---
_id: '12224'
abstract:
- lang: eng
  text: Muskelin (Mkln1) is implicated in neuronal function, regulating plasma membrane
    receptor trafficking. However, its influence on intrinsic brain activity and corresponding
    behavioral processes remains unclear. Here we show that murine <jats:italic>Mkln1</jats:italic>
    knockout causes non-habituating locomotor activity, increased exploratory drive,
    and decreased locomotor response to amphetamine. Muskelin deficiency impairs social
    novelty detection while promoting the retention of spatial reference memory and
    fear extinction recall. This is strongly mirrored in either weaker or stronger
    resting-state functional connectivity between critical circuits mediating locomotor
    exploration and cognition. We show that <jats:italic>Mkln1</jats:italic> deletion
    alters dendrite branching and spine structure, coinciding with enhanced AMPAR-mediated
    synaptic transmission but selective impairment in synaptic potentiation maintenance.
    We identify muskelin at excitatory synapses and highlight its role in regulating
    dendritic spine actin stability. Our findings point to aberrant spine actin modulation
    and changes in glutamatergic synaptic function as critical mechanisms that contribute
    to the neurobehavioral phenotype arising from <jats:italic>Mkln1</jats:italic>
    ablation.
acknowledgement: "The authors are grateful to the UKE Animal Facilities (Hamburg)
  for animal husbandry and Dr. Bastian Tiemann for his veterinary expertise and supervision
  of animal care. We thank Dr. Franco Lombino for critically reading the manuscript
  and for helpful discussion. This work was supported by grants from the Deutsche
  Forschungsgemeinschaft (DFG) (FOR2419-KN556/11-1, FOR2419-KN556/11-2, KN556/12-1)
  and the Landesforschungsförderung Hamburg (LFF-FV76) to M.K.\r\nOpen Access funding
  enabled and organized by Projekt DEAL."
article_number: '589'
article_processing_charge: No
article_type: original
author:
- first_name: Mary W
  full_name: Muhia, Mary W
  id: ab7ed20f-09f7-11eb-909c-d5d0b443ee9d
  last_name: Muhia
- first_name: PingAn
  full_name: YuanXiang, PingAn
  last_name: YuanXiang
- first_name: Jan
  full_name: Sedlacik, Jan
  last_name: Sedlacik
- first_name: Jürgen R.
  full_name: Schwarz, Jürgen R.
  last_name: Schwarz
- first_name: Frank F.
  full_name: Heisler, Frank F.
  last_name: Heisler
- first_name: Kira V.
  full_name: Gromova, Kira V.
  last_name: Gromova
- first_name: Edda
  full_name: Thies, Edda
  last_name: Thies
- first_name: Petra
  full_name: Breiden, Petra
  last_name: Breiden
- first_name: Yvonne
  full_name: Pechmann, Yvonne
  last_name: Pechmann
- first_name: Michael R.
  full_name: Kreutz, Michael R.
  last_name: Kreutz
- first_name: Matthias
  full_name: Kneussel, Matthias
  last_name: Kneussel
citation:
  ama: Muhia MW, YuanXiang P, Sedlacik J, et al. Muskelin regulates actin-dependent
    synaptic changes and intrinsic brain activity relevant to behavioral and cognitive
    processes. <i>Communications Biology</i>. 2022;5. doi:<a href="https://doi.org/10.1038/s42003-022-03446-1">10.1038/s42003-022-03446-1</a>
  apa: Muhia, M. W., YuanXiang, P., Sedlacik, J., Schwarz, J. R., Heisler, F. F.,
    Gromova, K. V., … Kneussel, M. (2022). Muskelin regulates actin-dependent synaptic
    changes and intrinsic brain activity relevant to behavioral and cognitive processes.
    <i>Communications Biology</i>. Springer Nature. <a href="https://doi.org/10.1038/s42003-022-03446-1">https://doi.org/10.1038/s42003-022-03446-1</a>
  chicago: Muhia, Mary W, PingAn YuanXiang, Jan Sedlacik, Jürgen R. Schwarz, Frank
    F. Heisler, Kira V. Gromova, Edda Thies, et al. “Muskelin Regulates Actin-Dependent
    Synaptic Changes and Intrinsic Brain Activity Relevant to Behavioral and Cognitive
    Processes.” <i>Communications Biology</i>. Springer Nature, 2022. <a href="https://doi.org/10.1038/s42003-022-03446-1">https://doi.org/10.1038/s42003-022-03446-1</a>.
  ieee: M. W. Muhia <i>et al.</i>, “Muskelin regulates actin-dependent synaptic changes
    and intrinsic brain activity relevant to behavioral and cognitive processes,”
    <i>Communications Biology</i>, vol. 5. Springer Nature, 2022.
  ista: Muhia MW, YuanXiang P, Sedlacik J, Schwarz JR, Heisler FF, Gromova KV, Thies
    E, Breiden P, Pechmann Y, Kreutz MR, Kneussel M. 2022. Muskelin regulates actin-dependent
    synaptic changes and intrinsic brain activity relevant to behavioral and cognitive
    processes. Communications Biology. 5, 589.
  mla: Muhia, Mary W., et al. “Muskelin Regulates Actin-Dependent Synaptic Changes
    and Intrinsic Brain Activity Relevant to Behavioral and Cognitive Processes.”
