---
DOAJ_listed: '1'
OA_place: publisher
OA_type: gold
PlanS_conform: '1'
_id: '22951'
abstract:
- lang: eng
  text: Anesthesia recovery is critical for resuming normal physiological and neuronal
    functions; however, the mechanisms involved remain elusive. Here, we identify
    a female-selective corticosterone-mediated microglia-neuron interaction during
    ketamine anesthesia recovery, absent in males. This microglia-neuron interaction
    induces plastic and functional neuronal changes, as evidenced by increased mEPSC
    frequency, which was occluded upon microglia depletion. We showed that this process
    is driven through up-regulation of the stress-responsive co-chaperone Fkbp5 mRNA
    and its protein, Fkbp51, in female microglia. Fkbp5/Fkbp51 is a key intermediary
    in a corticosteroid-induced stress response, and its involvement points toward
    a critical interface between endocrine signaling and microglia. To counteract
    the observed ketamine anesthesia-mediated increase in blood corticosterone during
    recovery, we removed the primary source of corticosterone by adrenalectomy. Close
    microglia-neuron interaction was reduced and increased again following corticosterone
    injection. Our findings identify a sex-specific microglia-mediated mechanism of
    neuronal plasticity during anesthesia recovery, driven by corticosterone, thereby
    enhancing our understanding of sex differences in brain function.
acknowledged_ssus:
- _id: Bio
- _id: M-Shop
- _id: PreCl
- _id: LifeSc
acknowledgement: "We thank the scientific service units at ISTA, especially the imaging
  optic facility (IOF), the machine shop (Miba), specifically T. Asenov, the preclinical
  facility (PCF), specifically M. Schunn and S. Haslinger, C. Jansen for bioinformatic
  support, and the laboratory support facility (LSF). We also thank M. Benevento for
  supporting the design and partial performance of electrophysiology and fluorescence
  in situ hybridization experiments and for extensive discussions about the manuscript
  draft, R. Schulz and G. Colombo for advice on morphological reconstruction, M. Schmidt
  for valuable discussions about Fkbp5, and all Siegert team members for constant
  feedback on the project and manuscript. Grammarly was used to assist with grammatical
  revisions. We specifically acknowledge the following experimental contributions:
  R.J.A.C. (Multiome quality control), P.K. (electrophysiology), B.T., C.T.J.V., K.J.
  (multiome), J.Y. (KXA estimates), M.A. and T.N. (morphOMICs).\r\nA.V., M.A., T.N.,
  R.J.A.C., J.Y., P.K., and S.S. were supported by the Institute of Science and Technology
  Austria. C.T.J.V., K.J., and B.T. were supported by the Allen Institute."
article_number: eadz6517
article_processing_charge: Yes
article_type: original
author:
- first_name: Alessandro
  full_name: Venturino, Alessandro
  id: 41CB84B2-F248-11E8-B48F-1D18A9856A87
  last_name: Venturino
  orcid: 0000-0003-2356-9403
- first_name: Amin
  full_name: Alam, Amin
  id: 65a3f615-b651-11f1-9c4b-da4396a4174a
  last_name: Alam
- first_name: Thomas
  full_name: Negrello, Thomas
  id: 37d68bf2-b651-11f1-b680-ec86ff9a70f3
  last_name: Negrello
- first_name: Kelly
  full_name: Jin, Kelly
  last_name: Jin
- first_name: Cindy T. J.
  full_name: van Velthoven, Cindy T. J.
