---
_id: '4140'
abstract:
- lang: eng
  text: Wnt11 is a key signal, determining cell polarization and migration during
    vertebrate gastrulation. It is known that Wnt11 functionally interacts with several
    signaling components, the homologues of which control planar cell polarity in
    Drosophila melanogaster. Although in D. melanogaster these components are thought
    to polarize cells by asymmetrically localizing at the plasma membrane, it is not
    yet clear whether their subcellular localization plays a similarly important role
    in vertebrates. We show that in zebrafish embryonic cells, Wnt11 locally functions
    at the plasma membrane by accumulating its receptor, Frizzled 7, on adjacent sites
    of cell contacts. Wnt11-induced Frizzled 7 accumulations recruit the intracellular
    Wnt signaling mediator Dishevelled, as well as Wnt11 itself, and locally increase
    cell contact persistence. This increase in cell contact persistence is mediated
    by the local interaction of Wnt11, Frizzled 7, and the atypical cadherin Flamingo
    at the plasma membrane, and it does not require the activity of further downstream
    effectors of Wnt11 signaling, such as RhoA and Rok2. We propose that Wnt11, by
    interacting with Frizzled 7 and Flamingo, modulates local cell contact persistence
    to coordinate cell movements during gastrulation.
article_processing_charge: No
author:
- first_name: Sabine
  full_name: Witzel, Sabine
  last_name: Witzel
- first_name: Vitaly
  full_name: Zimyanin, Vitaly
  last_name: Zimyanin
- first_name: Filipa
  full_name: Carreira Barbosa, Filipa
  last_name: Carreira Barbosa
- first_name: Masazumi
  full_name: Tada, Masazumi
  last_name: Tada
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: Witzel S, Zimyanin V, Carreira Barbosa F, Tada M, Heisenberg C-PJ. Wnt11 controls
    cell contact persistence by local accumulation of Frizzled 7 at the plasma membrane.
    <i>Journal of Cell Biology</i>. 2006;175(5):791-802. doi:<a href="https://doi.org/10.1083/jcb.200606017">10.1083/jcb.200606017</a>
  apa: Witzel, S., Zimyanin, V., Carreira Barbosa, F., Tada, M., &#38; Heisenberg,
    C.-P. J. (2006). Wnt11 controls cell contact persistence by local accumulation
    of Frizzled 7 at the plasma membrane. <i>Journal of Cell Biology</i>. Rockefeller
    University Press. <a href="https://doi.org/10.1083/jcb.200606017">https://doi.org/10.1083/jcb.200606017</a>
  chicago: Witzel, Sabine, Vitaly Zimyanin, Filipa Carreira Barbosa, Masazumi Tada,
    and Carl-Philipp J Heisenberg. “Wnt11 Controls Cell Contact Persistence by Local
    Accumulation of Frizzled 7 at the Plasma Membrane.” <i>Journal of Cell Biology</i>.
    Rockefeller University Press, 2006. <a href="https://doi.org/10.1083/jcb.200606017">https://doi.org/10.1083/jcb.200606017</a>.
  ieee: S. Witzel, V. Zimyanin, F. Carreira Barbosa, M. Tada, and C.-P. J. Heisenberg,
    “Wnt11 controls cell contact persistence by local accumulation of Frizzled 7 at
    the plasma membrane,” <i>Journal of Cell Biology</i>, vol. 175, no. 5. Rockefeller
    University Press, pp. 791–802, 2006.
  ista: Witzel S, Zimyanin V, Carreira Barbosa F, Tada M, Heisenberg C-PJ. 2006. Wnt11
    controls cell contact persistence by local accumulation of Frizzled 7 at the plasma
    membrane. Journal of Cell Biology. 175(5), 791–802.
  mla: Witzel, Sabine, et al. “Wnt11 Controls Cell Contact Persistence by Local Accumulation
    of Frizzled 7 at the Plasma Membrane.” <i>Journal of Cell Biology</i>, vol. 175,
    no. 5, Rockefeller University Press, 2006, pp. 791–802, doi:<a href="https://doi.org/10.1083/jcb.200606017">10.1083/jcb.200606017</a>.
  short: S. Witzel, V. Zimyanin, F. Carreira Barbosa, M. Tada, C.-P.J. Heisenberg,
    Journal of Cell Biology 175 (2006) 791–802.
date_created: 2018-12-11T12:07:11Z
date_published: 2006-12-04T00:00:00Z
date_updated: 2021-01-12T07:54:48Z
day: '04'
doi: 10.1083/jcb.200606017
extern: '1'
intvolume: '       175'
issue: '5'
language:
- iso: eng
month: '12'
oa_version: None
page: 791 - 802
publication: Journal of Cell Biology
publication_status: published
publisher: Rockefeller University Press
publist_id: '1980'
status: public
title: Wnt11 controls cell contact persistence by local accumulation of Frizzled 7
  at the plasma membrane
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 175
year: '2006'
...
---
_id: '4145'
abstract:
- lang: eng
  text: The detection of microRNAs (miRNAs) at single-cell resolution is important
    for studying the role of these posttranscriptional regulators. Here, we use a
    dual-fluorescent green fluorescent protein (GFP)-reporter/monomeric red fluorescent
    protein (mRFP)-sensor (DFRS) plasmid, injected into zebrafish blastomeres or electroporated
    into defined tissues of mouse embryos in utero or ex utero, to monitor the dynamics
    of specific miRNAs in individual live cells. This approach reveals, for example,
    that in the developing mouse central nervous system,, miR-124a is expressed not
    only in postmitotic neurons but also in neuronal progenitor cells. Collectively,
    our results demonstrate that acute administration of DFRS plasmids.offers an alternative
    to previous in situ hybridization and transgenic approaches and allows the monitoring
    of miRNA appearance and disappearance in defined cell lineages during vertebrate
    development.
article_processing_charge: No
author:
- first_name: Davide
  full_name: Tonelli, Davide
  last_name: Tonelli
- first_name: Frederico
  full_name: Calegari, Frederico
  last_name: Calegari
- first_name: Ji
  full_name: Fei, Ji
  last_name: Fei
- first_name: Tadashi
  full_name: Nomura, Tadashi
  last_name: Nomura
- first_name: Noriko
  full_name: Osumi, Noriko
  last_name: Osumi
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
- first_name: Wieland
  full_name: Huttner, Wieland
  last_name: Huttner
citation:
  ama: Tonelli D, Calegari F, Fei J, et al. Single-cell detection of microRNAs in
    developing vertebrate embryos after acute administration of a dual-fluorescence
    reporter/sensor plasmid. <i>Biotechniques</i>. 2006;41(6):727-732. doi:<a href="https://doi.org/10.2144/000112296">10.2144/000112296</a>
  apa: Tonelli, D., Calegari, F., Fei, J., Nomura, T., Osumi, N., Heisenberg, C.-P.
    J., &#38; Huttner, W. (2006). Single-cell detection of microRNAs in developing
    vertebrate embryos after acute administration of a dual-fluorescence reporter/sensor
    plasmid. <i>Biotechniques</i>. Informa Healthcare. <a href="https://doi.org/10.2144/000112296">https://doi.org/10.2144/000112296</a>
  chicago: Tonelli, Davide, Frederico Calegari, Ji Fei, Tadashi Nomura, Noriko Osumi,
    Carl-Philipp J Heisenberg, and Wieland Huttner. “Single-Cell Detection of MicroRNAs
    in Developing Vertebrate Embryos after Acute Administration of a Dual-Fluorescence
    Reporter/Sensor Plasmid.” <i>Biotechniques</i>. Informa Healthcare, 2006. <a href="https://doi.org/10.2144/000112296">https://doi.org/10.2144/000112296</a>.
  ieee: D. Tonelli <i>et al.</i>, “Single-cell detection of microRNAs in developing
    vertebrate embryos after acute administration of a dual-fluorescence reporter/sensor
    plasmid,” <i>Biotechniques</i>, vol. 41, no. 6. Informa Healthcare, pp. 727–732,
    2006.
  ista: Tonelli D, Calegari F, Fei J, Nomura T, Osumi N, Heisenberg C-PJ, Huttner
    W. 2006. Single-cell detection of microRNAs in developing vertebrate embryos after
    acute administration of a dual-fluorescence reporter/sensor plasmid. Biotechniques.
    41(6), 727–732.
  mla: Tonelli, Davide, et al. “Single-Cell Detection of MicroRNAs in Developing Vertebrate
    Embryos after Acute Administration of a Dual-Fluorescence Reporter/Sensor Plasmid.”
    <i>Biotechniques</i>, vol. 41, no. 6, Informa Healthcare, 2006, pp. 727–32, doi:<a
    href="https://doi.org/10.2144/000112296">10.2144/000112296</a>.
  short: D. Tonelli, F. Calegari, J. Fei, T. Nomura, N. Osumi, C.-P.J. Heisenberg,
    W. Huttner, Biotechniques 41 (2006) 727–732.
date_created: 2018-12-11T12:07:12Z
date_published: 2006-12-01T00:00:00Z
date_updated: 2021-01-12T07:54:50Z
day: '01'
doi: 10.2144/000112296
extern: '1'
intvolume: '        41'
issue: '6'
language:
- iso: eng
month: '12'
oa_version: None
page: 727 - 732
publication: Biotechniques
publication_status: published
publisher: Informa Healthcare
publist_id: '1974'
status: public
title: Single-cell detection of microRNAs in developing vertebrate embryos after acute
  administration of a dual-fluorescence reporter/sensor plasmid
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 41
year: '2006'
...
---
_id: '4173'
abstract:
- lang: eng
  text: 'Background: Zebrafish (D. rerio) has become a powerful and widely used model
    system for the analysis of vertebrate embryogenesis and organ development. While
    genetic methods are readily available in zebrafish, protocols for two dimensional
    (2D) gel electrophoresis and proteomics have yet to be developed. Results: As
    a prerequisite to carry out proteomic experiments with early zebrafish embryos,
    we developed a method to efficiently remove the yolk from large batches of embryos.
    This method enabled high resolution 2D gel electrophoresis and improved Western
    blotting considerably. Here, we provide detailed protocols for proteomics in zebrafish
    from sample preparation to mass spectrometry (MS), including a comparison of databases
    for MS identification of zebrafish proteins. Conclusion: The provided protocols
    for proteomic analysis of early embryos enable research to be taken in novel directions
    in embryogenesis.'
article_processing_charge: No
author:
- first_name: Vinzenz
  full_name: Link, Vinzenz
  last_name: Link
- first_name: Andrej
  full_name: Shevchenko, Andrej
  last_name: Shevchenko
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: Link V, Shevchenko A, Heisenberg C-PJ. Proteomics of early zebrafish embryos.