    <i>Communications Biology</i>, vol. 5, 589, Springer Nature, 2022, doi:<a href="https://doi.org/10.1038/s42003-022-03446-1">10.1038/s42003-022-03446-1</a>.
  short: M.W. Muhia, P. YuanXiang, J. Sedlacik, J.R. Schwarz, F.F. Heisler, K.V. Gromova,
    E. Thies, P. Breiden, Y. Pechmann, M.R. Kreutz, M. Kneussel, Communications Biology
    5 (2022).
date_created: 2023-01-16T09:48:19Z
date_published: 2022-06-15T00:00:00Z
date_updated: 2023-08-04T09:25:59Z
day: '15'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.1038/s42003-022-03446-1
external_id:
  isi:
  - '000811777900003'
file:
- access_level: open_access
  checksum: bd95be1e77090208b79bc45ea8785d0b
  content_type: application/pdf
  creator: dernst
  date_created: 2023-01-27T08:23:46Z
  date_updated: 2023-01-27T08:23:46Z
  file_id: '12417'
  file_name: 2022_CommBiology_Muhia.pdf
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file_date_updated: 2023-01-27T08:23:46Z
has_accepted_license: '1'
intvolume: '         5'
isi: 1
keyword:
- General Agricultural and Biological Sciences
- General Biochemistry
- Genetics and Molecular Biology
- Medicine (miscellaneous)
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Communications Biology
publication_identifier:
  issn:
  - 2399-3642
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity
  relevant to behavioral and cognitive processes
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 5
year: '2022'
...
---
_id: '9603'
abstract:
- lang: eng
  text: Mosaic analysis with double markers (MADM) offers one approach to visualize
    and concomitantly manipulate genetically defined cells in mice with single-cell
    resolution. MADM applications include the analysis of lineage, single-cell morphology
    and physiology, genomic imprinting phenotypes, and dissection of cell-autonomous
    gene functions in vivo in health and disease. Yet, MADM can only be applied to
    <25% of all mouse genes on select chromosomes to date. To overcome this limitation,
    we generate transgenic mice with knocked-in MADM cassettes near the centromeres
    of all 19 autosomes and validate their use across organs. With this resource,
    >96% of the entire mouse genome can now be subjected to single-cell genetic mosaic
    analysis. Beyond a proof of principle, we apply our MADM library to systematically
    trace sister chromatid segregation in distinct mitotic cell lineages. We find
    striking chromosome-specific biases in segregation patterns, reflecting a putative
    mechanism for the asymmetric segregation of genetic determinants in somatic stem
    cell division.
acknowledged_ssus:
- _id: Bio
- _id: LifeSc
- _id: PreCl
acknowledgement: We thank the Bioimaging, Life Science, and Pre-Clinical Facilities
  at IST Austria; M.P. Postiglione, C. Simbriger, K. Valoskova, C. Schwayer, T. Hussain,
  M. Pieber, and V. Wimmer for initial experiments, technical support, and/or assistance;
  R. Shigemoto for sharing iv (Dnah11 mutant) mice; and M. Sixt and all members of
  the Hippenmeyer lab for discussion. This work was supported by National Institutes
  of Health grants ( R01-NS050580 to L.L. and F32MH096361 to L.A.S.). L.L. is an investigator
  of HHMI. N.A. received support from FWF Firnberg-Programm ( T 1031 ). A.H.H. is
  a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences . This
  work also received support from IST Austria institutional funds , FWF SFB F78 to
  S.H., the People Programme (Marie Curie Actions) of the European Union’s Seventh
  Framework Programme ( FP7/2007-2013 ) under REA grant agreement no 618444 to S.H.,
  and the European Research Council (ERC) under the European Union’s Horizon 2020
  Research and Innovation Programme (grant agreement no. 725780 LinPro ) to S.H.
article_number: '109274'
article_processing_charge: No
article_type: original
author:
- first_name: Ximena
  full_name: Contreras, Ximena
  id: 475990FE-F248-11E8-B48F-1D18A9856A87
  last_name: Contreras
- first_name: Nicole
  full_name: Amberg, Nicole
  id: 4CD6AAC6-F248-11E8-B48F-1D18A9856A87
  last_name: Amberg
  orcid: 0000-0002-3183-8207
- first_name: Amarbayasgalan
  full_name: Davaatseren, Amarbayasgalan
  id: 70ADC922-B424-11E9-99E3-BA18E6697425
  last_name: Davaatseren
- first_name: Andi H
  full_name: Hansen, Andi H
  id: 38853E16-F248-11E8-B48F-1D18A9856A87
  last_name: Hansen
- first_name: Johanna
  full_name: Sonntag, Johanna
  id: 32FE7D7C-F248-11E8-B48F-1D18A9856A87
  last_name: Sonntag
- first_name: Lill
  full_name: Andersen, Lill
  last_name: Andersen
- first_name: Tina
  full_name: Bernthaler, Tina
  last_name: Bernthaler
- first_name: Carmen
  full_name: Streicher, Carmen
  id: 36BCB99C-F248-11E8-B48F-1D18A9856A87
  last_name: Streicher
- first_name: Anna-Magdalena
  full_name: Heger, Anna-Magdalena
  id: 4B76FFD2-F248-11E8-B48F-1D18A9856A87
  last_name: Heger
- first_name: Randy L.