  last_name: van Velthoven
- first_name: Ryan J
  full_name: Cubero, Ryan J
  id: 850B2E12-9CD4-11E9-837F-E719E6697425
  last_name: Cubero
  orcid: 0000-0003-0002-1867
- first_name: Jake
  full_name: Yeung, Jake
  id: 123012b2-db30-11eb-b4d8-a35840c0551b
  last_name: Yeung
  orcid: 0000-0003-1732-1559
- first_name: Peter
  full_name: Koppensteiner, Peter
  id: 3B8B25A8-F248-11E8-B48F-1D18A9856A87
  last_name: Koppensteiner
  orcid: 0000-0002-3509-1948
- first_name: Bosiljka
  full_name: Tasic, Bosiljka
  last_name: Tasic
- first_name: Sandra
  full_name: Siegert, Sandra
  id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
  last_name: Siegert
  orcid: 0000-0001-8635-0877
citation:
  ama: Venturino A, Alam A, Negrello T, et al. Corticosterone-linked microglial activity
    underpins sexually dimorphic neuroplasticity after ketamine anesthesia. <i>Science
    Advances</i>. 2026;12(31). doi:<a href="https://doi.org/10.1126/sciadv.adz6517">10.1126/sciadv.adz6517</a>
  apa: Venturino, A., Alam, A., Negrello, T., Jin, K., van Velthoven, C. T. J., Cubero,
    R. J., … Siegert, S. (2026). Corticosterone-linked microglial activity underpins
    sexually dimorphic neuroplasticity after ketamine anesthesia. <i>Science Advances</i>.
    AAAS. <a href="https://doi.org/10.1126/sciadv.adz6517">https://doi.org/10.1126/sciadv.adz6517</a>
  chicago: Venturino, Alessandro, Amin Alam, Thomas Negrello, Kelly Jin, Cindy T.
    J. van Velthoven, Ryan J Cubero, Jake Yeung, Peter Koppensteiner, Bosiljka Tasic,
    and Sandra Siegert. “Corticosterone-Linked Microglial Activity Underpins Sexually
    Dimorphic Neuroplasticity after Ketamine Anesthesia.” <i>Science Advances</i>.
    AAAS, 2026. <a href="https://doi.org/10.1126/sciadv.adz6517">https://doi.org/10.1126/sciadv.adz6517</a>.
  ieee: A. Venturino <i>et al.</i>, “Corticosterone-linked microglial activity underpins
    sexually dimorphic neuroplasticity after ketamine anesthesia,” <i>Science Advances</i>,
    vol. 12, no. 31. AAAS, 2026.
  ista: Venturino A, Alam A, Negrello T, Jin K, van Velthoven CTJ, Cubero RJ, Yeung
    J, Koppensteiner P, Tasic B, Siegert S. 2026. Corticosterone-linked microglial
    activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia.
    Science Advances. 12(31), eadz6517.
  mla: Venturino, Alessandro, et al. “Corticosterone-Linked Microglial Activity Underpins
    Sexually Dimorphic Neuroplasticity after Ketamine Anesthesia.” <i>Science Advances</i>,
    vol. 12, no. 31, eadz6517, AAAS, 2026, doi:<a href="https://doi.org/10.1126/sciadv.adz6517">10.1126/sciadv.adz6517</a>.
  short: A. Venturino, A. Alam, T. Negrello, K. Jin, C.T.J. van Velthoven, R.J. Cubero,
    J. Yeung, P. Koppensteiner, B. Tasic, S. Siegert, Science Advances 12 (2026).
corr_author: '1'
das_tickbox: '1'
dataavailabilitystatement: 'All data and code needed to evaluate and reproduce the
  results in the paper are present in the paper and/or the Supplementary Materials.
  This study did not generate new materials. Transcriptional data can be accessed
  at the NCBI GEO accession GSE298669. The code for the morphological analysis is
  available under DOI: https://doi.org/10.5281/zenodo.19057068. The codes for the
  single-nucleus analysis are accessible under DOI: 10.5281/zenodo.19019013 and DOI:
  10.5281/zenodo.19071467.'
date_created: 2026-09-17T11:05:39Z
date_published: 2026-07-01T00:00:00Z
date_updated: 2026-09-22T06:56:26Z
day: '01'
ddc:
- '570'
department:
- _id: SaSi
- _id: ScienComp
- _id: PreCl
doi: 10.1126/sciadv.adz6517
external_id:
  pmid:
  - '42536755 '
file:
- access_level: open_access
  checksum: 715a1f35a0805be85ef90556205a2cbc
  content_type: application/pdf
  creator: dernst
  date_created: 2026-09-22T06:50:16Z
  date_updated: 2026-09-22T06:50:16Z
  file_id: '22980'
  file_name: 2026_ScienceAdv_Venturino.pdf
  file_size: 4556377
  relation: main_file
  success: 1
file_date_updated: 2026-09-22T06:50:16Z
fulldoi: https://doi.org/10.1126/sciadv.adz6517
has_accepted_license: '1'
intvolume: '        12'
issue: '31'
language:
- iso: eng
month: '07'
oa: 1
oa_version: Published Version
pmid: 1
publication: Science Advances
publication_identifier:
  eissn:
  - 2375-2548
publication_status: published
publisher: AAAS
quality_controlled: '1'
researchdata_availability: yes
scopus_import: '1'
status: public
supplementarymaterial: yes
title: Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity
  after ketamine anesthesia
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2026'
...