    <i>BMC Developmental Biology</i>. 2006;6:1-9. doi:<a href="https://doi.org/10.1186/1471-213X-6-1">10.1186/1471-213X-6-1</a>
  apa: Link, V., Shevchenko, A., &#38; Heisenberg, C.-P. J. (2006). Proteomics of
    early zebrafish embryos. <i>BMC Developmental Biology</i>. BioMed Central. <a
    href="https://doi.org/10.1186/1471-213X-6-1">https://doi.org/10.1186/1471-213X-6-1</a>
  chicago: Link, Vinzenz, Andrej Shevchenko, and Carl-Philipp J Heisenberg. “Proteomics
    of Early Zebrafish Embryos.” <i>BMC Developmental Biology</i>. BioMed Central,
    2006. <a href="https://doi.org/10.1186/1471-213X-6-1">https://doi.org/10.1186/1471-213X-6-1</a>.
  ieee: V. Link, A. Shevchenko, and C.-P. J. Heisenberg, “Proteomics of early zebrafish
    embryos,” <i>BMC Developmental Biology</i>, vol. 6. BioMed Central, pp. 1–9, 2006.
  ista: Link V, Shevchenko A, Heisenberg C-PJ. 2006. Proteomics of early zebrafish
    embryos. BMC Developmental Biology. 6, 1–9.
  mla: Link, Vinzenz, et al. “Proteomics of Early Zebrafish Embryos.” <i>BMC Developmental
    Biology</i>, vol. 6, BioMed Central, 2006, pp. 1–9, doi:<a href="https://doi.org/10.1186/1471-213X-6-1">10.1186/1471-213X-6-1</a>.
  short: V. Link, A. Shevchenko, C.-P.J. Heisenberg, BMC Developmental Biology 6 (2006)
    1–9.
date_created: 2018-12-11T12:07:23Z
date_published: 2006-01-13T00:00:00Z
date_updated: 2021-01-12T07:55:02Z
day: '13'
doi: 10.1186/1471-213X-6-1
extern: '1'
intvolume: '         6'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: http://www.biomedcentral.com/1471-213X/6/1
month: '01'
oa: 1
oa_version: None
page: 1 - 9
publication: BMC Developmental Biology
publication_status: published
publisher: BioMed Central
publist_id: '1945'
status: public
title: Proteomics of early zebrafish embryos
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: 6
year: '2006'
...
---
_id: '4176'
abstract:
- lang: eng
  text: 'During vertebrate gastrulation, a well-orchestrated series of morphogenetic
    changes leads to the formation of the three germ layers: the ectoderm, mesoderm
    and endoderm. The analysis of gene expression patterns during gastrulation has
    been central to the identification of genes involved in germ layer formation.
    However, many proteins are regulated on a translational or post-translational
    level and are thus undetectable by gene expression analysis. Therefore, we developed
    a 2D-gel-based comparative proteomic approach to target proteins involved in germ
    layer morphogenesis during zebrafish gastrulation. Proteomes of ectodermal and
    mesendodermal progenitor cells were compared and 35 significantly regulated proteins
    were identified by mass spectrometry, including several proteins with predicted
    functions in cytoskeletal organization. A comparison of our proteomic results
    with data obtained in an accompanying microarray-based gene expression analysis
    revealed no significant overlap, confirming the complementary nature of proteomics
    and transcriptomics. The regulation of ezrin2, which was identified based on a
    reduction in spot intensity in mesendodermal cells, was independently validated.
    Furthermore, we show that ezrin2 is activated by phosphorylation in mesendodermal
    cells and is required for proper germ layer morphogenesis. We demonstrate the
    feasibility of proteomics in zebrafish, concluding that proteomics is a valuable
    tool for analysis of early development.'
article_processing_charge: No
author:
- first_name: Vinzenz
  full_name: Link, Vinzenz
  last_name: Link
- first_name: Lara
  full_name: Carvalho, Lara
  last_name: Carvalho
- first_name: Irinka
  full_name: Castanon, Irinka
  last_name: Castanon
- first_name: Petra
  full_name: Stockinger, Petra
  last_name: Stockinger
- first_name: Andrej
  full_name: Shevchenko, Andrej
  last_name: Shevchenko
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: Link V, Carvalho L, Castanon I, Stockinger P, Shevchenko A, Heisenberg C-PJ.
    Identification of regulators of germ layer morphogenesis using proteomics in zebrafish.
    <i>Journal of Cell Science</i>. 2006;119(10):2073-2083. doi:<a href="https://doi.org/10.1242/jcs.02928">10.1242/jcs.02928</a>
  apa: Link, V., Carvalho, L., Castanon, I., Stockinger, P., Shevchenko, A., &#38;
    Heisenberg, C.-P. J. (2006). Identification of regulators of germ layer morphogenesis
    using proteomics in zebrafish. <i>Journal of Cell Science</i>. Company of Biologists.
    <a href="https://doi.org/10.1242/jcs.02928">https://doi.org/10.1242/jcs.02928</a>
  chicago: Link, Vinzenz, Lara Carvalho, Irinka Castanon, Petra Stockinger, Andrej
    Shevchenko, and Carl-Philipp J Heisenberg. “Identification of Regulators of Germ
    Layer Morphogenesis Using Proteomics in Zebrafish.” <i>Journal of Cell Science</i>.
    Company of Biologists, 2006. <a href="https://doi.org/10.1242/jcs.02928">https://doi.org/10.1242/jcs.02928</a>.
  ieee: V. Link, L. Carvalho, I. Castanon, P. Stockinger, A. Shevchenko, and C.-P.
    J. Heisenberg, “Identification of regulators of germ layer morphogenesis using
    proteomics in zebrafish,” <i>Journal of Cell Science</i>, vol. 119, no. 10. Company
    of Biologists, pp. 2073–2083, 2006.
  ista: Link V, Carvalho L, Castanon I, Stockinger P, Shevchenko A, Heisenberg C-PJ.
    2006. Identification of regulators of germ layer morphogenesis using proteomics
    in zebrafish. Journal of Cell Science. 119(10), 2073–2083.
  mla: Link, Vinzenz, et al. “Identification of Regulators of Germ Layer Morphogenesis
    Using Proteomics in Zebrafish.” <i>Journal of Cell Science</i>, vol. 119, no.
    10, Company of Biologists, 2006, pp. 2073–83, doi:<a href="https://doi.org/10.1242/jcs.02928">10.1242/jcs.02928</a>.
  short: V. Link, L. Carvalho, I. Castanon, P. Stockinger, A. Shevchenko, C.-P.J.
    Heisenberg, Journal of Cell Science 119 (2006) 2073–2083.
date_created: 2018-12-11T12:07:24Z
date_published: 2006-05-15T00:00:00Z
date_updated: 2021-01-12T07:55:04Z
day: '15'
doi: 10.1242/jcs.02928
extern: '1'
intvolume: '       119'
issue: '10'
language:
- iso: eng
month: '05'
oa_version: None
page: 2073 - 2083
publication: Journal of Cell Science
publication_status: published
publisher: Company of Biologists
publist_id: '1944'
status: public
title: Identification of regulators of germ layer morphogenesis using proteomics in
  zebrafish
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 119
year: '2006'
...
---
_id: '4178'
abstract:
- lang: eng
  text: Detailed reconstruction of the spatiotemporal history of embryonic cells is
    key to understanding tissue formation processes but is often complicated by the
    large number of cells involved, particularly so in vertebrates. Through a combination
    of high-resolution time-lapse lineage tracing and antibody staining, we have analyzed
    the movement of mesencephalic and metencephalic cell populations in the early
    zebrafish embryo. To facilitate the analysis of our cell tracking data, we have
    created TracePilot, a software tool that allows interactive manipulation and visualization
    of tracking data. We demonstrate its utility by showing novel visualizations of
    cell movement in the developing zebrafish brain. TracePilot (http://www.mpi-cbg.de/tracepilot)
    is Java-based, available free of charge, and has a program structure that allows
    the incorporation of additional analysis tools.
article_processing_charge: No
author:
- first_name: Tobias
  full_name: Langenberg, Tobias
  last_name: Langenberg
- first_name: Tadeusz
  full_name: Dracz, Tadeusz
  last_name: Dracz
- first_name: Andrew
  full_name: Oates, Andrew
  last_name: Oates
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
- first_name: Michael
  full_name: Brand, Michael
  last_name: Brand
citation:
  ama: Langenberg T, Dracz T, Oates A, Heisenberg C-PJ, Brand M. Analysis and visualization
    of cell movement in the developing zebrafish brain. <i>Developmental Dynamics</i>.
    2006;235(4):928-933. doi:<a href="https://doi.org/10.1002/dvdy.20692">10.1002/dvdy.20692</a>
  apa: Langenberg, T., Dracz, T., Oates, A., Heisenberg, C.-P. J., &#38; Brand, M.
    (2006). Analysis and visualization of cell movement in the developing zebrafish
    brain. <i>Developmental Dynamics</i>. Wiley-Blackwell. <a href="https://doi.org/10.1002/dvdy.20692">https://doi.org/10.1002/dvdy.20692</a>
  chicago: Langenberg, Tobias, Tadeusz Dracz, Andrew Oates, Carl-Philipp J Heisenberg,
    and Michael Brand. “Analysis and Visualization of Cell Movement in the Developing
    Zebrafish Brain.” <i>Developmental Dynamics</i>. Wiley-Blackwell, 2006. <a href="https://doi.org/10.1002/dvdy.20692">https://doi.org/10.1002/dvdy.20692</a>.
  ieee: T. Langenberg, T. Dracz, A. Oates, C.-P. J. Heisenberg, and M. Brand, “Analysis
    and visualization of cell movement in the developing zebrafish brain,” <i>Developmental
    Dynamics</i>, vol. 235, no. 4. Wiley-Blackwell, pp. 928–933, 2006.
  ista: Langenberg T, Dracz T, Oates A, Heisenberg C-PJ, Brand M. 2006. Analysis and
    visualization of cell movement in the developing zebrafish brain. Developmental
    Dynamics. 235(4), 928–933.
  mla: Langenberg, Tobias, et al. “Analysis and Visualization of Cell Movement in
    the Developing Zebrafish Brain.” <i>Developmental Dynamics</i>, vol. 235, no.
