Evidence map›Paper›PMID 27739051›Full record

ReviewAdvances in experimental medicine and biology2016

Progress Towards Computational 3-D Multicellular Systems Biology.

Paul Macklin, Hermann B Frieboes, Jessica L Sparks, Ahmadreza Ghaffarizadeh, Samuel H Friedman, Edwin F Juarez, Edmond Jonckheere, Shannon M Mumenthaler

Abstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Advances in experimental medicine and biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed.

  1. Review
  2. Spatially structured models of viral dynamics: a scoping review.Microbiology and molecular biology reviews : MMBR · 2025
    Article
  3. Article
  4. Review
  5. SupportingPRIMUS : problems, resources, and issues in mathematics undergraduate studies · 2022
    Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Review
  12. Article
  13. Mathematical models of dorsal closure.Progress in biophysics and molecular biology · 2018
    Review
  14. Article
  15. Article
  16. Article
  17. A Review of Advances in Mitochondrial Research in Cancer.Cancer control : journal of the Moffitt Cancer Center
    Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Paul MacklinLawrence J. Ellison Institute for Transformative Medicine, University of Southern California, Los Angeles, CA, USA. Paul.Macklin@MathCancer.org.
Hermann B FrieboesDepartment of Bioengineering, University of Louisville, Louisville, KY, USA.
Jessica L SparksDepartment of Chemical, Paper, and Biomedical Engineering, Miami University, Oxford, OH, USA.
Ahmadreza GhaffarizadehLawrence J. Ellison Institute for Transformative Medicine, University of Southern California, Los Angeles, CA, USA.
Samuel H FriedmanLawrence J. Ellison Institute for Transformative Medicine, University of Southern California, Los Angeles, CA, USA.
Edwin F JuarezLawrence J. Ellison Institute for Transformative Medicine, University of Southern California, Los Angeles, CA, USA.
Edmond JonckheereDepartment of Electrical Engineering, University of Southern California, Los Angeles, CA, USA.
Shannon M MumenthalerLawrence J. Ellison Institute for Transformative Medicine, University of Southern California, Los Angeles, CA, USA.

Funding

TRANS-NETWORK PROJECTSU54CA143907 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI HILLIS, WILLIAM DANIEL · 2009 to 2013
$15.2M
(PQB6)An Integrative Computational and Bioengineered Tissue Model of MetastasisR01CA180149 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI AGUS, DAVID B, ATALA, ANTHONY · 2013 to 2016
$2.3M
NCI NIH HHS R01 CA180149NCI NIH HHS U54 CA143907
6 · The paper itself

Abstract

Tumors cannot be understood in isolation from their microenvironment. Tumor and stromal cells change phenotype based upon biochemical and biophysical inputs from their surroundings, even as they interact with and remodel the microenvironment. Cancer should be investigated as an adaptive, multicellular system in a dynamical microenvironment. Computational modeling offers the potential to detangle this complex system, but the modeling platform must ideally account for tumor heterogeneity, substrate and signaling factor biotransport, cell and tissue biophysics, tissue and vascular remodeling, microvascular and interstitial flow, and links between all these sub-systems. Such a platform should leverage high-throughput experimental data, while using open data standards for reproducibility. In this chapter, we review advances by our groups in these key areas, particularly in advanced models of tissue mechanics and interstitial flow, open source simulation software, high-throughput phenotypic screening, and multicellular data standards. In the future, we expect a transformation of computational cancer biology from individual groups modeling isolated parts of cancer, to coalitions of groups combining compatible tools to simulate the 3-D multicellular systems biology of cancer tissues.

Indexed as

Models, BiologicalVascular RemodelingComputer SimulationEndothelial CellsExtracellular FluidHemodynamicsHumansImaging, Three-DimensionalNeoplasmsNeovascularization, PathologicReproducibility of ResultsSoftwareSystems BiologyTumor MicroenvironmentCancer microenvironmentComputational modelingMulticellular systems biologyTissue engineering

Identifiers

PMID27739051
PMCPMC6590068

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.