---
OA_place: repository
OA_type: green
_id: '21920'
abstract:
- lang: eng
  text: 'Vertebrates display remarkable diversity of sensorimotor behaviors, each
    adapted to distinct ecological and survival demands. This diversity raises fundamental
    questions about the evolutionary origin of motor control: do conserved spinal
    circuits underlie these behaviors, and how have they diverged across species.
    Recent studies detail spinal cell-type architecture in mammals but comparable,
    high-resolution atlases of the non-mammalian spinal cord are lacking. Here, we
    compare spinal cord cell types between fish, frogs, mice and humans, spanning
    ∼450 million years of evolution. Across species, we define highly conserved programs
    of cell type specification that segregate spinal neurons into nearly identical
    cardinal classes during development. This contrasts with adult stages, when spinal
    cell-type composition selectively diverges for excitatory neuron subpopulations.
    Using spatial transcriptomics, we localize this species divergence to the superficial,
    dorsal spinal cord, where variant neuropeptide expression defines mammalian-specific
    cell types. The most dorsal spinal cord thus emerges as a recently evolved hub
    for sensory integration in mammals, a neospinal cord analogous to the neocortex.</jats:p>'
acknowledgement: "We would like to thank the members of the Sweeney Lab for discussion
  and support; Andrey\r\nBydanov for technical assistance with single-cell sequencing
  processing; and Jay Bikoff,\r\nNikos Konstantinides, Maria Tosches, and Graziana
  Gatto for comments on the manuscript. \r\nThis research was supported by: Horizon
  Europe ERC Starting Grant 101041551 (L.B.S,\r\nY.I., S.P.); Special Research Program
  (SFB) of the Austrian Science Fund (FWF) F7814-B\r\n(L.B.S., S.P., E.M.T); Austrian
  Science Fund (FWF) 10.55776/COE16 (L.B.S., Y.I., E.M.T.);\r\nAustrian Academy of
  Sciences DOC Fellowship 27229 (S.P.); ERC Advanced Grant 742046\r\n(E.M.T.); NIH
  award R24 OD031956 (L.P.); and in part by the Intramural Research\r\nProgram of
  the National Institutes of Health (NIH) through 1ZIA NS003153 to A.J.L.\r\nThe contributions
  of the NIH author are considered Works of the United States\r\nGovernment. The findings
  and conclusions presented in this paper are those of\r\nthe authors and do not necessarily
  reflect the views of the NIH or the U.S. Department\r\nof Health and Human Services. "
article_processing_charge: No
author:
- first_name: Yuri
  full_name: Ignatyev, Yuri
  last_name: Ignatyev
- first_name: Stavros
  full_name: Papadopoulos, Stavros
  id: 40606b92-f128-11eb-9611-bf66a98cfa5c
  last_name: Papadopoulos
- first_name: Mateja
  full_name: Soretić, Mateja
  last_name: Soretić
- first_name: Jake
  full_name: Yeung, Jake
  id: 123012b2-db30-11eb-b4d8-a35840c0551b
  last_name: Yeung
  orcid: 0000-0003-1732-1559
- first_name: Tzi-Yang
  full_name: Lin, Tzi-Yang
  last_name: Lin
- first_name: Elly M
  full_name: Tanaka, Elly M
  last_name: Tanaka
- first_name: Leonid
  full_name: Peshkin, Leonid
  last_name: Peshkin
- first_name: Ariel J
  full_name: Levine, Ariel J
  last_name: Levine
- first_name: Mariano I
  full_name: Gabitto, Mariano I
  last_name: Gabitto
- first_name: Lora Beatrice Jaeger
  full_name: Sweeney, Lora Beatrice Jaeger
  id: 56BE8254-C4F0-11E9-8E45-0B23E6697425
  last_name: Sweeney
  orcid: 0000-0001-9242-5601
citation:
  ama: Ignatyev Y, Papadopoulos S, Soretić M, et al. Innovations in spinal cord cell