    4, Wiley-Blackwell, 2006, pp. 928–33, doi:<a href="https://doi.org/10.1002/dvdy.20692">10.1002/dvdy.20692</a>.
  short: T. Langenberg, T. Dracz, A. Oates, C.-P.J. Heisenberg, M. Brand, Developmental
    Dynamics 235 (2006) 928–933.
date_created: 2018-12-11T12:07:25Z
date_published: 2006-04-01T00:00:00Z
date_updated: 2021-01-12T07:55:04Z
day: '01'
doi: 10.1002/dvdy.20692
extern: '1'
intvolume: '       235'
issue: '4'
language:
- iso: eng
month: '04'
oa_version: None
page: 928 - 933
publication: Developmental Dynamics
publication_status: published
publisher: Wiley-Blackwell
publist_id: '1940'
status: public
title: Analysis and visualization of cell movement in the developing zebrafish brain
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 235
year: '2006'
...
---
_id: '4184'
abstract:
- lang: eng
  text: Epithelial morphogenesis depends on coordinated changes in cell shape, a process
    that is still poorly understood. During zebrafish epiboly and Drosophila dorsal
    closure, cell-shape changes at the epithelial margin are of critical importance.
    Here evidence is provided for a conserved mechanism of local actin and myosin
    2 recruitment during theses events. It was found that during epiboly of the zebrafish
    embryo, the movement of the outer epithelium (enveloping layer) over the yolk
    cell surface involves the constriction of marginal cells. This process depends
    on the recruitment of actin and myosin 2 within the yolk cytoplasm along the margin
    of the enveloping layer. Actin and myosin 2 recruitment within the yolk cytoplasm
    requires the Ste20-like kinase Msn1, an orthologue of Drosophila Misshapen. Similarly,
    in Drosophila, actin and myosin 2 localization and cell constriction at the margin
    of the epidermis mediate dorsal closure and are controlled by Misshapen. Thus,
    this study has characterized a conserved mechanism underlying coordinated cell-shape
    changes during epithelial morphogenesis.
article_processing_charge: No
author:
- first_name: Mathias
  full_name: Köppen, Mathias
  last_name: Köppen
- first_name: Beatriz
  full_name: Fernández, Beatriz
  last_name: Fernández
- first_name: Lara
  full_name: Carvalho, Lara
  last_name: Carvalho
- first_name: António
  full_name: Jacinto, António
  last_name: Jacinto
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
citation:
  ama: 'Köppen M, Fernández B, Carvalho L, Jacinto A, Heisenberg C-PJ. Coordinated
    cell-shape changes control epithelial movement in zebrafish and Drosophila. <i>Development</i>.
    2006;133(14):2671-2681. doi:<a href="https://doi.org/doi: 10.1242/dev.02439">doi:
    10.1242/dev.02439</a>'
  apa: 'Köppen, M., Fernández, B., Carvalho, L., Jacinto, A., &#38; Heisenberg, C.-P.
    J. (2006). Coordinated cell-shape changes control epithelial movement in zebrafish
    and Drosophila. <i>Development</i>. Company of Biologists. <a href="https://doi.org/doi:
    10.1242/dev.02439">https://doi.org/doi: 10.1242/dev.02439</a>'
  chicago: 'Köppen, Mathias, Beatriz Fernández, Lara Carvalho, António Jacinto, and
    Carl-Philipp J Heisenberg. “Coordinated Cell-Shape Changes Control Epithelial
    Movement in Zebrafish and Drosophila.” <i>Development</i>. Company of Biologists,
    2006. <a href="https://doi.org/doi: 10.1242/dev.02439">https://doi.org/doi: 10.1242/dev.02439</a>.'
  ieee: M. Köppen, B. Fernández, L. Carvalho, A. Jacinto, and C.-P. J. Heisenberg,
    “Coordinated cell-shape changes control epithelial movement in zebrafish and Drosophila,”
    <i>Development</i>, vol. 133, no. 14. Company of Biologists, pp. 2671–2681, 2006.
  ista: Köppen M, Fernández B, Carvalho L, Jacinto A, Heisenberg C-PJ. 2006. Coordinated
    cell-shape changes control epithelial movement in zebrafish and Drosophila. Development.
    133(14), 2671–2681.
  mla: 'Köppen, Mathias, et al. “Coordinated Cell-Shape Changes Control Epithelial
    Movement in Zebrafish and Drosophila.” <i>Development</i>, vol. 133, no. 14, Company
    of Biologists, 2006, pp. 2671–81, doi:<a href="https://doi.org/doi: 10.1242/dev.02439">doi:
    10.1242/dev.02439</a>.'
  short: M. Köppen, B. Fernández, L. Carvalho, A. Jacinto, C.-P.J. Heisenberg, Development
    133 (2006) 2671–2681.
date_created: 2018-12-11T12:07:27Z
date_published: 2006-07-15T00:00:00Z
date_updated: 2021-01-12T07:55:08Z
day: '15'
doi: 'doi: 10.1242/dev.02439'
extern: '1'
intvolume: '       133'
issue: '14'
language:
- iso: eng
month: '07'
oa_version: None
page: 2671 - 2681
publication: Development
publication_status: published
publisher: Company of Biologists
publist_id: '1935'
status: public
title: Coordinated cell-shape changes control epithelial movement in zebrafish and
  Drosophila
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 133
year: '2006'
...
---
_id: '4218'
abstract:
- lang: eng
  text: The molecular and cellular mechanisms governing cell motility and directed
    migration in response to the chemokine SDF-1 are largely unknown. Here, we demonstrate
    that zebrafish primordial germ cells whose migration is guided by SDF-1 generate
    bleb-like protrusions that are powered by cytoplasmic flow. Protrusions are formed
    at sites of higher levels of free calcium where activation of myosin contraction
    occurs. Separation of the acto-myosin cortex from the plasma membrane at these
    sites is followed by a flow of cytoplasm into the forming bleb. We propose that
    polarized activation of the receptor CXCR4 leads to a rise in free calcium that
    in turn activates myosin contraction in the part of the cell responding to higher
    levels of the ligand SDF-1. The biased formation of new protrusions in a particular
    region of the cell in response to SDF-1 defines the leading edge and the direction
    of cell migration.
article_processing_charge: No
author:
- first_name: Heiko
  full_name: Blaser, Heiko
  last_name: Blaser
- first_name: Michal
  full_name: Reichman Fried, Michal
  last_name: Reichman Fried
- first_name: Irinka
  full_name: Castanon, Irinka
  last_name: Castanon
- first_name: Karin
  full_name: Dumstrei, Karin
  last_name: Dumstrei
- first_name: Florence
  full_name: Marlow, Florence
  last_name: Marlow
- first_name: Koichi
  full_name: Kawakami, Koichi
  last_name: Kawakami
- first_name: Lilianna
  full_name: Solnica Krezel, Lilianna
  last_name: Solnica Krezel
- first_name: Carl-Philipp J
  full_name: Heisenberg, Carl-Philipp J
  id: 39427864-F248-11E8-B48F-1D18A9856A87
  last_name: Heisenberg
  orcid: 0000-0002-0912-4566
- first_name: Erez
  full_name: Raz, Erez
  last_name: Raz
citation:
  ama: 'Blaser H, Reichman Fried M, Castanon I, et al. Migration of zebrafish primordial
    germ cells: A role for myosin contraction and cytoplasmic flow. <i>Developmental
    Cell</i>. 2006;11(5):613-627. doi:<a href="https://doi.org/10.1016/j.devcel.2006.09.023">10.1016/j.devcel.2006.09.023</a>'
  apa: 'Blaser, H., Reichman Fried, M., Castanon, I., Dumstrei, K., Marlow, F., Kawakami,
    K., … Raz, E. (2006). Migration of zebrafish primordial germ cells: A role for
    myosin contraction and cytoplasmic flow. <i>Developmental Cell</i>. Cell Press.
    <a href="https://doi.org/10.1016/j.devcel.2006.09.023">https://doi.org/10.1016/j.devcel.2006.09.023</a>'
  chicago: 'Blaser, Heiko, Michal Reichman Fried, Irinka Castanon, Karin Dumstrei,
    Florence Marlow, Koichi Kawakami, Lilianna Solnica Krezel, Carl-Philipp J Heisenberg,
    and Erez Raz. “Migration of Zebrafish Primordial Germ Cells: A Role for Myosin
    Contraction and Cytoplasmic Flow.” <i>Developmental Cell</i>. Cell Press, 2006.
    <a href="https://doi.org/10.1016/j.devcel.2006.09.023">https://doi.org/10.1016/j.devcel.2006.09.023</a>.'
  ieee: 'H. Blaser <i>et al.</i>, “Migration of zebrafish primordial germ cells: A
    role for myosin contraction and cytoplasmic flow,” <i>Developmental Cell</i>,
    vol. 11, no. 5. Cell Press, pp. 613–627, 2006.'
  ista: 'Blaser H, Reichman Fried M, Castanon I, Dumstrei K, Marlow F, Kawakami K,
    Solnica Krezel L, Heisenberg C-PJ, Raz E. 2006. Migration of zebrafish primordial
    germ cells: A role for myosin contraction and cytoplasmic flow. Developmental
    Cell. 11(5), 613–627.'
  mla: 'Blaser, Heiko, et al. “Migration of Zebrafish Primordial Germ Cells: A Role
    for Myosin Contraction and Cytoplasmic Flow.” <i>Developmental Cell</i>, vol.
    11, no. 5, Cell Press, 2006, pp. 613–27, doi:<a href="https://doi.org/10.1016/j.devcel.2006.09.023">10.1016/j.devcel.2006.09.023</a>.'
  short: H. Blaser, M. Reichman Fried, I. Castanon, K. Dumstrei, F. Marlow, K. Kawakami,
    L. Solnica Krezel, C.-P.J. Heisenberg, E. Raz, Developmental Cell 11 (2006) 613–627.
date_created: 2018-12-11T12:07:39Z
date_published: 2006-11-06T00:00:00Z
date_updated: 2021-01-12T07:55:23Z
day: '06'
doi: 10.1016/j.devcel.2006.09.023
extern: '1'
intvolume: '        11'
issue: '5'
language:
- iso: eng
month: '11'
oa_version: None
page: 613 - 627
publication: Developmental Cell
publication_status: published
publisher: Cell Press
publist_id: '1898'
status: public
title: 'Migration of zebrafish primordial germ cells: A role for myosin contraction
  and cytoplasmic flow'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 11
year: '2006'
...
