---
_id: '8951'
abstract:
- lang: eng
  text: Gene expression levels are influenced by multiple coexisting molecular mechanisms.
    Some of these interactions, such as those of transcription factors and promoters
    have been studied extensively. However, predicting phenotypes of gene regulatory
    networks remains a major challenge. Here, we use a well-defined synthetic gene
    regulatory network to study how network phenotypes depend on local genetic context,
    i.e. the genetic neighborhood of a transcription factor and its relative position.
    We show that one gene regulatory network with fixed topology can display not only
    quantitatively but also qualitatively different phenotypes, depending solely on
    the local genetic context of its components. Our results demonstrate that changes
    in local genetic context can place a single transcriptional unit within two separate
    regulons without the need for complex regulatory sequences. We propose that relative
    order of individual transcriptional units, with its potential for combinatorial
    complexity, plays an important role in shaping phenotypes of gene regulatory networks.
article_processing_charge: No
author:
- first_name: Anna A
  full_name: Nagy-Staron, Anna A
  id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87
  last_name: Nagy-Staron
  orcid: 0000-0002-1391-8377
citation:
  ama: Nagy-Staron AA. Sequences of gene regulatory network permutations for the article
    “Local genetic context shapes the function of a gene regulatory network.” 2020.
    doi:<a href="https://doi.org/10.15479/AT:ISTA:8951">10.15479/AT:ISTA:8951</a>
  apa: Nagy-Staron, A. A. (2020). Sequences of gene regulatory network permutations
    for the article “Local genetic context shapes the function of a gene regulatory
    network.” Institute of Science and Technology Austria. <a href="https://doi.org/10.15479/AT:ISTA:8951">https://doi.org/10.15479/AT:ISTA:8951</a>
  chicago: Nagy-Staron, Anna A. “Sequences of Gene Regulatory Network Permutations
    for the Article ‘Local Genetic Context Shapes the Function of a Gene Regulatory
    Network.’” Institute of Science and Technology Austria, 2020. <a href="https://doi.org/10.15479/AT:ISTA:8951">https://doi.org/10.15479/AT:ISTA:8951</a>.
  ieee: A. A. Nagy-Staron, “Sequences of gene regulatory network permutations for
    the article ‘Local genetic context shapes the function of a gene regulatory network.’”
    Institute of Science and Technology Austria, 2020.
  ista: Nagy-Staron AA. 2020. Sequences of gene regulatory network permutations for
    the article ‘Local genetic context shapes the function of a gene regulatory network’,
    Institute of Science and Technology Austria, <a href="https://doi.org/10.15479/AT:ISTA:8951">10.15479/AT:ISTA:8951</a>.
  mla: Nagy-Staron, Anna A. <i>Sequences of Gene Regulatory Network Permutations for
    the Article “Local Genetic Context Shapes the Function of a Gene Regulatory Network.”</i>
    Institute of Science and Technology Austria, 2020, doi:<a href="https://doi.org/10.15479/AT:ISTA:8951">10.15479/AT:ISTA:8951</a>.
  short: A.A. Nagy-Staron, (2020).
contributor:
- contributor_type: project_member
  first_name: Anna A
  id: 3ABC5BA6-F248-11E8-B48F-1D18A9856A87
  last_name: Nagy-Staron
- contributor_type: project_member
  first_name: Kathrin
  id: 3AEC8556-F248-11E8-B48F-1D18A9856A87
  last_name: Tomasek
- contributor_type: project_member
  first_name: Caroline
  last_name: Caruso Carter
- contributor_type: project_member
  first_name: Elisabeth
  last_name: Sonnleitner
- contributor_type: project_member
  first_name: Bor
  id: 350F91D2-F248-11E8-B48F-1D18A9856A87
  last_name: Kavcic
  orcid: 0000-0001-6041-254X
- contributor_type: project_member
  first_name: Tiago
  last_name: Paixão
- contributor_type: project_manager
  first_name: Calin C
  id: 47F8433E-F248-11E8-B48F-1D18A9856A87
  last_name: Guet
  orcid: 0000-0001-6220-2052
date_created: 2020-12-20T10:00:26Z
date_published: 2020-12-21T00:00:00Z
date_updated: 2024-02-21T12:41:57Z
day: '21'
ddc:
- '570'
department:
- _id: CaGu
doi: 10.15479/AT:ISTA:8951
file:
- access_level: open_access
  checksum: f57862aeee1690c7effd2b1117d40ed1
  content_type: text/plain
  creator: bkavcic
  date_created: 2020-12-20T09:52:52Z
  date_updated: 2020-12-20T09:52:52Z
  file_id: '8952'
  file_name: readme.txt
  file_size: 523
  relation: main_file
  success: 1
- access_level: open_access
  checksum: f2c6d5232ec6d551b6993991e8689e9f
  content_type: application/octet-stream
  creator: bkavcic
  date_created: 2020-12-20T22:01:44Z
  date_updated: 2020-12-20T22:01:44Z
  file_id: '8954'
  file_name: GRNs Research depository.gb
  file_size: 379228
  relation: main_file
  success: 1
file_date_updated: 2020-12-20T22:01:44Z
has_accepted_license: '1'
keyword:
- Gene regulatory networks
- Gene expression
- Escherichia coli
- Synthetic Biology
month: '12'
oa: 1
oa_version: Published Version
publisher: Institute of Science and Technology Austria
related_material:
  record:
  - id: '9283'
    relation: used_in_publication
    status: public
status: public
title: Sequences of gene regulatory network permutations for the article "Local genetic
  context shapes the function of a gene regulatory network"
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: research_data
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2020'
...