    type heterogeneity across vertebrate evolution. <i>bioRxiv</i>. doi:<a href="https://doi.org/10.1101/2025.10.09.680955">10.1101/2025.10.09.680955</a>
  apa: Ignatyev, Y., Papadopoulos, S., Soretić, M., Yeung, J., Lin, T.-Y., Tanaka,
    E. M., … Sweeney, L. B. (n.d.). Innovations in spinal cord cell type heterogeneity
    across vertebrate evolution. <i>bioRxiv</i>. <a href="https://doi.org/10.1101/2025.10.09.680955">https://doi.org/10.1101/2025.10.09.680955</a>
  chicago: Ignatyev, Yuri, Stavros Papadopoulos, Mateja Soretić, Jake Yeung, Tzi-Yang
    Lin, Elly M Tanaka, Leonid Peshkin, Ariel J Levine, Mariano I Gabitto, and Lora
    B. Sweeney. “Innovations in Spinal Cord Cell Type Heterogeneity across Vertebrate
    Evolution.” <i>BioRxiv</i>, n.d. <a href="https://doi.org/10.1101/2025.10.09.680955">https://doi.org/10.1101/2025.10.09.680955</a>.
  ieee: Y. Ignatyev <i>et al.</i>, “Innovations in spinal cord cell type heterogeneity
    across vertebrate evolution,” <i>bioRxiv</i>. .
  ista: Ignatyev Y, Papadopoulos S, Soretić M, Yeung J, Lin T-Y, Tanaka EM, Peshkin
    L, Levine AJ, Gabitto MI, Sweeney LB. Innovations in spinal cord cell type heterogeneity
    across vertebrate evolution. bioRxiv, <a href="https://doi.org/10.1101/2025.10.09.680955">10.1101/2025.10.09.680955</a>.
  mla: Ignatyev, Yuri, et al. “Innovations in Spinal Cord Cell Type Heterogeneity
    across Vertebrate Evolution.” <i>BioRxiv</i>, doi:<a href="https://doi.org/10.1101/2025.10.09.680955">10.1101/2025.10.09.680955</a>.
  short: Y. Ignatyev, S. Papadopoulos, M. Soretić, J. Yeung, T.-Y. Lin, E.M. Tanaka,
    L. Peshkin, A.J. Levine, M.I. Gabitto, L.B. Sweeney, BioRxiv (n.d.).
corr_author: '1'
date_created: 2026-05-27T06:54:04Z
date_published: 2025-10-11T00:00:00Z
date_updated: 2026-05-27T07:25:41Z
day: '11'
department:
- _id: LoSw
- _id: ScienComp
doi: 10.1101/2025.10.09.680955
fulldoi: https://doi.org/10.1101/2025.10.09.680955
language:
- iso: eng
license: https://creativecommons.org/licenses/by-nc-nd/4.0/
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1101/2025.10.09.680955
month: '10'
oa: 1
oa_version: Preprint
project:
- _id: ebb66355-77a9-11ec-83b8-b8ac210a4dae
  grant_number: '101041551'
  name: Development and Evolution of Tetrapod Motor Circuits
- _id: 907b765e-16d5-11f0-9cad-fef108a945b1
  grant_number: '27229'
  name: 'A Tale of Two Circuits: Rostrocaudal spinal cord patterning during the swim-to-limb
    transition of Xenopus metamorphosis'
publication: bioRxiv
publication_status: submitted
status: public
title: Innovations in spinal cord cell type heterogeneity across vertebrate evolution
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: preprint
user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9
year: '2025'
...
---
_id: '12106'
abstract:
- lang: eng
  text: Regulation of chromatin states involves the dynamic interplay between different
    histone modifications to control gene expression. Recent advances have enabled
    mapping of histone marks in single cells, but most methods are constrained to
    profile only one histone mark per cell. Here, we present an integrated experimental
    and computational framework, scChIX-seq (single-cell chromatin immunocleavage
    and unmixing sequencing), to map several histone marks in single cells. scChIX-seq
    multiplexes two histone marks together in single cells, then computationally deconvolves
    the signal using training data from respective histone mark profiles. This framework
    learns the cell-type-specific correlation structure between histone marks, and
    therefore does not require a priori assumptions of their genomic distributions.