  full_name: Johnson, Randy L.
  last_name: Johnson
- first_name: Lindsay A.
  full_name: Schwarz, Lindsay A.
  last_name: Schwarz
- first_name: Liqun
  full_name: Luo, Liqun
  last_name: Luo
- first_name: Thomas
  full_name: Rülicke, Thomas
  last_name: Rülicke
- first_name: Simon
  full_name: Hippenmeyer, Simon
  id: 37B36620-F248-11E8-B48F-1D18A9856A87
  last_name: Hippenmeyer
  orcid: 0000-0003-2279-1061
citation:
  ama: Contreras X, Amberg N, Davaatseren A, et al. A genome-wide library of MADM
    mice for single-cell genetic mosaic analysis. <i>Cell Reports</i>. 2021;35(12).
    doi:<a href="https://doi.org/10.1016/j.celrep.2021.109274">10.1016/j.celrep.2021.109274</a>
  apa: Contreras, X., Amberg, N., Davaatseren, A., Hansen, A. H., Sonntag, J., Andersen,
    L., … Hippenmeyer, S. (2021). A genome-wide library of MADM mice for single-cell
    genetic mosaic analysis. <i>Cell Reports</i>. Cell Press. <a href="https://doi.org/10.1016/j.celrep.2021.109274">https://doi.org/10.1016/j.celrep.2021.109274</a>
  chicago: Contreras, Ximena, Nicole Amberg, Amarbayasgalan Davaatseren, Andi H Hansen,
    Johanna Sonntag, Lill Andersen, Tina Bernthaler, et al. “A Genome-Wide Library
    of MADM Mice for Single-Cell Genetic Mosaic Analysis.” <i>Cell Reports</i>. Cell
    Press, 2021. <a href="https://doi.org/10.1016/j.celrep.2021.109274">https://doi.org/10.1016/j.celrep.2021.109274</a>.
  ieee: X. Contreras <i>et al.</i>, “A genome-wide library of MADM mice for single-cell
    genetic mosaic analysis,” <i>Cell Reports</i>, vol. 35, no. 12. Cell Press, 2021.
  ista: Contreras X, Amberg N, Davaatseren A, Hansen AH, Sonntag J, Andersen L, Bernthaler
    T, Streicher C, Heger A-M, Johnson RL, Schwarz LA, Luo L, Rülicke T, Hippenmeyer
    S. 2021. A genome-wide library of MADM mice for single-cell genetic mosaic analysis.
    Cell Reports. 35(12), 109274.
  mla: Contreras, Ximena, et al. “A Genome-Wide Library of MADM Mice for Single-Cell
    Genetic Mosaic Analysis.” <i>Cell Reports</i>, vol. 35, no. 12, 109274, Cell Press,
    2021, doi:<a href="https://doi.org/10.1016/j.celrep.2021.109274">10.1016/j.celrep.2021.109274</a>.
  short: X. Contreras, N. Amberg, A. Davaatseren, A.H. Hansen, J. Sonntag, L. Andersen,
    T. Bernthaler, C. Streicher, A.-M. Heger, R.L. Johnson, L.A. Schwarz, L. Luo,
    T. Rülicke, S. Hippenmeyer, Cell Reports 35 (2021).
date_created: 2021-06-27T22:01:48Z
date_published: 2021-06-22T00:00:00Z
date_updated: 2023-08-10T13:55:00Z
day: '22'
ddc:
- '570'
department:
- _id: SiHi
- _id: LoSw
- _id: PreCl
doi: 10.1016/j.celrep.2021.109274
ec_funded: 1
external_id:
  isi:
  - '000664463600016'
file:
- access_level: open_access
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  creator: asandaue
  date_created: 2021-06-28T14:06:24Z
  date_updated: 2021-06-28T14:06:24Z
  file_id: '9613'
  file_name: 2021_CellReports_Contreras.pdf
  file_size: 7653149
  relation: main_file
  success: 1
file_date_updated: 2021-06-28T14:06:24Z
has_accepted_license: '1'
intvolume: '        35'
isi: 1
issue: '12'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
project:
- _id: 2625A13E-B435-11E9-9278-68D0E5697425
  grant_number: '24812'
  name: Molecular Mechanisms of Radial Neuronal Migration
- _id: 25D61E48-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '618444'
  name: Molecular Mechanisms of Cerebral Cortex Development
- _id: 260018B0-B435-11E9-9278-68D0E5697425
  call_identifier: H2020
  grant_number: '725780'
  name: Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development
publication: Cell Reports
publication_identifier:
  eissn:
  - '22111247'
publication_status: published
publisher: Cell Press
quality_controlled: '1'
related_material:
  link:
  - description: News on IST Homepage
    relation: press_release
    url: https://ist.ac.at/en/news/boost-for-mouse-genetic-analysis/
scopus_import: '1'
status: public
title: A genome-wide library of MADM mice for single-cell genetic mosaic analysis
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 35
year: '2021'
...