---
_id: '4235'
abstract:
- lang: eng
  text: The accompanying letter by H. Ortega addresses some points with respect to
    our previous article (de Vladar and González, 2004). He begins addressing some
    arguments about our interpretations of the parameters that are hand-waving rather
    than scientific. However, he is mostly concerned with the asymptotic behaviour
    of the tumour-immunity system when therapy is present. Dr. Ortega repeats calculations
    of our system where he either (i) reaches the same conclusions as we do or (ii)
    reaches different but mistaken conclusions. In any case, he intends to pose destructive
    critiques to our paper without providing a real contribution to the field, much
    less an enrichment to our model.
article_processing_charge: No
article_type: letter_editor
author:
- first_name: Harold
  full_name: Vladar, Harold
  id: 2A181218-F248-11E8-B48F-1D18A9856A87
  last_name: Vladar
  orcid: 0000-0002-5985-7653
- first_name: J.
  full_name: González, J.
  last_name: González
citation:
  ama: de Vladar H, González J. Dynamic response of cancer under the influence of
    immunological activity and therapy. <i>Journal of Theoretical Biology</i>. 2006;240(1):162-163.
    doi:<a href="https://doi.org/10.1016/j.jtbi.2005.11.016">10.1016/j.jtbi.2005.11.016</a>
  apa: de Vladar, H., &#38; González, J. (2006). Dynamic response of cancer under
    the influence of immunological activity and therapy. <i>Journal of Theoretical
    Biology</i>. Elsevier. <a href="https://doi.org/10.1016/j.jtbi.2005.11.016">https://doi.org/10.1016/j.jtbi.2005.11.016</a>
  chicago: Vladar, Harold de, and J. González. “Dynamic Response of Cancer under the
    Influence of Immunological Activity and Therapy.” <i>Journal of Theoretical Biology</i>.
    Elsevier, 2006. <a href="https://doi.org/10.1016/j.jtbi.2005.11.016">https://doi.org/10.1016/j.jtbi.2005.11.016</a>.
  ieee: H. de Vladar and J. González, “Dynamic response of cancer under the influence
    of immunological activity and therapy,” <i>Journal of Theoretical Biology</i>,
    vol. 240, no. 1. Elsevier, pp. 162–163, 2006.
  ista: de Vladar H, González J. 2006. Dynamic response of cancer under the influence
    of immunological activity and therapy. Journal of Theoretical Biology. 240(1),
    162–163.
  mla: de Vladar, Harold, and J. González. “Dynamic Response of Cancer under the Influence
    of Immunological Activity and Therapy.” <i>Journal of Theoretical Biology</i>,
    vol. 240, no. 1, Elsevier, 2006, pp. 162–63, doi:<a href="https://doi.org/10.1016/j.jtbi.2005.11.016">10.1016/j.jtbi.2005.11.016</a>.
  short: H. de Vladar, J. González, Journal of Theoretical Biology 240 (2006) 162–163.
date_created: 2018-12-11T12:07:45Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2025-07-01T12:00:54Z
day: '01'
doi: 10.1016/j.jtbi.2005.11.016
extern: '1'
intvolume: '       240'
issue: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: 162-163
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '1879'
related_material:
  record:
  - id: '4238'
    relation: earlier_version
    status: public
status: public
title: Dynamic response of cancer under the influence of immunological activity and
  therapy
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 240
year: '2006'
...
---
_id: '4237'
abstract:
- lang: eng
  text: The growth function of populations is central in biomathematics. The main
    dogma is the existence of density-dependence mechanisms, which can be modelled
    with distinct functional forms that depend on the size of the Population. One
    important class of regulatory functions is the theta-logistic, which generalizes
    the logistic equation. Using this model as a motivation, this paper introduces
    a simple dynamical reformulation that generalizes many growth functions. The reformulation
    consists of two equations, one for population size, and one for the growth rate.
    Furthermore, the model shows that although population is density-dependent, the
    dynamics of the growth rate does not depend either on population size, nor on
    the carrying capacity. Actually, the growth equation is uncoupled from the population
    size equation, and the model has only two parameters, a Malthusian parameter rho
    and a competition coefficient theta. Distinct sign combinations of these parameters
    reproduce not only the family of theta-logistics, but also the van Bertalanffy,
    Gompertz and Potential Growth equations, among other possibilities. It is also
    shown that, except for two critical points, there is a general size-scaling relation
    that includes those appearing in the most important allometric theories, including
    the recently proposed Metabolic Theory of Ecology. With this model, several issues
    of general interest are discussed such as the growth of animal population, extinctions,
    cell growth and allometry, and the effect of environment over a population. (c)
    2005 Elsevier Ltd. All rights reserved.
article_processing_charge: No
article_type: original
arxiv: 1
author:
- first_name: Harold
  full_name: de Vladar, Harold
  id: 2A181218-F248-11E8-B48F-1D18A9856A87
  last_name: de Vladar
  orcid: 0000-0002-5985-7653
citation:
  ama: de Vladar H. Density-dependence as a size-independent regulatory mechanism.
    <i>Journal of Theoretical Biology</i>. 2006;238(2):245-256. doi:<a href="https://doi.org/10.1016/j.jtbi.2005.05.014">10.1016/j.jtbi.2005.05.014</a>
  apa: de Vladar, H. (2006). Density-dependence as a size-independent regulatory mechanism.
    <i>Journal of Theoretical Biology</i>. Elsevier. <a href="https://doi.org/10.1016/j.jtbi.2005.05.014">https://doi.org/10.1016/j.jtbi.2005.05.014</a>
  chicago: Vladar, Harold de. “Density-Dependence as a Size-Independent Regulatory
    Mechanism.” <i>Journal of Theoretical Biology</i>. Elsevier, 2006. <a href="https://doi.org/10.1016/j.jtbi.2005.05.014">https://doi.org/10.1016/j.jtbi.2005.05.014</a>.
  ieee: H. de Vladar, “Density-dependence as a size-independent regulatory mechanism,”
    <i>Journal of Theoretical Biology</i>, vol. 238, no. 2. Elsevier, pp. 245–256,
    2006.
  ista: de Vladar H. 2006. Density-dependence as a size-independent regulatory mechanism.
    Journal of Theoretical Biology. 238(2), 245–256.
  mla: de Vladar, Harold. “Density-Dependence as a Size-Independent Regulatory Mechanism.”
    <i>Journal of Theoretical Biology</i>, vol. 238, no. 2, Elsevier, 2006, pp. 245–56,
    doi:<a href="https://doi.org/10.1016/j.jtbi.2005.05.014">10.1016/j.jtbi.2005.05.014</a>.
  short: H. de Vladar, Journal of Theoretical Biology 238 (2006) 245–256.
date_created: 2018-12-11T12:07:46Z
date_published: 2006-01-21T00:00:00Z
date_updated: 2025-07-01T12:48:10Z
day: '21'
doi: 10.1016/j.jtbi.2005.05.014
extern: '1'
external_id:
  arxiv:
  - q-bio.PE/0504022
intvolume: '       238'
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 245 - 256
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '1878'
quality_controlled: '1'
scopus_import: '1'
status: public
title: Density-dependence as a size-independent regulatory mechanism
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 238
year: '2006'
...
---
_id: '4248'
abstract:
- lang: eng
  text: 'In finite populations, genetic drift generates interference between selected
    loci, causing advantageous alleles to be found more often on different chromosomes
    than on the same chromosome, which reduces the rate of adaptation. This “Hill–Robertson
    effect” generates indirect selection to increase recombination rates. We present
    a new method to quantify the strength of this selection. Our model represents
    a new beneficial allele (A) entering a population as a single copy, while another
    beneficial allele (B) is sweeping at another locus. A third locus affects the
    recombination rate between selected loci. Using a branching process model, we
    calculate the probability distribution of the number of copies of A on the different
    genetic backgrounds, after it is established but while it is still rare. Then,
    we use a deterministic model to express the change in frequency of the recombination
    modifier, due to hitchhiking, as A goes to fixation. We show that this method
    can give good estimates of selection for recombination. Moreover, it shows that
    recombination is selected through two different effects: it increases the fixation
    probability of new alleles, and it accelerates selective sweeps. The relative
    importance of these two effects depends on the relative times of occurrence of
    the beneficial alleles.'
author:
- first_name: Denis
  full_name: Roze, Denis
  last_name: Roze
- first_name: Nicholas H
  full_name: Nicholas Barton
  id: 4880FE40-F248-11E8-B48F-1D18A9856A87
  last_name: Barton
  orcid: 0000-0002-8548-5240
citation:
  ama: Roze D, Barton NH. The Hill-Robertson effect and the evolution of recombination.
    <i>Genetics</i>. 2006;173(3):1793-1811. doi:<a href="https://doi.org/10.1534/genetics.106.058586
    ">10.1534/genetics.106.058586 </a>
  apa: Roze, D., &#38; Barton, N. H. (2006). The Hill-Robertson effect and the evolution
    of recombination. <i>Genetics</i>. Genetics Society of America. <a href="https://doi.org/10.1534/genetics.106.058586
    ">https://doi.org/10.1534/genetics.106.058586 </a>
  chicago: Roze, Denis, and Nicholas H Barton. “The Hill-Robertson Effect and the
    Evolution of Recombination.” <i>Genetics</i>. Genetics Society of America, 2006.
    <a href="https://doi.org/10.1534/genetics.106.058586 ">https://doi.org/10.1534/genetics.106.058586
    </a>.
  ieee: D. Roze and N. H. Barton, “The Hill-Robertson effect and the evolution of
    recombination,” <i>Genetics</i>, vol. 173, no. 3. Genetics Society of America,
    pp. 1793–1811, 2006.
  ista: Roze D, Barton NH. 2006. The Hill-Robertson effect and the evolution of recombination.
    Genetics. 173(3), 1793–1811.
  mla: Roze, Denis, and Nicholas H. Barton. “The Hill-Robertson Effect and the Evolution
    of Recombination.” <i>Genetics</i>, vol. 173, no. 3, Genetics Society of America,
    2006, pp. 1793–811, doi:<a href="https://doi.org/10.1534/genetics.106.058586 ">10.1534/genetics.106.058586
    </a>.
  short: D. Roze, N.H. Barton, Genetics 173 (2006) 1793–1811.
date_created: 2018-12-11T12:07:50Z
date_published: 2006-07-01T00:00:00Z
date_updated: 2021-01-12T07:55:36Z
day: '01'
doi: '10.1534/genetics.106.058586 '
extern: 1
intvolume: '       173'
issue: '3'
month: '07'
page: 1793 - 1811
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '1854'
quality_controlled: 0
status: public
title: The Hill-Robertson effect and the evolution of recombination
type: journal_article
volume: 173
year: '2006'
...