    Using scChIX-seq, we demonstrate multimodal analysis of histone marks in single
    cells across a range of mark combinations. Modeling dynamics of in vitro macrophage
    differentiation enables integrated analysis of chromatin velocity. Overall, scChIX-seq
    unlocks systematic interrogation of the interplay between histone modifications
    in single cells.
acknowledgement: We thank M. van Loenhout for experimental advice on purifying cell
  types from the bone marrow, R. van der Linden for expertise with FACS and M. Blotenburg
  for help with cell typing the mouse organogenesis dataset. We thank M. Saraswat
  and O. Stegle for discussions on multinomial distributions. This work was supported
  by a European Research Council Advanced grant (ERC-AdG 742225-IntScOmics); Nederlandse
  Organisatie voor Wetenschappelijk Onderzoek (NWO) TOP grant (NWO CW 714.016.001)
  and NWO grant (OCENW.GROOT.2019.017); the Swiss National Science Foundation Early
  Postdoc Mobility (P2ELP3-184488 to P.Z. and P2BSP3-174991 to J.Y.); Marie Sklodowska-Curie
  Actions Postdoc (798573 to P.Z.) and the Human Frontier for Science Program Long-Term
  Fellowships (LT000209-2018-L to P.Z. and LT000097-2019-L to J.Y.). This work is
  part of the Oncode Institute which is financed partly by the Dutch Cancer Society.
article_processing_charge: No
article_type: original
author:
- first_name: Jake
  full_name: Yeung, Jake
  id: 123012b2-db30-11eb-b4d8-a35840c0551b
  last_name: Yeung
  orcid: 0000-0003-1732-1559
- first_name: Maria
  full_name: Florescu, Maria
  last_name: Florescu
- first_name: Peter
  full_name: Zeller, Peter
  last_name: Zeller
- first_name: Buys Anton
  full_name: De Barbanson, Buys Anton
  last_name: De Barbanson
- first_name: Max D.
  full_name: Wellenstein, Max D.
  last_name: Wellenstein
- first_name: Alexander
  full_name: Van Oudenaarden, Alexander
  last_name: Van Oudenaarden
citation:
  ama: Yeung J, Florescu M, Zeller P, De Barbanson BA, Wellenstein MD, Van Oudenaarden
    A. scChIX-seq infers dynamic relationships between histone modifications in single
    cells. <i>Nature Biotechnology</i>. 2023;41:813–823. doi:<a href="https://doi.org/10.1038/s41587-022-01560-3">10.1038/s41587-022-01560-3</a>
  apa: Yeung, J., Florescu, M., Zeller, P., De Barbanson, B. A., Wellenstein, M. D.,
    &#38; Van Oudenaarden, A. (2023). scChIX-seq infers dynamic relationships between
    histone modifications in single cells. <i>Nature Biotechnology</i>. Springer Nature.
    <a href="https://doi.org/10.1038/s41587-022-01560-3">https://doi.org/10.1038/s41587-022-01560-3</a>
  chicago: Yeung, Jake, Maria Florescu, Peter Zeller, Buys Anton De Barbanson, Max
    D. Wellenstein, and Alexander Van Oudenaarden. “ScChIX-Seq Infers Dynamic Relationships
    between Histone Modifications in Single Cells.” <i>Nature Biotechnology</i>. Springer
    Nature, 2023. <a href="https://doi.org/10.1038/s41587-022-01560-3">https://doi.org/10.1038/s41587-022-01560-3</a>.
  ieee: J. Yeung, M. Florescu, P. Zeller, B. A. De Barbanson, M. D. Wellenstein, and
    A. Van Oudenaarden, “scChIX-seq infers dynamic relationships between histone modifications
    in single cells,” <i>Nature Biotechnology</i>, vol. 41. Springer Nature, pp. 813–823,
    2023.
