Data from: Only accessible information is useful: insights from gradient-mediated patterning
| Main Authors: | Tikhonov, Mikhail, Little, Shawn C., Gregor, Thomas |
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| Format: | info dataset Journal |
| Terbitan: |
, 2015
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| Subjects: | |
| Online Access: |
https://zenodo.org/record/4971435 |
Daftar Isi:
- Information theory is gaining popularity as a tool to characterise performance of biological systems. However, information is commonly quantified without reference to whether or how a system could extract and use it; as a result, information-theoretic quantities are easily misinterpreted. Here we take the example of pattern-forming developmental systems which are commonly structured as cascades of sequential gene expression steps. Such a multi-tiered structure appears to constitute sub-optimal use of the positional information provided by the input morphogen because noise is added at each tier. However, one must distinguish between the total information in a morphogen and information that can be usefully extracted and interpreted by downstream elements. We demonstrate that quantifying the information that is accessible to the system naturally explains the prevalence of multi-tiered network architectures as a consequence of the noise inherent to the control of gene expression. We support our argument with empirical observations from patterning along the major body axis of the fruit fly embryo. We use this example to highlight the limitations of the standard information-theoretic characterisation of biological signaling, which are frequently de-emphasized, and illustrate how they can be resolved.
- Data and scripts - Master fileThe raw imaging data (Leica SP5) and MatLab analysis scripts reproducing all data-dependent figures in the paper (Fig. 4 and Supplementary Figures S1, S2 and S3). Archive split into volumes to keep file size under 1Gb. Download all files, unzip, then run "RUN_ME.m" in Matlab to process the data and generate all the figures. Data acquired by Shawn C. Little, analysis scripts by Mikhail Tikhonov.data_and_scripts.zipData and scripts - Archive Volume 2Volume 2 of a split zip archivedata_and_scripts.z01Data and scripts - Archive Volume 3Volume 3 of a split zip archivedata_and_scripts.z02Data and scripts - Archive Volume 4Volume 4 of a split zip archivedata_and_scripts.z03