---
_id: '4250'
abstract:
- lang: eng
  text: A recent analysis has shown that divergence between human and chimpanzee varies
    greatly across the genome. Although this is consistent with ‘hybridisation’ between
    the diverging human and chimp lineages, such observations can be explained more
    simply by the null model of allopatric speciation.
author:
- first_name: Nicholas H
  full_name: Nicholas Barton
  id: 4880FE40-F248-11E8-B48F-1D18A9856A87
  last_name: Barton
  orcid: 0000-0002-8548-5240
citation:
  ama: 'Barton NH. Evolutionary Biology: How did the human species form? <i>Current
    Biology</i>. 2006;16(16):647-650. doi:<a href="https://doi.org/10.1016/j.cub.2006.07.032">10.1016/j.cub.2006.07.032</a>'
  apa: 'Barton, N. H. (2006). Evolutionary Biology: How did the human species form?
    <i>Current Biology</i>. Cell Press. <a href="https://doi.org/10.1016/j.cub.2006.07.032">https://doi.org/10.1016/j.cub.2006.07.032</a>'
  chicago: 'Barton, Nicholas H. “Evolutionary Biology: How Did the Human Species Form?”
    <i>Current Biology</i>. Cell Press, 2006. <a href="https://doi.org/10.1016/j.cub.2006.07.032">https://doi.org/10.1016/j.cub.2006.07.032</a>.'
  ieee: 'N. H. Barton, “Evolutionary Biology: How did the human species form?,” <i>Current
    Biology</i>, vol. 16, no. 16. Cell Press, pp. 647–650, 2006.'
  ista: 'Barton NH. 2006. Evolutionary Biology: How did the human species form? Current
    Biology. 16(16), 647–650.'
  mla: 'Barton, Nicholas H. “Evolutionary Biology: How Did the Human Species Form?”
    <i>Current Biology</i>, vol. 16, no. 16, Cell Press, 2006, pp. 647–50, doi:<a
    href="https://doi.org/10.1016/j.cub.2006.07.032">10.1016/j.cub.2006.07.032</a>.'
  short: N.H. Barton, Current Biology 16 (2006) 647–650.
date_created: 2018-12-11T12:07:51Z
date_published: 2006-08-22T00:00:00Z
date_updated: 2019-04-26T07:22:41Z
day: '22'
doi: 10.1016/j.cub.2006.07.032
extern: 1
intvolume: '        16'
issue: '16'
month: '08'
page: 647 - 650
publication: Current Biology
publication_status: published
publisher: Cell Press
publist_id: '1850'
quality_controlled: 0
status: public
title: 'Evolutionary Biology: How did the human species form?'
type: review
volume: 16
year: '2006'
...
---
_id: '1745'
abstract:
- lang: eng
  text: SiGe islands grown by deposition of 10 monolayers of Ge on Si(0 0 1) at 740
    °C were investigated by using a combination of selective wet chemical etching
    and atomic force microscopy. The used etchant, a solution consisting of ammonium
    hydroxide and hydrogen peroxide, shows a high selectivity of Ge over SixGe1-x
    and is characterized by relatively slow etching rates for Si-rich alloys. By performing
    successive etching experiments on the same sample area, we are able to gain a
    deeper insight into the lateral displacement the islands undergo during post growth
    annealing.
author:
- first_name: Georgios
  full_name: Georgios Katsaros
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
- first_name: Armando
  full_name: Rastelli, Armando
  last_name: Rastelli
- first_name: Mathieu
  full_name: Stoffel, Mathieu
  last_name: Stoffel
- first_name: Giovanni
  full_name: Isella, Giovanni
  last_name: Isella
- first_name: Hans
  full_name: Von Känel, Hans
  last_name: Von Känel
- first_name: Alexander
  full_name: Bittner, Alexander M
  last_name: Bittner
- first_name: Jerry
  full_name: Tersoff, Jerry
  last_name: Tersoff
- first_name: Ulrich
  full_name: Denker, Ulrich
  last_name: Denker
- first_name: Oliver
  full_name: Schmidt, Oliver G
  last_name: Schmidt
- first_name: Giovanni
  full_name: Costantini, Giovanni
  last_name: Costantini
- first_name: Klaus
  full_name: Kern, Klaus
  last_name: Kern
citation:
  ama: Katsaros G, Rastelli A, Stoffel M, et al. Investigating the lateral motion
    of SiGe islands by selective chemical etching. <i>Surface Science</i>. 2006;600(12):2608-2613.
    doi:<a href="https://doi.org/10.1016/j.susc.2006.04.027">10.1016/j.susc.2006.04.027</a>
  apa: Katsaros, G., Rastelli, A., Stoffel, M., Isella, G., Von Känel, H., Bittner,
    A., … Kern, K. (2006). Investigating the lateral motion of SiGe islands by selective
    chemical etching. <i>Surface Science</i>. Elsevier. <a href="https://doi.org/10.1016/j.susc.2006.04.027">https://doi.org/10.1016/j.susc.2006.04.027</a>
  chicago: Katsaros, Georgios, Armando Rastelli, Mathieu Stoffel, Giovanni Isella,
    Hans Von Känel, Alexander Bittner, Jerry Tersoff, et al. “Investigating the Lateral
    Motion of SiGe Islands by Selective Chemical Etching.” <i>Surface Science</i>.
    Elsevier, 2006. <a href="https://doi.org/10.1016/j.susc.2006.04.027">https://doi.org/10.1016/j.susc.2006.04.027</a>.
  ieee: G. Katsaros <i>et al.</i>, “Investigating the lateral motion of SiGe islands
    by selective chemical etching,” <i>Surface Science</i>, vol. 600, no. 12. Elsevier,
    pp. 2608–2613, 2006.
  ista: Katsaros G, Rastelli A, Stoffel M, Isella G, Von Känel H, Bittner A, Tersoff
    J, Denker U, Schmidt O, Costantini G, Kern K. 2006. Investigating the lateral
    motion of SiGe islands by selective chemical etching. Surface Science. 600(12),
    2608–2613.
  mla: Katsaros, Georgios, et al. “Investigating the Lateral Motion of SiGe Islands
    by Selective Chemical Etching.” <i>Surface Science</i>, vol. 600, no. 12, Elsevier,
    2006, pp. 2608–13, doi:<a href="https://doi.org/10.1016/j.susc.2006.04.027">10.1016/j.susc.2006.04.027</a>.
  short: G. Katsaros, A. Rastelli, M. Stoffel, G. Isella, H. Von Känel, A. Bittner,
    J. Tersoff, U. Denker, O. Schmidt, G. Costantini, K. Kern, Surface Science 600
    (2006) 2608–2613.
date_created: 2018-12-11T11:53:47Z
date_published: 2006-06-15T00:00:00Z
date_updated: 2021-01-12T06:52:56Z
day: '15'
doi: 10.1016/j.susc.2006.04.027
extern: 1
intvolume: '       600'
issue: '12'
month: '06'
page: 2608 - 2613
publication: Surface Science
publication_status: published
publisher: Elsevier
publist_id: '5379'
quality_controlled: 0
status: public
title: Investigating the lateral motion of SiGe islands by selective chemical etching
type: journal_article
volume: 600
year: '2006'
...
---
_id: '1746'
abstract:
- lang: eng
  text: 'A microscopic picture for the GaAs overgrowth of self-organized InAs/GaAs(001)
    quantum dots is developed. Scanning tunneling microscopy measurements reveal two
    capping regimes: the first being characterized by a dot shrinking and a backward
    pyramid-to-dome shape transition. This regime is governed by fast dynamics resulting
    in island morphologies close to thermodynamic equilibrium. The second regime is
    marked by a true overgrowth and is controlled by kinetically limited surface diffusion
    processes. A simple model is developed to describe the observed structural changes
    which are rationalized in terms of energetic minimization driven by lattice mismatch
    and alloying.'
author:
- first_name: Giovanni
  full_name: Costantini, Giovanni
  last_name: Costantini
- first_name: Armando
  full_name: Rastelli, Armando
  last_name: Rastelli
- first_name: Carlos
  full_name: Manzano, Carlos
  last_name: Manzano
- first_name: P
  full_name: Acosta-Diaz, P
  last_name: Acosta Diaz
- first_name: Rudeeson
  full_name: Songmuang, Rudeeson
  last_name: Songmuang
- first_name: Georgios
  full_name: Georgios Katsaros
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
- first_name: Oliver
  full_name: Schmidt, Oliver G
  last_name: Schmidt
- first_name: Klaus
  full_name: Kern, Klaus
  last_name: Kern
citation:
  ama: Costantini G, Rastelli A, Manzano C, et al. Interplay between thermodynamics
    and kinetics in the capping of InAs/GaAs (001) quantum dots. <i>Physical Review
    Letters</i>. 2006;96(22). doi:<a href="https://doi.org/10.1103/PhysRevLett.96.226106">10.1103/PhysRevLett.96.226106</a>
  apa: Costantini, G., Rastelli, A., Manzano, C., Acosta Diaz, P., Songmuang, R.,
    Katsaros, G., … Kern, K. (2006). Interplay between thermodynamics and kinetics
    in the capping of InAs/GaAs (001) quantum dots. <i>Physical Review Letters</i>.
    American Physical Society. <a href="https://doi.org/10.1103/PhysRevLett.96.226106">https://doi.org/10.1103/PhysRevLett.96.226106</a>
  chicago: Costantini, Giovanni, Armando Rastelli, Carlos Manzano, P Acosta Diaz,
    Rudeeson Songmuang, Georgios Katsaros, Oliver Schmidt, and Klaus Kern. “Interplay
    between Thermodynamics and Kinetics in the Capping of InAs/GaAs (001) Quantum
    Dots.” <i>Physical Review Letters</i>. American Physical Society, 2006. <a href="https://doi.org/10.1103/PhysRevLett.96.226106">https://doi.org/10.1103/PhysRevLett.96.226106</a>.
  ieee: G. Costantini <i>et al.</i>, “Interplay between thermodynamics and kinetics
    in the capping of InAs/GaAs (001) quantum dots,” <i>Physical Review Letters</i>,
    vol. 96, no. 22. American Physical Society, 2006.
  ista: Costantini G, Rastelli A, Manzano C, Acosta Diaz P, Songmuang R, Katsaros
    G, Schmidt O, Kern K. 2006. Interplay between thermodynamics and kinetics in the
    capping of InAs/GaAs (001) quantum dots. Physical Review Letters. 96(22).
  mla: Costantini, Giovanni, et al. “Interplay between Thermodynamics and Kinetics
    in the Capping of InAs/GaAs (001) Quantum Dots.” <i>Physical Review Letters</i>,
    vol. 96, no. 22, American Physical Society, 2006, doi:<a href="https://doi.org/10.1103/PhysRevLett.96.226106">10.1103/PhysRevLett.96.226106</a>.
  short: G. Costantini, A. Rastelli, C. Manzano, P. Acosta Diaz, R. Songmuang, G.