---
_id: '9607'
abstract:
- lang: eng
  text: While high risk of failure is an inherent part of developing innovative therapies,
    it can be reduced by adherence to evidence-based rigorous research practices.
    Numerous analyses conducted to date have clearly identified measures that need
    to be taken to improve research rigor. Supported through the European Union's
    Innovative Medicines Initiative, the EQIPD consortium has developed a novel preclinical
    research quality system that can be applied in both public and private sectors
    and is free for anyone to use. The EQIPD Quality System was designed to be suited
    to boost innovation by ensuring the generation of robust and reliable preclinical
    data while being lean, effective and not becoming a burden that could negatively
    impact the freedom to explore scientific questions. EQIPD defines research quality
    as the extent to which research data are fit for their intended use. Fitness,
    in this context, is defined by the stakeholders, who are the scientists directly
    involved in the research, but also their funders, sponsors, publishers, research
    tool manufacturers and collaboration partners such as peers in a multi-site research
    project. The essence of the EQIPD Quality System is the set of 18 core requirements
    that can be addressed flexibly, according to user-specific needs and following
    a user-defined trajectory. The EQIPD Quality System proposes guidance on expectations
    for quality-related measures, defines criteria for adequate processes (i.e., performance
    standards) and provides examples of how such measures can be developed and implemented.
    However, it does not prescribe any pre-determined solutions. EQIPD has also developed
    tools (for optional use) to support users in implementing the system and assessment
    services for those research units that successfully implement the quality system
    and seek formal accreditation. Building upon the feedback from users and continuous
    improvement, a sustainable EQIPD Quality System will ultimately serve the entire
    community of scientists conducting non-regulated preclinical research, by helping
    them generate reliable data that are fit for their intended use.
acknowledgement: This project has received funding from the Innovative Medicines Initiative
  2 Joint Undertaking under grant agreement No 777364. This Joint Undertaking receives
  support from the European Union’s Horizon 2020 research and innovation programme
  and EFPIA. The authors are very grateful to Martin Heinrich (Abbvie, Ludwigshafen,
  Germany) for the exceptional IT support and programming the EQIPD Planning Tool
  and the Creator Tool and to Dr Shai Silberberg (NINDS, USA), Dr. Renza Roncarati
  (PAASP Italy) and Dr Judith Homberg (Radboud University, Nijmegen) for highly stimulating
  contributions to the discussions and comments on earlier versions of this manuscript.
  We also wish to express our thanks to Dr. Sara Stöber (concentris research management
  GmbH, Fürstenfeldbruck, Germany) for excellent and continuous support of this project.
  Creation of the EQIPD Stakeholder group was supported by Noldus Information Technology
  bv (Wageningen, the Netherlands).
article_processing_charge: No
article_type: original
author:
- first_name: Anton
  full_name: Bespalov, Anton
  last_name: Bespalov
- first_name: René
  full_name: Bernard, René
  last_name: Bernard
- first_name: Anja
  full_name: Gilis, Anja
  last_name: Gilis
- first_name: Björn
  full_name: Gerlach, Björn
  last_name: Gerlach
- first_name: Javier
  full_name: Guillén, Javier
  last_name: Guillén
- first_name: Vincent
  full_name: Castagné, Vincent
  last_name: Castagné
- first_name: Isabel A.
  full_name: Lefevre, Isabel A.
  last_name: Lefevre
- first_name: Fiona
  full_name: Ducrey, Fiona
  last_name: Ducrey
- first_name: Lee
  full_name: Monk, Lee
  last_name: Monk
- first_name: Sandrine
  full_name: Bongiovanni, Sandrine
  last_name: Bongiovanni
- first_name: Bruce
  full_name: Altevogt, Bruce
  last_name: Altevogt
- first_name: María
  full_name: Arroyo-Araujo, María
  last_name: Arroyo-Araujo
- first_name: Lior
  full_name: Bikovski, Lior
  last_name: Bikovski
- first_name: Natasja
  full_name: De Bruin, Natasja
  last_name: De Bruin
- first_name: Esmeralda
  full_name: Castaños-Vélez, Esmeralda
  last_name: Castaños-Vélez
- first_name: Alexander
  full_name: Dityatev, Alexander
  last_name: Dityatev
- first_name: Christoph H.
  full_name: Emmerich, Christoph H.
  last_name: Emmerich
- first_name: Raafat
  full_name: Fares, Raafat
  last_name: Fares
- first_name: Chantelle
  full_name: Ferland-Beckham, Chantelle
  last_name: Ferland-Beckham
- first_name: Christelle
  full_name: Froger-Colléaux, Christelle
  last_name: Froger-Colléaux
- first_name: Valerie
  full_name: Gailus-Durner, Valerie
  last_name: Gailus-Durner
- first_name: Sabine M.
  full_name: Hölter, Sabine M.
