dystrophic Epidermolysis Bullosa.
    PLoS Comput Biol. 2018;14:e1006053.
    PubMed     Abstract available


  31. SCHOTT B, Traub M, Schlagenhauf C, Takamiya M, et al
    EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos.
    PLoS Comput Biol. 2018;14:e1006128.
    PubMed     Abstract available


    March 2018
  32. DUFOUR A, Gontran E, Deroulers C, Varlet P, et al
    Modeling the dynamics of oligodendrocyte precursor cells and the genesis of gliomas.
    PLoS Comput Biol. 2018;14:e1005977.
    PubMed     Abstract available


  33. LUO Y, He J, Xu X, Sun MA, et al
    Integrative single-cell omics analyses reveal epigenetic heterogeneity in mouse embryonic stem cells.
    PLoS Comput Biol. 2018;14:e1006034.
    PubMed     Abstract available


    February 2018
  34. DU H, Wang Y, Haensel D, Lee B, et al
    Multiscale modeling of layer formation in epidermis.
    PLoS Comput Biol. 2018;14:e1006006.
    PubMed     Abstract available


  35. LIN YT, Hufton PG, Lee EJ, Potoyan DA, et al
    A stochastic and dynamical view of pluripotency in mouse embryonic stem cells.
    PLoS Comput Biol. 2018;14:e1006000.
    PubMed     Abstract available


  36. ALVARADO C, Fider NA, Wearing HJ, Komarova NL, et al
    Optimizing homeostatic cell renewal in hierarchical tissues.
    PLoS Comput Biol. 2018;14:e1005967.
    PubMed     Abstract available


  37. PALM MM, Elemans M, Beltman JB
    Heritable tumor cell division rate heterogeneity induces clonal dominance.
    PLoS Comput Biol. 2018;14:e1005954.
    PubMed     Abstract available


    January 2018
  38. NAZARI F, Pearson AT, Nor JE, Jackson TL, et al
    A mathematical model for IL-6-mediated, stem cell driven tumor growth and targeted treatment.
    PLoS Comput Biol. 2018;14:e1005920.
    PubMed     Abstract available


  39. KIMMEL JC, Chang AY, Brack AS, Marshall WF, et al
    Inferring cell state by quantitative motility analysis reveals a dynamic state system and broken detailed balance.
    PLoS Comput Biol. 2018;14:e1005927.
    PubMed     Abstract available


  40. DI MININ G, Postlmayr A, Wutz A
    HaSAPPy: A tool for candidate identification in pooled forward genetic screens of haploid mammalian cells.
    PLoS Comput Biol. 2018;14:e1005950.
    PubMed     Abstract available


    October 2017
  41. ASHCROFT P, Manz MG, Bonhoeffer S
    Clonal dominance and transplantation dynamics in hematopoietic stem cell compartments.
    PLoS Comput Biol. 2017;13:e1005803.
    PubMed     Abstract available


  42. KAKUMANU A, Velasco S, Mazzoni E, Mahony S, et al
    Deconvolving sequence features that discriminate between overlapping regulatory annotations.
    PLoS Comput Biol. 2017;13:e1005795.
    PubMed     Abstract available


    September 2017
  43. GREAVES RB, Dietmann S, Smith A, Stepney S, et al
    A conceptual and computational framework for modelling and understanding the non-equilibrium gene regulatory networks of mouse embryonic stem cells.
    PLoS Comput Biol. 2017;13:e1005713.
    PubMed     Abstract available


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