    Katsaros, O. Schmidt, K. Kern, Physical Review Letters 96 (2006).
date_created: 2018-12-11T11:53:47Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2021-01-12T06:52:56Z
day: '01'
doi: 10.1103/PhysRevLett.96.226106
extern: 1
intvolume: '        96'
issue: '22'
month: '01'
publication: Physical Review Letters
publication_status: published
publisher: American Physical Society
publist_id: '5378'
quality_controlled: 0
status: public
title: Interplay between thermodynamics and kinetics in the capping of InAs/GaAs (001)
  quantum dots
type: journal_article
volume: 96
year: '2006'
...
---
_id: '1747'
abstract:
- lang: eng
  text: 'We report on recent advances in the understanding of surface processes occurring
    during growth and post-growth annealing of strained islands which may find application
    as self-assembled quantum dots. We investigate the model system SiGe/Si(0 0 1)
    by a new approach based on &quot;reading the footprints&quot; which islands leave
    on the substrate during their growth and evolution. Such footprints consist of
    trenches carved in the Si substrate. We distinguish between surface footprints
    and footprints buried below the islands. The former allow us to discriminate islands
    which are in the process of growing from those which are shrinking. Islands with
    steep morphologies grow at the expense of smaller and shallower islands, consistent
    with the kinetics of anomalous coarsening. While shrinking, islands change their
    shape according to thermodynamic predictions. Buried footprints are investigated
    by removing the SiGe epilayer by means of selective wet chemical etching. Their
    reading shows that: (i) during post-growth annealing islands move laterally because
    of surface-mediated Si-Ge intermixing; (ii) a tree-ring structure of trenches
    is created by dislocated islands during their &quot;cyclic&quot; growth. This
    allows us to distinguish coherent from dislocated islands and to establish whether
    the latter are the result of island coalescence.'
acknowledgement: This work was supported by the BMBF (03N8711)
author:
- first_name: Armando
  full_name: Rastelli, Armando
  last_name: Rastelli
- first_name: Mathieu
  full_name: Stoffel, Mathieu
  last_name: Stoffel
- first_name: Georgios
  full_name: Georgios Katsaros
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
- first_name: Jerry
  full_name: Tersoff, Jerry
  last_name: Tersoff
- first_name: Ulrich
  full_name: Denker, Ulrich
  last_name: Denker
- first_name: Tsvetelina
  full_name: Merdzhanova, Tsvetelina
  last_name: Merdzhanova
- first_name: Gouranga
  full_name: Kar, Gouranga S
  last_name: Kar
- first_name: Giovanni
  full_name: Costantini, Giovanni
  last_name: Costantini
- first_name: Klaus
  full_name: Kern, Klaus
  last_name: Kern
- first_name: Hans
  full_name: Von Känel, Hans
  last_name: Von Känel
- first_name: Oliver
  full_name: Schmidt, Oliver G
  last_name: Schmidt
citation:
  ama: Rastelli A, Stoffel M, Katsaros G, et al. Reading the footprints of strained
    islands. <i>Microelectronics Journal</i>. 2006;37(12):1471-1476. doi:<a href="https://doi.org/10.1016/j.mejo.2006.05.029">10.1016/j.mejo.2006.05.029</a>
  apa: Rastelli, A., Stoffel, M., Katsaros, G., Tersoff, J., Denker, U., Merdzhanova,
    T., … Schmidt, O. (2006). Reading the footprints of strained islands. <i>Microelectronics
    Journal</i>. Elsevier. <a href="https://doi.org/10.1016/j.mejo.2006.05.029">https://doi.org/10.1016/j.mejo.2006.05.029</a>
  chicago: Rastelli, Armando, Mathieu Stoffel, Georgios Katsaros, Jerry Tersoff, Ulrich
    Denker, Tsvetelina Merdzhanova, Gouranga Kar, et al. “Reading the Footprints of
    Strained Islands.” <i>Microelectronics Journal</i>. Elsevier, 2006. <a href="https://doi.org/10.1016/j.mejo.2006.05.029">https://doi.org/10.1016/j.mejo.2006.05.029</a>.
  ieee: A. Rastelli <i>et al.</i>, “Reading the footprints of strained islands,” <i>Microelectronics
    Journal</i>, vol. 37, no. 12. Elsevier, pp. 1471–1476, 2006.
  ista: Rastelli A, Stoffel M, Katsaros G, Tersoff J, Denker U, Merdzhanova T, Kar
    G, Costantini G, Kern K, Von Känel H, Schmidt O. 2006. Reading the footprints
    of strained islands. Microelectronics Journal. 37(12), 1471–1476.
  mla: Rastelli, Armando, et al. “Reading the Footprints of Strained Islands.” <i>Microelectronics
    Journal</i>, vol. 37, no. 12, Elsevier, 2006, pp. 1471–76, doi:<a href="https://doi.org/10.1016/j.mejo.2006.05.029">10.1016/j.mejo.2006.05.029</a>.
  short: A. Rastelli, M. Stoffel, G. Katsaros, J. Tersoff, U. Denker, T. Merdzhanova,
    G. Kar, G. Costantini, K. Kern, H. Von Känel, O. Schmidt, Microelectronics Journal
    37 (2006) 1471–1476.
date_created: 2018-12-11T11:53:47Z
date_published: 2006-12-01T00:00:00Z
date_updated: 2021-01-12T06:52:57Z
day: '01'
doi: 10.1016/j.mejo.2006.05.029
extern: 1
intvolume: '        37'
issue: '12'
month: '12'
page: 1471 - 1476
publication: Microelectronics Journal
publication_status: published
publisher: Elsevier
publist_id: '5377'
quality_controlled: 0
status: public
title: Reading the footprints of strained islands
type: journal_article
volume: 37
year: '2006'
...
---
_id: '1748'
abstract:
- lang: eng
  text: The authors apply selective wet chemical etching and atomic force microscopy
    to reveal the three-dimensional shape of SiGeSi (001) islands after capping with
    Si. Although the &quot;self-assembled quantum dots&quot; remain practically unaffected
    by capping in the temperature range of 300-450 °C, significant morphological changes
    take place on the Si surface. At 450 °C, the morphology of the capping layer (Si
    matrix) evolves toward an intriguing semifacetted structure, which we call a &quot;ziggurat,&quot;
    giving the misleading impression of a stepped SiGe island shape.
author:
- first_name: Georgios
  full_name: Georgios Katsaros
  id: 38DB5788-F248-11E8-B48F-1D18A9856A87
  last_name: Katsaros
- first_name: Armando
  full_name: Rastelli, Armando
  last_name: Rastelli
- first_name: Mathieu
  full_name: Stoffel, Mathieu
  last_name: Stoffel
- first_name: Giovanni
  full_name: Costantini, Giovanni
  last_name: Costantini
- first_name: Oliver
  full_name: Schmidt, Oliver G
  last_name: Schmidt
- first_name: Klaus
  full_name: Kern, Klaus
  last_name: Kern
- first_name: Jerry
  full_name: Tersoff, Jerry
  last_name: Tersoff
- first_name: Elisabeth
  full_name: Müller, Elisabeth
  last_name: Müller
- first_name: Hans
  full_name: Von Känel, Hans
  last_name: Von Känel
citation:
  ama: Katsaros G, Rastelli A, Stoffel M, et al. Evolution of buried semiconductor
    nanostructures and origin of stepped surface mounds during capping. <i>Applied
    Physics Letters</i>. 2006;89(25). doi:<a href="https://doi.org/10.1063/1.2405876">10.1063/1.2405876</a>
  apa: Katsaros, G., Rastelli, A., Stoffel, M., Costantini, G., Schmidt, O., Kern,
    K., … Von Känel, H. (2006). Evolution of buried semiconductor nanostructures and
    origin of stepped surface mounds during capping. <i>Applied Physics Letters</i>.
    American Institute of Physics. <a href="https://doi.org/10.1063/1.2405876">https://doi.org/10.1063/1.2405876</a>
  chicago: Katsaros, Georgios, Armando Rastelli, Mathieu Stoffel, Giovanni Costantini,
    Oliver Schmidt, Klaus Kern, Jerry Tersoff, Elisabeth Müller, and Hans Von Känel.
    “Evolution of Buried Semiconductor Nanostructures and Origin of Stepped Surface
    Mounds during Capping.” <i>Applied Physics Letters</i>. American Institute of
    Physics, 2006. <a href="https://doi.org/10.1063/1.2405876">https://doi.org/10.1063/1.2405876</a>.
  ieee: G. Katsaros <i>et al.</i>, “Evolution of buried semiconductor nanostructures
    and origin of stepped surface mounds during capping,” <i>Applied Physics Letters</i>,
    vol. 89, no. 25. American Institute of Physics, 2006.
  ista: Katsaros G, Rastelli A, Stoffel M, Costantini G, Schmidt O, Kern K, Tersoff
    J, Müller E, Von Känel H. 2006. Evolution of buried semiconductor nanostructures
    and origin of stepped surface mounds during capping. Applied Physics Letters.
    89(25).
  mla: Katsaros, Georgios, et al. “Evolution of Buried Semiconductor Nanostructures
    and Origin of Stepped Surface Mounds during Capping.” <i>Applied Physics Letters</i>,
    vol. 89, no. 25, American Institute of Physics, 2006, doi:<a href="https://doi.org/10.1063/1.2405876">10.1063/1.2405876</a>.
  short: G. Katsaros, A. Rastelli, M. Stoffel, G. Costantini, O. Schmidt, K. Kern,
    J. Tersoff, E. Müller, H. Von Känel, Applied Physics Letters 89 (2006).
date_created: 2018-12-11T11:53:48Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2021-01-12T06:52:57Z
day: '01'
doi: 10.1063/1.2405876
extern: 1
intvolume: '        89'
issue: '25'
month: '01'
publication: Applied Physics Letters
publication_status: published
publisher: American Institute of Physics
publist_id: '5376'
quality_controlled: 0
status: public
title: Evolution of buried semiconductor nanostructures and origin of stepped surface
  mounds during capping
type: journal_article
volume: 89
year: '2006'
...
---
_id: '17718'
abstract:
- lang: eng
  text: The reionization history of the intergalactic medium at high redshift (z ≳
    6) was likely strongly shaped by several global feedback processes. Because the
    earliest ionizing sources formed at the locations of the rare density peaks, their
    spatial distribution was strongly clustered. Here we demonstrate that this clustering
    significantly boosts the impact of feedback processes operating at high redshift.