  last_name: Hölter
- first_name: Martine Cj
  full_name: Hofmann, Martine Cj
  last_name: Hofmann
- first_name: Patricia
  full_name: Kabitzke, Patricia
  last_name: Kabitzke
- first_name: Martien Jh
  full_name: Kas, Martien Jh
  last_name: Kas
- first_name: Claudia
  full_name: Kurreck, Claudia
  last_name: Kurreck
- first_name: Paul
  full_name: Moser, Paul
  last_name: Moser
- first_name: Malgorzata
  full_name: Pietraszek, Malgorzata
  last_name: Pietraszek
- first_name: Piotr
  full_name: Popik, Piotr
  last_name: Popik
- first_name: Heidrun
  full_name: Potschka, Heidrun
  last_name: Potschka
- first_name: Ernesto
  full_name: Prado Montes De Oca, Ernesto
  last_name: Prado Montes De Oca
- first_name: Leonardo
  full_name: Restivo, Leonardo
  last_name: Restivo
- first_name: Gernot
  full_name: Riedel, Gernot
  last_name: Riedel
- first_name: Merel
  full_name: Ritskes-Hoitinga, Merel
  last_name: Ritskes-Hoitinga
- first_name: Janko
  full_name: Samardzic, Janko
  last_name: Samardzic
- first_name: Michael
  full_name: Schunn, Michael
  id: 4272DB4A-F248-11E8-B48F-1D18A9856A87
  last_name: Schunn
  orcid: 0000-0003-4326-5300
- first_name: Claudia
  full_name: Stöger, Claudia
  last_name: Stöger
- first_name: Vootele
  full_name: Voikar, Vootele
  last_name: Voikar
- first_name: Jan
  full_name: Vollert, Jan
  last_name: Vollert
- first_name: Kimberley E.
  full_name: Wever, Kimberley E.
  last_name: Wever
- first_name: Kathleen
  full_name: Wuyts, Kathleen
  last_name: Wuyts
- first_name: Malcolm R.
  full_name: Macleod, Malcolm R.
  last_name: Macleod
- first_name: Ulrich
  full_name: Dirnagl, Ulrich
  last_name: Dirnagl
- first_name: Thomas
  full_name: Steckler, Thomas
  last_name: Steckler
citation:
  ama: Bespalov A, Bernard R, Gilis A, et al. Introduction to the EQIPD quality system.
    <i>eLife</i>. 2021;10. doi:<a href="https://doi.org/10.7554/eLife.63294">10.7554/eLife.63294</a>
  apa: Bespalov, A., Bernard, R., Gilis, A., Gerlach, B., Guillén, J., Castagné, V.,
    … Steckler, T. (2021). Introduction to the EQIPD quality system. <i>ELife</i>.
    eLife Sciences Publications. <a href="https://doi.org/10.7554/eLife.63294">https://doi.org/10.7554/eLife.63294</a>
  chicago: Bespalov, Anton, René Bernard, Anja Gilis, Björn Gerlach, Javier Guillén,
    Vincent Castagné, Isabel A. Lefevre, et al. “Introduction to the EQIPD Quality
    System.” <i>ELife</i>. eLife Sciences Publications, 2021. <a href="https://doi.org/10.7554/eLife.63294">https://doi.org/10.7554/eLife.63294</a>.
  ieee: A. Bespalov <i>et al.</i>, “Introduction to the EQIPD quality system,” <i>eLife</i>,
    vol. 10. eLife Sciences Publications, 2021.
  ista: Bespalov A, Bernard R, Gilis A, Gerlach B, Guillén J, Castagné V, Lefevre
    IA, Ducrey F, Monk L, Bongiovanni S, Altevogt B, Arroyo-Araujo M, Bikovski L,
    De Bruin N, Castaños-Vélez E, Dityatev A, Emmerich CH, Fares R, Ferland-Beckham
    C, Froger-Colléaux C, Gailus-Durner V, Hölter SM, Hofmann MC, Kabitzke P, Kas
    MJ, Kurreck C, Moser P, Pietraszek M, Popik P, Potschka H, Prado Montes De Oca
    E, Restivo L, Riedel G, Ritskes-Hoitinga M, Samardzic J, Schunn M, Stöger C, Voikar
    V, Vollert J, Wever KE, Wuyts K, Macleod MR, Dirnagl U, Steckler T. 2021. Introduction
    to the EQIPD quality system. eLife. 10.
  mla: Bespalov, Anton, et al. “Introduction to the EQIPD Quality System.” <i>ELife</i>,
    vol. 10, eLife Sciences Publications, 2021, doi:<a href="https://doi.org/10.7554/eLife.63294">10.7554/eLife.63294</a>.
  short: A. Bespalov, R. Bernard, A. Gilis, B. Gerlach, J. Guillén, V. Castagné, I.A.
    Lefevre, F. Ducrey, L. Monk, S. Bongiovanni, B. Altevogt, M. Arroyo-Araujo, L.