  ista: Yeung J, Florescu M, Zeller P, De Barbanson BA, Wellenstein MD, Van Oudenaarden
    A. 2023. scChIX-seq infers dynamic relationships between histone modifications
    in single cells. Nature Biotechnology. 41, 813–823.
  mla: Yeung, Jake, et al. “ScChIX-Seq Infers Dynamic Relationships between Histone
    Modifications in Single Cells.” <i>Nature Biotechnology</i>, vol. 41, Springer
    Nature, 2023, pp. 813–823, doi:<a href="https://doi.org/10.1038/s41587-022-01560-3">10.1038/s41587-022-01560-3</a>.
  short: J. Yeung, M. Florescu, P. Zeller, B.A. De Barbanson, M.D. Wellenstein, A.
    Van Oudenaarden, Nature Biotechnology 41 (2023) 813–823.
corr_author: '1'
date_created: 2023-01-08T23:00:53Z
date_published: 2023-06-01T00:00:00Z
date_updated: 2025-04-23T08:45:24Z
day: '01'
ddc:
- '570'
department:
- _id: ScienComp
doi: 10.1038/s41587-022-01560-3
external_id:
  isi:
  - '000909067600003'
  pmid:
  - '36593403'
file:
- access_level: open_access
  checksum: 668447a1c8d360b68f8aaf9e08ed644f
  content_type: application/pdf
  creator: dernst
  date_created: 2023-08-16T11:30:45Z
  date_updated: 2023-08-16T11:30:45Z
  file_id: '14066'
  file_name: 2023_NatureBioTech_Yeung.pdf
  file_size: 12040976
  relation: main_file
  success: 1
file_date_updated: 2023-08-16T11:30:45Z
fulldoi: https://doi.org/10.1038/s41587-022-01560-3
has_accepted_license: '1'
intvolume: '        41'
isi: 1
language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
page: 813–823
pmid: 1
publication: Nature Biotechnology
publication_identifier:
  eissn:
  - 1546-1696
  issn:
  - 1087-0156
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
scopus_import: '1'
status: public
title: scChIX-seq infers dynamic relationships between histone modifications in single
  cells
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: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 41
year: '2023'
...
---
_id: '12158'
abstract:
- lang: eng
  text: 'Post-translational histone modifications modulate chromatin activity to affect
    gene expression. How chromatin states underlie lineage choice in single cells
    is relatively unexplored. We develop sort-assisted single-cell chromatin immunocleavage
    (sortChIC) and map active (H3K4me1 and H3K4me3) and repressive (H3K27me3 and H3K9me3)
    histone modifications in the mouse bone marrow. During differentiation, hematopoietic
    stem and progenitor cells (HSPCs) acquire active chromatin states mediated by
    cell-type-specifying transcription factors, which are unique for each lineage.
    By contrast, most alterations in repressive marks during differentiation occur
    independent of the final cell type. Chromatin trajectory analysis shows that lineage
    choice at the chromatin level occurs at the progenitor stage. Joint profiling
    of H3K4me1 and H3K9me3 demonstrates that cell types within the myeloid lineage
    have distinct active chromatin but share similar myeloid-specific heterochromatin
    states. This implies a hierarchical regulation of chromatin during hematopoiesis:
    heterochromatin dynamics distinguish differentiation trajectories and lineages,
    while euchromatin dynamics reflect cell types within lineages.'
acknowledgement: We thank A. Giladi for sharing mRNA abundance tables of cell types
  together with J. van den Berg for critical reading of the manuscript. We thank M.
  Bartosovic for sharing method comparison data. pK19pA-MN was a gift from Ulrich
  Laemmli (Addgene plasmid 86973, http://n2t.net/addgene:86973; RRID:Addgene_86973).
  Figure 8 is adopted from Hematopoiesis (human) diagram by A. Rad and M. Häggström
  under CC-BY-SA 3.0 license. This work was supported by European Research Council
  Advanced under grant ERC-AdG 742225-IntScOmics and Nederlandse Organisatie voor
  Wetenschappelijk Onderzoek (NWO) TOP award NWO-CW 714.016.001. The SNF (P2BSP3-174991),
  HFSP (LT000209/2018-L) and Marie Skłodowska-Curie Actions (798573) supported P.Z.