    We build a semianalytical model to include feedback and clustering simultaneously
    and apply this model to the suppression of star formation in minihalos due to
    photoionization. The model is built on the excursion-set-based formalism of Furlanetto,
    Zaldarriaga, and Hernquist, which incorporates the clustering of ionizing sources
    and which we here extend to include the suppression of star formation in minihalos.
    We find that clustering increases the mean H II bubble size by a factor of several,
    and it dramatically increases the fraction of minihalos that are suppressed by
    a factor of up to ~60 relative to a randomly distributed population. This enhanced
    suppression can significantly reduce the electron-scattering optical depth τ,
    as required by the 3 year data from the Wilkinson Microwave Anisotropy Probe.
    We argue that source clustering is likely to similarly boost the importance of
    a variety of other feedback mechanisms.
article_processing_charge: No
article_type: original
author:
- first_name: Roban Hultman
  full_name: Kramer, Roban Hultman
  last_name: Kramer
- first_name: Zoltán
  full_name: Haiman, Zoltán
  id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
  last_name: Haiman
- first_name: S. Peng
  full_name: Oh, S. Peng
  last_name: Oh
citation:
  ama: Kramer RH, Haiman Z, Oh SP. Feedback from clustered sources during reionization.
    <i>The Astrophysical Journal</i>. 2006;649(2):570-578. doi:<a href="https://doi.org/10.1086/506906">10.1086/506906</a>
  apa: Kramer, R. H., Haiman, Z., &#38; Oh, S. P. (2006). Feedback from clustered
    sources during reionization. <i>The Astrophysical Journal</i>. American Astronomical
    Society. <a href="https://doi.org/10.1086/506906">https://doi.org/10.1086/506906</a>
  chicago: Kramer, Roban Hultman, Zoltán Haiman, and S. Peng Oh. “Feedback from Clustered
    Sources during Reionization.” <i>The Astrophysical Journal</i>. American Astronomical
    Society, 2006. <a href="https://doi.org/10.1086/506906">https://doi.org/10.1086/506906</a>.
  ieee: R. H. Kramer, Z. Haiman, and S. P. Oh, “Feedback from clustered sources during
    reionization,” <i>The Astrophysical Journal</i>, vol. 649, no. 2. American Astronomical
    Society, pp. 570–578, 2006.
  ista: Kramer RH, Haiman Z, Oh SP. 2006. Feedback from clustered sources during reionization.
    The Astrophysical Journal. 649(2), 570–578.
  mla: Kramer, Roban Hultman, et al. “Feedback from Clustered Sources during Reionization.”
    <i>The Astrophysical Journal</i>, vol. 649, no. 2, American Astronomical Society,
    2006, pp. 570–78, doi:<a href="https://doi.org/10.1086/506906">10.1086/506906</a>.
  short: R.H. Kramer, Z. Haiman, S.P. Oh, The Astrophysical Journal 649 (2006) 570–578.
date_created: 2024-09-06T09:02:52Z
date_published: 2006-10-01T00:00:00Z
date_updated: 2024-09-25T13:27:16Z
day: '01'
doi: 10.1086/506906
extern: '1'
intvolume: '       649'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1086/506906
month: '10'
oa: 1
oa_version: Published Version
page: 570-578
publication: The Astrophysical Journal
publication_identifier:
  issn:
  - 0004-637X
  - 1538-4357
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Feedback from clustered sources during reionization
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 649
year: '2006'
...
---
_id: '17727'
abstract:
- lang: eng
  text: We report on i-band snapshot observations of 157 Sloan Digital Sky Survey
    (SDSS) quasars at 4<z<5.4 using the Advanced Camera for Surveys on the Hubble
    Space Telescope (HST) to search for evidence of gravitational lensing of these
    sources. None of the quasars appear to be strongly lensed and multiply imaged
    at the angular resolution (~0.1") and sensitivity of HST. The non-detection of
    strong lensing in these systems constrains the z=4-5 luminosity function to an
    intrinsic slope of beta>-3.8 (3 sigma), assuming a break in the quasar luminosity
    function at M*_145=-24.5. This constraint is considerably stronger than the limit
    of beta>-4.63 obtained from the absence of lensing in four z>5.7 quasars. Such
    constraints are important for our understanding of the true space density of high-redshift
    quasars and the ionization state of the early universe.
article_processing_charge: No
article_type: original
author:
- first_name: Gordon T.
  full_name: Richards, Gordon T.
  last_name: Richards
- first_name: Zoltán
  full_name: Haiman, Zoltán
  id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
  last_name: Haiman
  orcid: 0000-0003-3633-5403
- first_name: Bartosz
  full_name: Pindor, Bartosz
  last_name: Pindor
- first_name: Michael A.
  full_name: Strauss, Michael A.
  last_name: Strauss
- first_name: Xiaohui
  full_name: Fan, Xiaohui
  last_name: Fan
- first_name: Daniel
  full_name: Eisenstein, Daniel
  last_name: Eisenstein
- first_name: Donald P.
  full_name: Schneider, Donald P.
  last_name: Schneider
- first_name: Neta A.
  full_name: Bahcall, Neta A.
  last_name: Bahcall
- first_name: J.
  full_name: Brinkmann, J.
  last_name: Brinkmann
- first_name: Masataka
  full_name: Fukugita, Masataka
  last_name: Fukugita
citation:
  ama: Richards GT, Haiman Z, Pindor B, et al. A snapshot survey for gravitational
    lenses among z ≥ 4.0 quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 quasar
    population. <i>The Astronomical Journal</i>. 2006;131(1):49-54. doi:<a href="https://doi.org/10.1086/498063">10.1086/498063</a>
  apa: Richards, G. T., Haiman, Z., Pindor, B., Strauss, M. A., Fan, X., Eisenstein,
    D., … Fukugita, M. (2006). A snapshot survey for gravitational lenses among z
    ≥ 4.0 quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 quasar population.
    <i>The Astronomical Journal</i>. American Astronomical Society. <a href="https://doi.org/10.1086/498063">https://doi.org/10.1086/498063</a>
  chicago: Richards, Gordon T., Zoltán Haiman, Bartosz Pindor, Michael A. Strauss,
    Xiaohui Fan, Daniel Eisenstein, Donald P. Schneider, Neta A. Bahcall, J. Brinkmann,
    and Masataka Fukugita. “A Snapshot Survey for Gravitational Lenses among z ≥ 4.0
    Quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 Quasar Population.” <i>The
    Astronomical Journal</i>. American Astronomical Society, 2006. <a href="https://doi.org/10.1086/498063">https://doi.org/10.1086/498063</a>.
  ieee: G. T. Richards <i>et al.</i>, “A snapshot survey for gravitational lenses
    among z ≥ 4.0 quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 quasar population,”
    <i>The Astronomical Journal</i>, vol. 131, no. 1. American Astronomical Society,
    pp. 49–54, 2006.
  ista: Richards GT, Haiman Z, Pindor B, Strauss MA, Fan X, Eisenstein D, Schneider
    DP, Bahcall NA, Brinkmann J, Fukugita M. 2006. A snapshot survey for gravitational
    lenses among z ≥ 4.0 quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 quasar
    population. The Astronomical Journal. 131(1), 49–54.
  mla: Richards, Gordon T., et al. “A Snapshot Survey for Gravitational Lenses among
    z ≥ 4.0 Quasars. II. Constraints on the 4.0 &#60; z &#60; 5.4 Quasar Population.”
    <i>The Astronomical Journal</i>, vol. 131, no. 1, American Astronomical Society,
    2006, pp. 49–54, doi:<a href="https://doi.org/10.1086/498063">10.1086/498063</a>.
  short: G.T. Richards, Z. Haiman, B. Pindor, M.A. Strauss, X. Fan, D. Eisenstein,
    D.P. Schneider, N.A. Bahcall, J. Brinkmann, M. Fukugita, The Astronomical Journal
    131 (2006) 49–54.
date_created: 2024-09-06T09:13:53Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2024-11-12T09:57:35Z
day: '01'
doi: 10.1086/498063
extern: '1'
intvolume: '       131'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1086/498063
month: '01'
oa: 1
oa_version: Published Version
page: 49-54
publication: The Astronomical Journal
publication_identifier:
  issn:
  - 0004-6256
  - 1538-3881
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
related_material:
  link:
  - relation: erratum
    url: https://doi.org/10.1086/506907
scopus_import: '1'
status: public
title: A snapshot survey for gravitational lenses among z ≥ 4.0 quasars. II. Constraints
  on the 4.0 < z < 5.4 quasar population
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 131
year: '2006'
...
---
_id: '17730'
abstract:
- lang: eng
  text: We model the spectra and surface brightness distributions for the Lyα radiation
    expected from protogalaxies that are caught in the early stages of their assembly.
    We use the results of a companion paper to characterize the radiation emerging
    from spherically collapsing gas clouds. We then modify these spectra to incorporate
    the effect of subsequent resonant scattering in the IGM. Using these models, we
    interpret a number of recent observations of extended Lyα blobs (LABs) at high
    redshift. We suggest, based on the angular size, energetics, relatively shallow
    surface brightness profiles, and double-peaked spectra, that several of these
    LABs may be associated with collapsing protogalaxies. We suggest two follow-up
    observations to diagnose the presence of gas infall. High-S/N spectra of LABs
    should reveal a preferential flattening of the surface brightness profile at the
    red side of the line. Complementary imaging of the blobs at redshifted Hα wavelengths
    should reveal the intrinsic Lyα emissivity and allow its separation from radiative
    transfer effects. We show that Lyα scattering by infalling gas can reproduce the
    observed spectrum of the Steidel et al. LAB2 as accurately as a recently proposed
    outflow model. Finally, we find similar evidence for infall in the spectra of
    pointlike Lyα emitters. The presence of scattering by the infalling gas implies
    that the intrinsic Lyα luminosities and derived quantities, such as the star formation
    rate, in these objects may have been underestimated by about an order of magnitude.
article_processing_charge: No
article_type: original
author:
- first_name: Mark
  full_name: Dijkstra, Mark
  last_name: Dijkstra
- first_name: Zoltán
  full_name: Haiman, Zoltán
  id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
  last_name: Haiman
- first_name: Marco
  full_name: Spaans, Marco
  last_name: Spaans
citation:
  ama: Dijkstra M, Haiman Z, Spaans M. Lyα radiation from collapsing protogalaxies.