    Bikovski, N. De Bruin, E. Castaños-Vélez, A. Dityatev, C.H. Emmerich, R. Fares,
    C. Ferland-Beckham, C. Froger-Colléaux, V. Gailus-Durner, S.M. Hölter, M.C. Hofmann,
    P. Kabitzke, M.J. Kas, C. Kurreck, P. Moser, M. Pietraszek, P. Popik, H. Potschka,
    E. Prado Montes De Oca, L. Restivo, G. Riedel, M. Ritskes-Hoitinga, J. Samardzic,
    M. Schunn, C. Stöger, V. Voikar, J. Vollert, K.E. Wever, K. Wuyts, M.R. Macleod,
    U. Dirnagl, T. Steckler, ELife 10 (2021).
date_created: 2021-06-27T22:01:49Z
date_published: 2021-05-24T00:00:00Z
date_updated: 2023-08-10T13:36:50Z
day: '24'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.7554/eLife.63294
external_id:
  isi:
  - '000661272000001'
  pmid:
  - '34028353'
file:
- access_level: open_access
  checksum: 885b746051a7a6b6e24e3d2781a48fde
  content_type: application/pdf
  creator: asandaue
  date_created: 2021-06-28T11:35:30Z
  date_updated: 2021-06-28T11:35:30Z
  file_id: '9609'
  file_name: 2021_ELife_Bespalov.pdf
  file_size: 2500720
  relation: main_file
  success: 1
file_date_updated: 2021-06-28T11:35:30Z
has_accepted_license: '1'
intvolume: '        10'
isi: 1
language:
- iso: eng
month: '05'
oa: 1
oa_version: Published Version
pmid: 1
publication: eLife
publication_identifier:
  eissn:
  - 2050084X
publication_status: published
publisher: eLife Sciences Publications
quality_controlled: '1'
scopus_import: '1'
status: public
title: Introduction to the EQIPD quality system
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 10
year: '2021'
...
---
_id: '10283'
abstract:
- lang: eng
  text: 'During the past decade, the scientific community and outside observers have
    noted a concerning lack of rigor and transparency in preclinical research that
    led to talk of a “reproducibility crisis” in the life sciences (Baker, 2016; Bespalov
    & Steckler, 2018; Heddleston et al, 2021). Various measures have been proposed
    to address the problem: from better training of scientists to more oversight to
    expanded publishing practices such as preregistration of studies. The recently
    published EQIPD (Enhancing Quality in Preclinical Data) System is, to date, the
    largest initiative that aims to establish a systematic approach for increasing
    the robustness and reliability of biomedical research (Bespalov et al, 2021).
    However, promoting a cultural change in research practices warrants a broad adoption
    of the Quality System and its underlying philosophy. It is here that academic
    Core Facilities (CF), research service providers at universities and research
    institutions, can make a difference. It is fair to assume that a significant fraction
    of published data originated from experiments that were designed, run, or analyzed
    in CFs. These academic services play an important role in the research ecosystem
    by offering access to cutting-edge equipment and by developing and testing novel
    techniques and methods that impact research in the academic and private sectors
    alike (Bikovski et al, 2020). Equipment and infrastructure are not the only value:
    CFs employ competent personnel with profound knowledge and practical experience
    of the specific field of interest: animal behavior, imaging, crystallography,
    genomics, and so on. Thus, CFs are optimally positioned to address concerns about
    the quality and robustness of preclinical research.'
acknowledgement: This EQIPD project has received funding from the Innovative Medicines
  Initiative 2 Joint Undertaking under grant agreement no. 777364. This Joint Undertaking
  receives support from the European Union’s Horizon 2020 research and innovation
  program and EFPIA. LR was supported by the Faculty of Biology and Medicine, University
  of Lausanne. VV was supported by Biocenter Finland and the Jane and Aatos Erkko
  Foundation. CP and IKB received funding from the Federal Ministry of Education and
  Research (BMBF, grant 01PW18001). SB from the Vienna BioCenter Core Facilities (VBCF)
  Preclinical Phenotyping Facility acknowledges funding from the Austrian Federal
  Ministry of Education, Science & Research; and the City of Vienna. MT is an incumbent
  of the Carolito Stiftung Research Fellow Chair in Neurodegenerative Diseases. We
  thank Dr. Katja Kivinen (Helsinki Institute of Life Science) for discussions and
  feedback.
article_number: e53824
article_processing_charge: Yes (in subscription journal)
article_type: original
author:
- first_name: Leonardo
  full_name: Restivo, Leonardo
  last_name: Restivo
- first_name: Björn
  full_name: Gerlach, Björn
  last_name: Gerlach
- first_name: Michael
  full_name: Tsoory, Michael
  last_name: Tsoory
- first_name: Lior
  full_name: Bikovski, Lior
  last_name: Bikovski
- first_name: Sylvia
  full_name: Badurek, Sylvia
  last_name: Badurek
- first_name: Claudia
  full_name: Pitzer, Claudia
  last_name: Pitzer
- first_name: Isabelle C.
  full_name: Kos-Braun, Isabelle C.
  last_name: Kos-Braun
- first_name: Anne Laure Mj
  full_name: Mausset-Bonnefont, Anne Laure Mj
  last_name: Mausset-Bonnefont
- first_name: Jonathan
  full_name: Ward, Jonathan
  last_name: Ward
- first_name: Michael
  full_name: Schunn, Michael
  id: 4272DB4A-F248-11E8-B48F-1D18A9856A87
  last_name: Schunn
  orcid: 0000-0003-4326-5300
- first_name: Lucas P.J.J.
  full_name: Noldus, Lucas P.J.J.
