---
res:
  bibo_abstract:
  - Across diverse biological systems—ranging from neural networks to intracellular
    signaling and genetic regulatory networks—the information about changes in the
    environment is frequently encoded in the full temporal dynamics of the network
    nodes. A pressing data-analysis challenge has thus been to efficiently estimate
    the amount of information that these dynamics convey from experimental data. Here
    we develop and evaluate decoding-based estimation methods to lower bound the mutual
    information about a finite set of inputs, encoded in single-cell high-dimensional
    time series data. For biological reaction networks governed by the chemical Master
    equation, we derive model-based information approximations and analytical upper
    bounds, against which we benchmark our proposed model-free decoding estimators.
    In contrast to the frequently-used k-nearest-neighbor estimator, decoding-based
    estimators robustly extract a large fraction of the available information from
    high-dimensional trajectories with a realistic number of data samples. We apply
    these estimators to previously published data on Erk and Ca2+ signaling in mammalian
    cells and to yeast stress-response, and find that substantial amount of information
    about environmental state can be encoded by non-trivial response statistics even
    in stationary signals. We argue that these single-cell, decoding-based information
    estimates, rather than the commonly-used tests for significant differences between
    selected population response statistics, provide a proper and unbiased measure
    for the performance of biological signaling networks.@eng
  bibo_authorlist:
  - foaf_Person:
      foaf_givenName: Sarah A
      foaf_name: Cepeda Humerez, Sarah A
      foaf_surname: Cepeda Humerez
      foaf_workInfoHomepage: http://www.librecat.org/personId=3DEE19A4-F248-11E8-B48F-1D18A9856A87
  - foaf_Person:
      foaf_givenName: Jakob
      foaf_name: Ruess, Jakob
      foaf_surname: Ruess
    orcid: 0000-0003-1615-3282
  - foaf_Person:
      foaf_givenName: Gašper
      foaf_name: Tkačik, Gašper
      foaf_surname: Tkačik
      foaf_workInfoHomepage: http://www.librecat.org/personId=3D494DCA-F248-11E8-B48F-1D18A9856A87
    orcid: 0000-0002-6699-1455
  bibo_doi: 10.1371/journal.pcbi.1007290
  bibo_issue: '9'
  bibo_volume: 15
  dct_date: 2019^xs_gYear
  dct_identifier:
  - UT:000489741800021
  dct_isPartOf:
  - http://id.crossref.org/issn/15537358
  dct_language: eng
  dct_publisher: Public Library of Science@
  dct_title: Estimating information in time-varying signals@
  fabio_hasPubmedId: '31479447'
...