    II. Observational evidence for gas infall. <i>The Astrophysical Journal</i>. 2006;649(1):37-47.
    doi:<a href="https://doi.org/10.1086/506244">10.1086/506244</a>
  apa: Dijkstra, M., Haiman, Z., &#38; Spaans, M. (2006). Lyα radiation from collapsing
    protogalaxies. II. Observational evidence for gas infall. <i>The Astrophysical
    Journal</i>. American Astronomical Society. <a href="https://doi.org/10.1086/506244">https://doi.org/10.1086/506244</a>
  chicago: Dijkstra, Mark, Zoltán Haiman, and Marco Spaans. “Lyα Radiation from Collapsing
    Protogalaxies. II. Observational Evidence for Gas Infall.” <i>The Astrophysical
    Journal</i>. American Astronomical Society, 2006. <a href="https://doi.org/10.1086/506244">https://doi.org/10.1086/506244</a>.
  ieee: M. Dijkstra, Z. Haiman, and M. Spaans, “Lyα radiation from collapsing protogalaxies.
    II. Observational evidence for gas infall,” <i>The Astrophysical Journal</i>,
    vol. 649, no. 1. American Astronomical Society, pp. 37–47, 2006.
  ista: Dijkstra M, Haiman Z, Spaans M. 2006. Lyα radiation from collapsing protogalaxies.
    II. Observational evidence for gas infall. The Astrophysical Journal. 649(1),
    37–47.
  mla: Dijkstra, Mark, et al. “Lyα Radiation from Collapsing Protogalaxies. II. Observational
    Evidence for Gas Infall.” <i>The Astrophysical Journal</i>, vol. 649, no. 1, American
    Astronomical Society, 2006, pp. 37–47, doi:<a href="https://doi.org/10.1086/506244">10.1086/506244</a>.
  short: M. Dijkstra, Z. Haiman, M. Spaans, The Astrophysical Journal 649 (2006) 37–47.
date_created: 2024-09-06T09:16:08Z
date_published: 2006-09-20T00:00:00Z
date_updated: 2024-09-26T07:34:55Z
day: '20'
doi: 10.1086/506244
extern: '1'
intvolume: '       649'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1086/506244
month: '09'
oa: 1
oa_version: Published Version
page: 37-47
publication: The Astrophysical Journal
publication_identifier:
  issn:
  - 0004-637X
  - 1538-4357
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Lyα radiation from collapsing protogalaxies. II. Observational evidence for
  gas infall
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 649
year: '2006'
...
---
_id: '17733'
abstract:
- lang: eng
  text: We use three-dimensional hydrodynamic simulations to investigate the effects
    of a transient photoionizing ultraviolet (UV) flux on the collapse and cooling
    of pregalactic clouds. These clouds have masses in the range 10^5 -10^7 M_sun,
    form at high redshifts (z>18), are assumed to lie within the short-lived cosmological
    HII regions around the first generation of stars. In addition, we study the combined
    effects of this transient UV flux and a persistent Lyman-Werner (LW) background
    from distant sources. In the absence of a LW background, we find that a critical
    specific intensity of J_UV ~ 0.1 x 10^-21 ergs s^-1 cm^-2 Hz^-1 sr^-1 demarcates
    a transition from net negative to positive feedback for the halo population. A
    weaker UV flux stimulates subsequent star formation inside the fossil HII regions,
    by enhancing the H_2 molecule abundance. A stronger UV flux significantly delays
    star-formation by reducing the gas density, and increasing the cooling time, at
    the centers of collapsing halos. At a fixed J_UV, the sign of the feedback also
    depends strongly on the density of the gas at the time of UV illumination. Regardless
    of the whether the feedback is positive or negative, we find that once the UV
    flux is turned off, its impact stars to diminish after ~30% of the Hubble time.
    In the more realistic case when a LW background is present, with J_LW > 0.01 x
    10^-21 ergs s^-1 cm^-2 Hz^-1 sr^-1, strong suppression persists down to the lowest
    redshift (z=18) in our simulations. Finally, we find evidence that heating and
    photoevaporation by the transient UV flux renders the ~10^6 M_sun halos inside
    fossil HII regions more vulnerable to subsequent H_2 photo-dissociation by a LW
    background.
article_processing_charge: No
article_type: original
author:
- first_name: Andrei
  full_name: Mesinger, Andrei
  last_name: Mesinger
- first_name: Greg L.
  full_name: Bryan, Greg L.
  last_name: Bryan
- first_name: Zoltán
  full_name: Haiman, Zoltán
  id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
  last_name: Haiman
citation:
  ama: Mesinger A, Bryan GL, Haiman Z. Ultraviolet radiative feedback on high‐redshift
    protogalaxies. <i>The Astrophysical Journal</i>. 2006;648(2):835-851. doi:<a href="https://doi.org/10.1086/506173">10.1086/506173</a>
  apa: Mesinger, A., Bryan, G. L., &#38; Haiman, Z. (2006). Ultraviolet radiative
    feedback on high‐redshift protogalaxies. <i>The Astrophysical Journal</i>. American
    Astronomical Society. <a href="https://doi.org/10.1086/506173">https://doi.org/10.1086/506173</a>
  chicago: Mesinger, Andrei, Greg L. Bryan, and Zoltán Haiman. “Ultraviolet Radiative
    Feedback on High‐redshift Protogalaxies.” <i>The Astrophysical Journal</i>. American
    Astronomical Society, 2006. <a href="https://doi.org/10.1086/506173">https://doi.org/10.1086/506173</a>.
  ieee: A. Mesinger, G. L. Bryan, and Z. Haiman, “Ultraviolet radiative feedback on
    high‐redshift protogalaxies,” <i>The Astrophysical Journal</i>, vol. 648, no.
    2. American Astronomical Society, pp. 835–851, 2006.
  ista: Mesinger A, Bryan GL, Haiman Z. 2006. Ultraviolet radiative feedback on high‐redshift
    protogalaxies. The Astrophysical Journal. 648(2), 835–851.
  mla: Mesinger, Andrei, et al. “Ultraviolet Radiative Feedback on High‐redshift Protogalaxies.”
    <i>The Astrophysical Journal</i>, vol. 648, no. 2, American Astronomical Society,
    2006, pp. 835–51, doi:<a href="https://doi.org/10.1086/506173">10.1086/506173</a>.
  short: A. Mesinger, G.L. Bryan, Z. Haiman, The Astrophysical Journal 648 (2006)
    835–851.
date_created: 2024-09-06T09:18:11Z
date_published: 2006-09-10T00:00:00Z
date_updated: 2024-09-26T07:47:36Z
day: '10'
doi: 10.1086/506173
extern: '1'
intvolume: '       648'
issue: '2'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1086/506173
month: '09'
oa: 1
oa_version: Published Version
page: 835-851
publication: The Astrophysical Journal
publication_identifier:
  issn:
  - 0004-637X
  - 1538-4357
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Ultraviolet radiative feedback on high‐redshift protogalaxies
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 648
year: '2006'
...
---
_id: '17742'
abstract:
- lang: eng
  text: The primordial gas in the earliest dark matter halos, collapsing at redshifts
    around z=20, with masses M_halo=10^6 M_sun, and virial temperatures T_vir<10^4K,
    relied on the presence of molecules for cooling. Several theoretical studies have
    suggested that gas contraction and star-formation in these minihalos was suppressed
    by radiative, chemical, thermal, and dynamical feedback processes. The recent
    measurement by the Wilkinson Microwave Anisotropy Probe (WMAP) of the optical
    depth to electron scattering, tau=0.09+/-0.03, provides the first empirical evidence
    for this suppression. The new WMAP result is consistent with vanilla models of
    reionization, in which ionizing sources populate cold dark matter (CDM) halos
    down to a virial temperature of T_vir=10^4K. On the other hand, we show that in
    order to avoid overproducing the optical depth, the efficiency for the production
    of ionizing photons in minihalos must have been about an order of magnitude lower
    than expected and lower than the efficiency in large halos that can cool via atomic
    hydrogen (T_vir > 10^4K). This conclusion is insensitive to assumptions about
    the efficiency of ionizing photon production in the large halos, as long as reionization
    ends by z=6, as required by the spectra of bright quasars at z<6. Our conclusion
    is strengthened if the clumping of the ionized gas evolves with redshift, as suggested
    by semi-analytical predictions and three-dimensional numerical simulations.
article_processing_charge: No
article_type: original
author:
- first_name: Zoltán
  full_name: Haiman, Zoltán
  id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
  last_name: Haiman
- first_name: Greg L.
  full_name: Bryan, Greg L.
  last_name: Bryan
citation:
  ama: Haiman Z, Bryan GL. Was star formation suppressed in high‐redshift minihalos?
    <i>The Astrophysical Journal</i>. 2006;650(1):7-11. doi:<a href="https://doi.org/10.1086/506580">10.1086/506580</a>
  apa: Haiman, Z., &#38; Bryan, G. L. (2006). Was star formation suppressed in high‐redshift
    minihalos? <i>The Astrophysical Journal</i>. American Astronomical Society. <a
    href="https://doi.org/10.1086/506580">https://doi.org/10.1086/506580</a>
  chicago: Haiman, Zoltán, and Greg L. Bryan. “Was Star Formation Suppressed in High‐redshift
    Minihalos?” <i>The Astrophysical Journal</i>. American Astronomical Society, 2006.
    <a href="https://doi.org/10.1086/506580">https://doi.org/10.1086/506580</a>.
  ieee: Z. Haiman and G. L. Bryan, “Was star formation suppressed in high‐redshift
    minihalos?,” <i>The Astrophysical Journal</i>, vol. 650, no. 1. American Astronomical
    Society, pp. 7–11, 2006.
  ista: Haiman Z, Bryan GL. 2006. Was star formation suppressed in high‐redshift minihalos?
    The Astrophysical Journal. 650(1), 7–11.
  mla: Haiman, Zoltán, and Greg L. Bryan. “Was Star Formation Suppressed in High‐redshift
    Minihalos?” <i>The Astrophysical Journal</i>, vol. 650, no. 1, American Astronomical
    Society, 2006, pp. 7–11, doi:<a href="https://doi.org/10.1086/506580">10.1086/506580</a>.
  short: Z. Haiman, G.L. Bryan, The Astrophysical Journal 650 (2006) 7–11.
date_created: 2024-09-06T09:25:53Z
date_published: 2006-10-10T00:00:00Z
date_updated: 2024-09-26T14:17:23Z
day: '10'
doi: 10.1086/506580
extern: '1'
intvolume: '       650'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://doi.org/10.1086/506580
month: '10'
oa: 1
oa_version: Published Version
page: 7-11
publication: The Astrophysical Journal
publication_identifier:
  issn:
  - 0004-637X
  - 1538-4357
publication_status: published
publisher: American Astronomical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Was star formation suppressed in high‐redshift minihalos?
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 650
year: '2006'
...