Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells. / Re, Angela; Workman, Christopher T; Waldron, Levi; Quattrone, Alessandro; Brunak, Søren.

In: Stem Cell Research, Vol. 13, No. 2, 04.08.2014, p. 316-328.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Re, A, Workman, CT, Waldron, L, Quattrone, A & Brunak, S 2014, 'Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells', Stem Cell Research, vol. 13, no. 2, pp. 316-328. https://doi.org/10.1016/j.scr.2014.07.008

APA

Re, A., Workman, C. T., Waldron, L., Quattrone, A., & Brunak, S. (2014). Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells. Stem Cell Research, 13(2), 316-328. https://doi.org/10.1016/j.scr.2014.07.008

Vancouver

Re A, Workman CT, Waldron L, Quattrone A, Brunak S. Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells. Stem Cell Research. 2014 Aug 4;13(2):316-328. https://doi.org/10.1016/j.scr.2014.07.008

Author

Re, Angela ; Workman, Christopher T ; Waldron, Levi ; Quattrone, Alessandro ; Brunak, Søren. / Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells. In: Stem Cell Research. 2014 ; Vol. 13, No. 2. pp. 316-328.

Bibtex

@article{eb228f585be640c4b3cb9e89cc888d83,
title = "Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells",
abstract = "The shortage of molecular information on cell cycle changes along embryonic stem cell (ESC) differentiation prompts an in silico approach, which may provide a novel way to identify candidate genes or mechanisms acting in coordinating the two programs. We analyzed germ layer specific gene expression changes during the cell cycle and ESC differentiation by combining four human cell cycle transcriptome profiles with thirteen in vitro human ESC differentiation studies. To detect cross-talk mechanisms we then integrated the transcriptome data that displayed differential regulation with protein interaction data. A new class of non-transcriptionally regulated genes was identified, encoding proteins which interact systematically with proteins corresponding to genes regulated during the cell cycle or cell differentiation, and which therefore can be seen as interface proteins coordinating the two programs. Functional analysis gathered insights in fate-specific candidates of interface functionalities. The non-transcriptionally regulated interface proteins were found to be highly regulated by post-translational ubiquitylation modification, which may synchronize the transition between cell proliferation and differentiation in ESCs.",
author = "Angela Re and Workman, {Christopher T} and Levi Waldron and Alessandro Quattrone and S{\o}ren Brunak",
note = "Copyright {\textcopyright} 2014. Published by Elsevier B.V.",
year = "2014",
month = aug,
day = "4",
doi = "10.1016/j.scr.2014.07.008",
language = "English",
volume = "13",
pages = "316--328",
journal = "Stem Cell Research",
issn = "1873-5061",
publisher = "Elsevier",
number = "2",

}

RIS

TY - JOUR

T1 - Lineage-specific interface proteins match up the cell cycle and differentiation in embryo stem cells

AU - Re, Angela

AU - Workman, Christopher T

AU - Waldron, Levi

AU - Quattrone, Alessandro

AU - Brunak, Søren

N1 - Copyright © 2014. Published by Elsevier B.V.

PY - 2014/8/4

Y1 - 2014/8/4

N2 - The shortage of molecular information on cell cycle changes along embryonic stem cell (ESC) differentiation prompts an in silico approach, which may provide a novel way to identify candidate genes or mechanisms acting in coordinating the two programs. We analyzed germ layer specific gene expression changes during the cell cycle and ESC differentiation by combining four human cell cycle transcriptome profiles with thirteen in vitro human ESC differentiation studies. To detect cross-talk mechanisms we then integrated the transcriptome data that displayed differential regulation with protein interaction data. A new class of non-transcriptionally regulated genes was identified, encoding proteins which interact systematically with proteins corresponding to genes regulated during the cell cycle or cell differentiation, and which therefore can be seen as interface proteins coordinating the two programs. Functional analysis gathered insights in fate-specific candidates of interface functionalities. The non-transcriptionally regulated interface proteins were found to be highly regulated by post-translational ubiquitylation modification, which may synchronize the transition between cell proliferation and differentiation in ESCs.

AB - The shortage of molecular information on cell cycle changes along embryonic stem cell (ESC) differentiation prompts an in silico approach, which may provide a novel way to identify candidate genes or mechanisms acting in coordinating the two programs. We analyzed germ layer specific gene expression changes during the cell cycle and ESC differentiation by combining four human cell cycle transcriptome profiles with thirteen in vitro human ESC differentiation studies. To detect cross-talk mechanisms we then integrated the transcriptome data that displayed differential regulation with protein interaction data. A new class of non-transcriptionally regulated genes was identified, encoding proteins which interact systematically with proteins corresponding to genes regulated during the cell cycle or cell differentiation, and which therefore can be seen as interface proteins coordinating the two programs. Functional analysis gathered insights in fate-specific candidates of interface functionalities. The non-transcriptionally regulated interface proteins were found to be highly regulated by post-translational ubiquitylation modification, which may synchronize the transition between cell proliferation and differentiation in ESCs.

U2 - 10.1016/j.scr.2014.07.008

DO - 10.1016/j.scr.2014.07.008

M3 - Journal article

C2 - 25173649

VL - 13

SP - 316

EP - 328

JO - Stem Cell Research

JF - Stem Cell Research

SN - 1873-5061

IS - 2

ER -

ID: 123732611