---
_id: '3374'
abstract:
- lang: eng
text: Genetic regulatory networks enable cells to respond to changes in internal
and external conditions by dynamically coordinating their gene expression profiles.
Our ability to make quantitative measurements in these biochemical circuits has
deepened our understanding of what kinds of computations genetic regulatory networks
can perform, and with what reliability. These advances have motivated researchers
to look for connections between the architecture and function of genetic regulatory
networks. Transmitting information between a network's inputs and outputs has
been proposed as one such possible measure of function, relevant in certain biological
contexts. Here we summarize recent developments in the application of information
theory to gene regulatory networks. We first review basic concepts in information
theory necessary for understanding recent work. We then discuss the functional
complexity of gene regulation, which arises from the molecular nature of the regulatory
interactions. We end by reviewing some experiments that support the view that
genetic networks responsible for early development of multicellular organisms
might be maximizing transmitted 'positional information'.
article_number: '153102'
author:
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Aleksandra
full_name: Walczak, Aleksandra
last_name: Walczak
citation:
ama: 'Tkačik G, Walczak A. Information transmission in genetic regulatory networks
a review. Journal of Physics: Condensed Matter. 2011;23(15). doi:10.1088/0953-8984/23/15/153102'
apa: 'Tkačik, G., & Walczak, A. (2011). Information transmission in genetic
regulatory networks a review. Journal of Physics: Condensed Matter. IOP
Publishing Ltd. https://doi.org/10.1088/0953-8984/23/15/153102'
chicago: 'Tkačik, Gašper, and Aleksandra Walczak. “Information Transmission in Genetic
Regulatory Networks a Review.” Journal of Physics: Condensed Matter. IOP
Publishing Ltd., 2011. https://doi.org/10.1088/0953-8984/23/15/153102.'
ieee: 'G. Tkačik and A. Walczak, “Information transmission in genetic regulatory
networks a review,” Journal of Physics: Condensed Matter, vol. 23, no.
15. IOP Publishing Ltd., 2011.'
ista: 'Tkačik G, Walczak A. 2011. Information transmission in genetic regulatory
networks a review. Journal of Physics: Condensed Matter. 23(15), 153102.'
mla: 'Tkačik, Gašper, and Aleksandra Walczak. “Information Transmission in Genetic
Regulatory Networks a Review.” Journal of Physics: Condensed Matter, vol.
23, no. 15, 153102, IOP Publishing Ltd., 2011, doi:10.1088/0953-8984/23/15/153102.'
short: 'G. Tkačik, A. Walczak, Journal of Physics: Condensed Matter 23 (2011).'
date_created: 2018-12-11T12:02:58Z
date_published: 2011-04-01T00:00:00Z
date_updated: 2021-01-12T07:43:03Z
day: '01'
department:
- _id: GaTk
doi: 10.1088/0953-8984/23/15/153102
intvolume: ' 23'
issue: '15'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1101.4240
month: '04'
oa: 1
oa_version: Submitted Version
publication: 'Journal of Physics: Condensed Matter'
publication_status: published
publisher: IOP Publishing Ltd.
publist_id: '3233'
quality_controlled: '1'
scopus_import: 1
status: public
title: Information transmission in genetic regulatory networks a review
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 23
year: '2011'
...
---
_id: '3384'
abstract:
- lang: eng
text: Here we introduce a database of calibrated natural images publicly available
through an easy-to-use web interface. Using a Nikon D70 digital SLR camera, we
acquired about six-megapixel images of Okavango Delta of Botswana, a tropical
savanna habitat similar to where the human eye is thought to have evolved. Some
sequences of images were captured unsystematically while following a baboon troop,
while others were designed to vary a single parameter such as aperture, object
distance, time of day or position on the horizon. Images are available in the
raw RGB format and in grayscale. Images are also available in units relevant to
the physiology of human cone photoreceptors, where pixel values represent the
expected number of photoisomerizations per second for cones sensitive to long
(L), medium (M) and short (S) wavelengths. This database is distributed under
a Creative Commons Attribution-Noncommercial Unported license to facilitate research
in computer vision, psychophysics of perception, and visual neuroscience.
article_number: e20409
author:
- first_name: Gasper
full_name: Tkacik, Gasper
id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
last_name: Tkacik
orcid: 0000-0002-6699-1455
- first_name: Patrick
full_name: Garrigan, Patrick
last_name: Garrigan
- first_name: Charles
full_name: Ratliff, Charles
last_name: Ratliff
- first_name: Grega
full_name: Milcinski, Grega
last_name: Milcinski
- first_name: Jennifer
full_name: Klein, Jennifer
last_name: Klein
- first_name: Lucia
full_name: Seyfarth, Lucia
last_name: Seyfarth
- first_name: Peter
full_name: Sterling, Peter
last_name: Sterling
- first_name: David
full_name: Brainard, David
last_name: Brainard
- first_name: Vijay
full_name: Balasubramanian, Vijay
last_name: Balasubramanian
citation:
ama: Tkačik G, Garrigan P, Ratliff C, et al. Natural images from the birthplace
of the human eye. PLoS One. 2011;6(6). doi:10.1371/journal.pone.0020409
apa: Tkačik, G., Garrigan, P., Ratliff, C., Milcinski, G., Klein, J., Seyfarth,
L., … Balasubramanian, V. (2011). Natural images from the birthplace of the human
eye. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0020409
chicago: Tkačik, Gašper, Patrick Garrigan, Charles Ratliff, Grega Milcinski, Jennifer
Klein, Lucia Seyfarth, Peter Sterling, David Brainard, and Vijay Balasubramanian.
“Natural Images from the Birthplace of the Human Eye.” PLoS One. Public
Library of Science, 2011. https://doi.org/10.1371/journal.pone.0020409.
ieee: G. Tkačik et al., “Natural images from the birthplace of the human
eye,” PLoS One, vol. 6, no. 6. Public Library of Science, 2011.
ista: Tkačik G, Garrigan P, Ratliff C, Milcinski G, Klein J, Seyfarth L, Sterling
P, Brainard D, Balasubramanian V. 2011. Natural images from the birthplace of
the human eye. PLoS One. 6(6), e20409.
mla: Tkačik, Gašper, et al. “Natural Images from the Birthplace of the Human Eye.”
PLoS One, vol. 6, no. 6, e20409, Public Library of Science, 2011, doi:10.1371/journal.pone.0020409.
short: G. Tkačik, P. Garrigan, C. Ratliff, G. Milcinski, J. Klein, L. Seyfarth,
P. Sterling, D. Brainard, V. Balasubramanian, PLoS One 6 (2011).
date_created: 2018-12-11T12:03:01Z
date_published: 2011-06-16T00:00:00Z
date_updated: 2021-01-12T07:43:07Z
day: '16'
ddc:
- '570'
department:
- _id: GaTk
doi: 10.1371/journal.pone.0020409
file:
- access_level: open_access
checksum: 307d4356916471306e3705ac65b82fa1
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:09:25Z
date_updated: 2020-07-14T12:46:11Z
file_id: '4749'
file_name: IST-2015-379-v1+1_journal.pone.0020409.pdf
file_size: 1424768
relation: main_file
file_date_updated: 2020-07-14T12:46:11Z
has_accepted_license: '1'
intvolume: ' 6'
issue: '6'
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_status: published
publisher: Public Library of Science
publist_id: '3223'
pubrep_id: '379'
quality_controlled: '1'
scopus_import: 1
status: public
title: Natural images from the birthplace of the human eye
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 6
year: '2011'
...