  last_name: Noldus
- first_name: Anton
  full_name: Bespalov, Anton
  last_name: Bespalov
- first_name: Vootele
  full_name: Voikar, Vootele
  last_name: Voikar
citation:
  ama: 'Restivo L, Gerlach B, Tsoory M, et al. Towards best practices in research:
    Role of academic core facilities. <i>EMBO Reports</i>. 2021;22. doi:<a href="https://doi.org/10.15252/embr.202153824">10.15252/embr.202153824</a>'
  apa: 'Restivo, L., Gerlach, B., Tsoory, M., Bikovski, L., Badurek, S., Pitzer, C.,
    … Voikar, V. (2021). Towards best practices in research: Role of academic core
    facilities. <i>EMBO Reports</i>. EMBO Press. <a href="https://doi.org/10.15252/embr.202153824">https://doi.org/10.15252/embr.202153824</a>'
  chicago: 'Restivo, Leonardo, Björn Gerlach, Michael Tsoory, Lior Bikovski, Sylvia
    Badurek, Claudia Pitzer, Isabelle C. Kos-Braun, et al. “Towards Best Practices
    in Research: Role of Academic Core Facilities.” <i>EMBO Reports</i>. EMBO Press,
    2021. <a href="https://doi.org/10.15252/embr.202153824">https://doi.org/10.15252/embr.202153824</a>.'
  ieee: 'L. Restivo <i>et al.</i>, “Towards best practices in research: Role of academic
    core facilities,” <i>EMBO Reports</i>, vol. 22. EMBO Press, 2021.'
  ista: 'Restivo L, Gerlach B, Tsoory M, Bikovski L, Badurek S, Pitzer C, Kos-Braun
    IC, Mausset-Bonnefont ALM, Ward J, Schunn M, Noldus LPJJ, Bespalov A, Voikar V.
    2021. Towards best practices in research: Role of academic core facilities. EMBO
    Reports. 22, e53824.'
  mla: 'Restivo, Leonardo, et al. “Towards Best Practices in Research: Role of Academic
    Core Facilities.” <i>EMBO Reports</i>, vol. 22, e53824, EMBO Press, 2021, doi:<a
    href="https://doi.org/10.15252/embr.202153824">10.15252/embr.202153824</a>.'
  short: L. Restivo, B. Gerlach, M. Tsoory, L. Bikovski, S. Badurek, C. Pitzer, I.C.
    Kos-Braun, A.L.M. Mausset-Bonnefont, J. Ward, M. Schunn, L.P.J.J. Noldus, A. Bespalov,
    V. Voikar, EMBO Reports 22 (2021).
date_created: 2021-11-14T23:01:24Z
date_published: 2021-11-04T00:00:00Z
date_updated: 2023-08-14T11:47:35Z
day: '04'
ddc:
- '570'
department:
- _id: PreCl
doi: 10.15252/embr.202153824
external_id:
  isi:
  - '000714350000001'
file:
- access_level: open_access
  checksum: 74743baa6ef431ef60c3de3bc4da045a
  content_type: application/pdf
  creator: dernst
  date_created: 2022-05-16T07:07:41Z
  date_updated: 2022-05-16T07:07:41Z
  file_id: '11381'
  file_name: 2021_EmboReports_Restivo.pdf
  file_size: 488583
  relation: main_file
  success: 1
file_date_updated: 2022-05-16T07:07:41Z
has_accepted_license: '1'
intvolume: '        22'
isi: 1
language:
- iso: eng
month: '11'
oa: 1
oa_version: Published Version
publication: EMBO Reports
publication_identifier:
  eissn:
  - 1469-3178
  issn:
  - 1469-221X
publication_status: published
publisher: EMBO Press
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Towards best practices in research: Role of academic core facilities'
tmp:
  image: /images/cc_by_nc_nd.png
  legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode
  name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International
    (CC BY-NC-ND 4.0)
  short: CC BY-NC-ND (4.0)
type: journal_article
user_id: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 22
year: '2021'
...
---
_id: '6607'
abstract:
- lang: eng
  text: Acute myeloid leukemia (AML) is a heterogeneous disease with respect to its
    genetic and molecular basis and to patients´ outcome. Clinical, cytogenetic, and
    mutational data are used to classify patients into risk groups with different
    survival, however, within-group heterogeneity is still an issue. Here, we used
    a robust likelihood-based survival modeling approach and publicly available gene
    expression data to identify a minimal number of genes whose combined expression
    values were prognostic of overall survival. The resulting gene expression signature
    (4-GES) consisted of 4 genes (SOCS2, IL2RA, NPDC1, PHGDH), predicted patient survival
    as an independent prognostic parameter in several cohorts of AML patients (total,
    1272 patients), and further refined prognostication based on the European Leukemia
    Net classification. An oncogenic role of the top scoring gene in this signature,
    SOCS2, was investigated using MLL-AF9 and Flt3-ITD/NPM1c driven mouse models of
    AML. SOCS2 promoted leukemogenesis as well as the abundance, quiescence, and activity
    of AML stem cells. Overall, the 4-GES represents a highly discriminating prognostic
    parameter in AML, whose clinical applicability is greatly enhanced by its small
    number of genes. The newly established role of SOCS2 in leukemia aggressiveness
    and stemness raises the possibility that the signature might even be exploitable
    therapeutically.
