1. Predictive nonlinear modeling of malignant myelopoiesis and tyrosine kinase inhibitor therapy

    This article has 8 authors:
    1. Jonathan Rodriguez
    2. Abdon Iniguez
    3. Nilamani Jena
    4. Prasanthi Tata
    5. Zhong-Ying Liu
    6. Arthur D Lander
    7. John Lowengrub
    8. Richard A Van Etten
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This is an important study that investigates the impact of tyrosine kinase inhibitors (TKIs) in chronic myeloid leukemia. Through a combination of pre-clinical in vivo measurements, clinical data, and computational modeling, the authors present solid evidence regarding the heterogeneous effects of TKIs in patients and how the response to treatment may be improved. With the assumptions about differences between normal and leukemic cells addressed, this study would be of interest to those working in the fields of mathematical oncology and cancer biology.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  2. Missense variant interaction scanning reveals a critical role of the FERM domain for tumor suppressor protein NF2 conformation and function

    This article has 10 authors:
    1. Christina S Moesslacher
    2. Elisabeth Auernig
    3. Jonathan Woodsmith
    4. Andreas Feichtner
    5. Evelyne Jany-Luig
    6. Stefanie Jehle
    7. Josephine M Worseck
    8. Christian L Heine
    9. Eduard Stefan
    10. Ulrich Stelzl

    Reviewed by Review Commons

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  3. De Novo Multi-Omics Pathway Analysis Designed for Prior Data Independent Inference of Cell Signaling Pathways

    This article has 4 authors:
    1. Katri Vaparanta
    2. Johannes A.M. Merilahti
    3. Veera K. Ojala
    4. Klaus Elenius
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment:

      This manuscript describes development of a new algorithm for integrative analysis of multi-omics data. This work should be of potential interest to scientists performing bioinformatic pathway discovery in multi-omic datasets especially those that relate to signaling.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  4. ChemChaste: Simulating spatially inhomogeneous biochemical reaction–diffusion systems for modeling cell–environment feedbacks

    This article has 3 authors:
    1. Connah G M Johnson
    2. Alexander G Fletcher
    3. Orkun S Soyer

    Reviewed by GigaScience

    This article has 3 evaluationsAppears in 1 listLatest version Latest activity
  5. Dynamics of co-substrate pools can constrain and regulate metabolic fluxes

    This article has 5 authors:
    1. Robert West
    2. Hadrien Delattre
    3. Elad Noor
    4. Elisenda Feliu
    5. Orkun S Soyer
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This manuscript presents an important mathematical analysis on metabolic "co-substrates" and how their cycling can affect metabolic fluxes. Through mathematical analysis of simple network motifs, it shows the impact on constraining metabolic fluxes and the applied mathematical modeling/simulation approaches and the statistical analysis to compare predictions with data from previous studies offer convincing support for the potential biological relevance of co-substrate cycling. The work will be of interest to researchers who study microbial metabolism and metabolic engineering. However, part of this analysis remains unclear and would benefit from clarification.

    Reviewed by eLife

    This article has 5 evaluationsAppears in 1 listLatest version Latest activity
  6. Evolved bacterial resistance to the chemotherapy gemcitabine modulates its efficacy in co-cultured cancer cells

    This article has 8 authors:
    1. Serkan Sayin
    2. Brittany Rosener
    3. Carmen G Li
    4. Bao Ho
    5. Olga Ponomarova
    6. Doyle V Ward
    7. Albertha JM Walhout
    8. Amir Mitchell
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This fundamental work advances our understanding of how bacteria evolve to resist drugs used for cancer treatment and how this could potentially affect drug efficacy and treatment outcome. The data were collected and analyzed using a solid methodology and can be used as a starting point for functional studies of the interaction between microbiome interactions and cancer drug treatment. The findings will be of broad interest to microbiologists and organismal biologists interested in the role of microbiomes in drug responses.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  7. Evolutionary conservation of sequence motifs at sites of protein modification

    This article has 2 authors:
    1. Shuang Li
    2. Henrik G. Dohlman

    Reviewed by Review Commons

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
  8. PhysiPKPD: A pharmacokinetics and pharmacodynamics module for PhysiCell

    This article has 7 authors:
    1. Daniel Bergman
    2. Lauren Marazzi
    3. Mukti Chowkwale
    4. Deepa Maheshvare M
    5. Supriya Bidanta
    6. Tarunendu Mapder
    7. Jialun Li

    Reviewed by GigaByte

    This article has 1 evaluationAppears in 1 listLatest version Latest activity
  9. Transcription-replication interactions reveal principles of bacterial genome regulation

    This article has 10 authors:
    1. Andrew W. Pountain
    2. Peien Jiang
    3. Tianyou Yao
    4. Ehsan Homaee
    5. Yichao Guan
    6. Magdalena Podkowik
    7. Bo Shopsin
    8. Victor J. Torres
    9. Ido Golding
    10. Itai Yanai

    Reviewed by Arcadia Science

    This article has 1 evaluationAppears in 1 listLatest version Latest activity
  10. Proteome-wide systems genetics identifies UFMylation as a regulator of skeletal muscle function

    This article has 17 authors:
    1. Jeffrey Molendijk
    2. Ronnie Blazev
    3. Richard J Mills
    4. Yaan-Kit Ng
    5. Kevin I Watt
    6. Daryn Chau
    7. Paul Gregorevic
    8. Peter J Crouch
    9. James BW Hilton
    10. Leszek Lisowski
    11. Peixiang Zhang
    12. Karen Reue
    13. Aldons J Lusis
    14. James E Hudson
    15. David E James
    16. Marcus M Seldin
    17. Benjamin L Parker
    This article has been curated by 1 group:
    • Curated by eLife

      eLife assessment

      This manuscript will be of broad interest to those working in the genetics of complex diseases, with the results strongly supporting the author's primary claims. Overall, this is an important study that demonstrates the power of proteomics-based systems genetics studies in the mouse.

    Reviewed by eLife

    This article has 4 evaluationsAppears in 1 listLatest version Latest activity
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