  The SNF (P2ELP3_184488) and HFSP (LT000097/2019-L) supported J.Y. and the EMBO LTF
  (ALTF 1197–2019) supported V.B. This work is part of the Oncode Institute, which
  is partly financed by the Dutch Cancer Society. The funders had no role in study
  design, data collection and analysis, decision to publish or preparation of the
  manuscript.
article_processing_charge: No
article_type: review
author:
- first_name: Peter
  full_name: Zeller, Peter
  last_name: Zeller
- first_name: Jake
  full_name: Yeung, Jake
  id: 123012b2-db30-11eb-b4d8-a35840c0551b
  last_name: Yeung
  orcid: 0000-0003-1732-1559
- first_name: Helena
  full_name: Viñas Gaza, Helena
  last_name: Viñas Gaza
- first_name: Buys Anton
  full_name: de Barbanson, Buys Anton
  last_name: de Barbanson
- first_name: Vivek
  full_name: Bhardwaj, Vivek
  last_name: Bhardwaj
- first_name: Maria
  full_name: Florescu, Maria
  last_name: Florescu
- first_name: Reinier
  full_name: van der Linden, Reinier
  last_name: van der Linden
- first_name: Alexander
  full_name: van Oudenaarden, Alexander
  last_name: van Oudenaarden
citation:
  ama: Zeller P, Yeung J, Viñas Gaza H, et al. Single-cell sortChIC identifies hierarchical
    chromatin dynamics during hematopoiesis. <i>Nature Genetics</i>. 2023;55:333-345.
    doi:<a href="https://doi.org/10.1038/s41588-022-01260-3">10.1038/s41588-022-01260-3</a>
  apa: Zeller, P., Yeung, J., Viñas Gaza, H., de Barbanson, B. A., Bhardwaj, V., Florescu,
    M., … van Oudenaarden, A. (2023). Single-cell sortChIC identifies hierarchical
    chromatin dynamics during hematopoiesis. <i>Nature Genetics</i>. Springer Nature.
    <a href="https://doi.org/10.1038/s41588-022-01260-3">https://doi.org/10.1038/s41588-022-01260-3</a>
  chicago: Zeller, Peter, Jake Yeung, Helena Viñas Gaza, Buys Anton de Barbanson,
    Vivek Bhardwaj, Maria Florescu, Reinier van der Linden, and Alexander van Oudenaarden.
    “Single-Cell SortChIC Identifies Hierarchical Chromatin Dynamics during Hematopoiesis.”
    <i>Nature Genetics</i>. Springer Nature, 2023. <a href="https://doi.org/10.1038/s41588-022-01260-3">https://doi.org/10.1038/s41588-022-01260-3</a>.
  ieee: P. Zeller <i>et al.</i>, “Single-cell sortChIC identifies hierarchical chromatin
    dynamics during hematopoiesis,” <i>Nature Genetics</i>, vol. 55. Springer Nature,
    pp. 333–345, 2023.
  ista: Zeller P, Yeung J, Viñas Gaza H, de Barbanson BA, Bhardwaj V, Florescu M,
    van der Linden R, van Oudenaarden A. 2023. Single-cell sortChIC identifies hierarchical
    chromatin dynamics during hematopoiesis. Nature Genetics. 55, 333–345.
  mla: Zeller, Peter, et al. “Single-Cell SortChIC Identifies Hierarchical Chromatin
    Dynamics during Hematopoiesis.” <i>Nature Genetics</i>, vol. 55, Springer Nature,
    2023, pp. 333–45, doi:<a href="https://doi.org/10.1038/s41588-022-01260-3">10.1038/s41588-022-01260-3</a>.
  short: P. Zeller, J. Yeung, H. Viñas Gaza, B.A. de Barbanson, V. Bhardwaj, M. Florescu,
    R. van der Linden, A. van Oudenaarden, Nature Genetics 55 (2023) 333–345.
date_created: 2023-01-12T12:09:09Z
date_published: 2023-02-01T00:00:00Z
date_updated: 2025-04-23T08:45:00Z
day: '01'
ddc:
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department:
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doi: 10.1038/s41588-022-01260-3
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fulldoi: https://doi.org/10.1038/s41588-022-01260-3
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keyword:
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language:
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publication: Nature Genetics
publication_identifier:
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title: Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis
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