article_number: '9139'
article_processing_charge: No
author:
- first_name: Chi Huu
  full_name: Nguyen, Chi Huu
  last_name: Nguyen
- first_name: Tobias
  full_name: Glüxam, Tobias
  last_name: Glüxam
- first_name: Angela
  full_name: Schlerka, Angela
  last_name: Schlerka
- first_name: Katharina
  full_name: Bauer, Katharina
  id: 2ED6B14C-F248-11E8-B48F-1D18A9856A87
  last_name: Bauer
- first_name: Alexander M.
  full_name: Grandits, Alexander M.
  last_name: Grandits
- first_name: Hubert
  full_name: Hackl, Hubert
  last_name: Hackl
- first_name: Oliver
  full_name: Dovey, Oliver
  last_name: Dovey
- first_name: Sabine
  full_name: Zöchbauer-Müller, Sabine
  last_name: Zöchbauer-Müller
- first_name: Jonathan L.
  full_name: Cooper, Jonathan L.
  last_name: Cooper
- first_name: George S.
  full_name: Vassiliou, George S.
  last_name: Vassiliou
- first_name: Dagmar
  full_name: Stoiber, Dagmar
  last_name: Stoiber
- first_name: Rotraud
  full_name: Wieser, Rotraud
  last_name: Wieser
- first_name: Gerwin
  full_name: Heller, Gerwin
  last_name: Heller
citation:
  ama: Nguyen CH, Glüxam T, Schlerka A, et al. SOCS2 is part of a highly prognostic
    4-gene signature in AML and promotes disease aggressiveness. <i>Scientific Reports</i>.
    2019;9(1). doi:<a href="https://doi.org/10.1038/s41598-019-45579-0">10.1038/s41598-019-45579-0</a>
  apa: Nguyen, C. H., Glüxam, T., Schlerka, A., Bauer, K., Grandits, A. M., Hackl,
    H., … Heller, G. (2019). SOCS2 is part of a highly prognostic 4-gene signature
    in AML and promotes disease aggressiveness. <i>Scientific Reports</i>. Nature
    Publishing Group. <a href="https://doi.org/10.1038/s41598-019-45579-0">https://doi.org/10.1038/s41598-019-45579-0</a>
  chicago: Nguyen, Chi Huu, Tobias Glüxam, Angela Schlerka, Katharina Bauer, Alexander
    M. Grandits, Hubert Hackl, Oliver Dovey, et al. “SOCS2 Is Part of a Highly Prognostic
    4-Gene Signature in AML and Promotes Disease Aggressiveness.” <i>Scientific Reports</i>.
    Nature Publishing Group, 2019. <a href="https://doi.org/10.1038/s41598-019-45579-0">https://doi.org/10.1038/s41598-019-45579-0</a>.
  ieee: C. H. Nguyen <i>et al.</i>, “SOCS2 is part of a highly prognostic 4-gene signature
    in AML and promotes disease aggressiveness,” <i>Scientific Reports</i>, vol. 9,
    no. 1. Nature Publishing Group, 2019.
  ista: Nguyen CH, Glüxam T, Schlerka A, Bauer K, Grandits AM, Hackl H, Dovey O, Zöchbauer-Müller
    S, Cooper JL, Vassiliou GS, Stoiber D, Wieser R, Heller G. 2019. SOCS2 is part
    of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness.
    Scientific Reports. 9(1), 9139.
  mla: Nguyen, Chi Huu, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature
    in AML and Promotes Disease Aggressiveness.” <i>Scientific Reports</i>, vol. 9,
    no. 1, 9139, Nature Publishing Group, 2019, doi:<a href="https://doi.org/10.1038/s41598-019-45579-0">10.1038/s41598-019-45579-0</a>.
  short: C.H. Nguyen, T. Glüxam, A. Schlerka, K. Bauer, A.M. Grandits, H. Hackl, O.
    Dovey, S. Zöchbauer-Müller, J.L. Cooper, G.S. Vassiliou, D. Stoiber, R. Wieser,
    G. Heller, Scientific Reports 9 (2019).
date_created: 2019-07-07T21:59:19Z
date_published: 2019-06-24T00:00:00Z
date_updated: 2023-08-28T12:26:51Z
day: '24'
ddc:
- '576'
department:
- _id: PreCl
doi: 10.1038/s41598-019-45579-0
external_id:
  isi:
  - '000472597400042'
file:
- access_level: open_access
  checksum: 3283522fffadf4b5fc8c7adfe3ba4564
  content_type: application/pdf
  creator: kschuh
  date_created: 2019-07-08T15:15:28Z
  date_updated: 2020-07-14T12:47:34Z
  file_id: '6623'
  file_name: nature_2019_Nguyen.pdf
  file_size: 2017352
  relation: main_file
file_date_updated: 2020-07-14T12:47:34Z
has_accepted_license: '1'
intvolume: '         9'
isi: 1
issue: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: Scientific Reports
publication_status: published
publisher: Nature Publishing Group
quality_controlled: '1'
scopus_import: '1'
status: public
title: SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease
  aggressiveness
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: 4359f0d1-fa6c-11eb-b949-802e58b17ae8
volume: 9
year: '2019'
...