Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines

Kohei Yamamizu, Alexei A. Sharov, Yulan Piao, Misa Amano, Hong Yu, Akira Nishiyama, Dawood B. Dudekula, David Schlessinger, Minoru Ko

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Mouse embryonic stem cells (ESCs) can differentiate into a wide range-and possibly all cell types in vitro, and thus provide an ideal platform to study systematically the action of transcription factors (TFs) in cell differentiation. Previously, we have generated and analyzed 137 TF-inducible mouse ESC lines. As an extension of this "NIA Mouse ESC Bank" we generated and characterized 48 additional mouse ESC lines, in which single TFs in each line could be induced in a doxycycline-controllable manner. Together, with the previous ESC lines, the bank now comprises 185 TF-manipulable ESC lines (>10% of all mouse TFs). Global gene expression (transcriptome) profiling revealed that the induction of individual TFs in mouse ESCs for 48 hours shifts their transcriptomes toward specific differentiation fates (e.g., neural lineages by Myt1 Isl1, and St18; mesodermal lineages by Pitx1, Pitx2, Barhl2, and Lmx1a; white blood cells by Myb, Etv2, and Tbx6, and ovary by Pitx1, Pitx2, and Dmrtc2). These data also provide and lists of inferred target genes of each TF and possible functions of these TFs. The results demonstrate the utility of mouse ESC lines and their transcriptome data for understanding the mechanism of cell differentiation and the function of TFs.

Original languageEnglish
Article number25667
JournalScientific Reports
Volume6
DOIs
Publication statusPublished - 2016 May 6

Fingerprint

Gene Expression Profiling
Transcription Factors
Cell Line
Embryonic Stem Cells
Transcriptome
Cell Differentiation
Mouse Embryonic Stem Cells
Doxycycline
Ovary
Leukocytes

ASJC Scopus subject areas

  • General

Cite this

Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines. / Yamamizu, Kohei; Sharov, Alexei A.; Piao, Yulan; Amano, Misa; Yu, Hong; Nishiyama, Akira; Dudekula, Dawood B.; Schlessinger, David; Ko, Minoru.

In: Scientific Reports, Vol. 6, 25667, 06.05.2016.

Research output: Contribution to journalArticle

Yamamizu, K, Sharov, AA, Piao, Y, Amano, M, Yu, H, Nishiyama, A, Dudekula, DB, Schlessinger, D & Ko, M 2016, 'Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines', Scientific Reports, vol. 6, 25667. https://doi.org/10.1038/srep25667
Yamamizu, Kohei ; Sharov, Alexei A. ; Piao, Yulan ; Amano, Misa ; Yu, Hong ; Nishiyama, Akira ; Dudekula, Dawood B. ; Schlessinger, David ; Ko, Minoru. / Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines. In: Scientific Reports. 2016 ; Vol. 6.
@article{2fbb55a4a38f4393870b5b4398edb947,
title = "Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines",
abstract = "Mouse embryonic stem cells (ESCs) can differentiate into a wide range-and possibly all cell types in vitro, and thus provide an ideal platform to study systematically the action of transcription factors (TFs) in cell differentiation. Previously, we have generated and analyzed 137 TF-inducible mouse ESC lines. As an extension of this {"}NIA Mouse ESC Bank{"} we generated and characterized 48 additional mouse ESC lines, in which single TFs in each line could be induced in a doxycycline-controllable manner. Together, with the previous ESC lines, the bank now comprises 185 TF-manipulable ESC lines (>10{\%} of all mouse TFs). Global gene expression (transcriptome) profiling revealed that the induction of individual TFs in mouse ESCs for 48 hours shifts their transcriptomes toward specific differentiation fates (e.g., neural lineages by Myt1 Isl1, and St18; mesodermal lineages by Pitx1, Pitx2, Barhl2, and Lmx1a; white blood cells by Myb, Etv2, and Tbx6, and ovary by Pitx1, Pitx2, and Dmrtc2). These data also provide and lists of inferred target genes of each TF and possible functions of these TFs. The results demonstrate the utility of mouse ESC lines and their transcriptome data for understanding the mechanism of cell differentiation and the function of TFs.",
author = "Kohei Yamamizu and Sharov, {Alexei A.} and Yulan Piao and Misa Amano and Hong Yu and Akira Nishiyama and Dudekula, {Dawood B.} and David Schlessinger and Minoru Ko",
year = "2016",
month = "5",
day = "6",
doi = "10.1038/srep25667",
language = "English",
volume = "6",
journal = "Scientific Reports",
issn = "2045-2322",
publisher = "Nature Publishing Group",

}

TY - JOUR

T1 - Generation and gene expression profiling of 48 transcription-factor-inducible mouse embryonic stem cell lines

AU - Yamamizu, Kohei

AU - Sharov, Alexei A.

AU - Piao, Yulan

AU - Amano, Misa

AU - Yu, Hong

AU - Nishiyama, Akira

AU - Dudekula, Dawood B.

AU - Schlessinger, David

AU - Ko, Minoru

PY - 2016/5/6

Y1 - 2016/5/6

N2 - Mouse embryonic stem cells (ESCs) can differentiate into a wide range-and possibly all cell types in vitro, and thus provide an ideal platform to study systematically the action of transcription factors (TFs) in cell differentiation. Previously, we have generated and analyzed 137 TF-inducible mouse ESC lines. As an extension of this "NIA Mouse ESC Bank" we generated and characterized 48 additional mouse ESC lines, in which single TFs in each line could be induced in a doxycycline-controllable manner. Together, with the previous ESC lines, the bank now comprises 185 TF-manipulable ESC lines (>10% of all mouse TFs). Global gene expression (transcriptome) profiling revealed that the induction of individual TFs in mouse ESCs for 48 hours shifts their transcriptomes toward specific differentiation fates (e.g., neural lineages by Myt1 Isl1, and St18; mesodermal lineages by Pitx1, Pitx2, Barhl2, and Lmx1a; white blood cells by Myb, Etv2, and Tbx6, and ovary by Pitx1, Pitx2, and Dmrtc2). These data also provide and lists of inferred target genes of each TF and possible functions of these TFs. The results demonstrate the utility of mouse ESC lines and their transcriptome data for understanding the mechanism of cell differentiation and the function of TFs.

AB - Mouse embryonic stem cells (ESCs) can differentiate into a wide range-and possibly all cell types in vitro, and thus provide an ideal platform to study systematically the action of transcription factors (TFs) in cell differentiation. Previously, we have generated and analyzed 137 TF-inducible mouse ESC lines. As an extension of this "NIA Mouse ESC Bank" we generated and characterized 48 additional mouse ESC lines, in which single TFs in each line could be induced in a doxycycline-controllable manner. Together, with the previous ESC lines, the bank now comprises 185 TF-manipulable ESC lines (>10% of all mouse TFs). Global gene expression (transcriptome) profiling revealed that the induction of individual TFs in mouse ESCs for 48 hours shifts their transcriptomes toward specific differentiation fates (e.g., neural lineages by Myt1 Isl1, and St18; mesodermal lineages by Pitx1, Pitx2, Barhl2, and Lmx1a; white blood cells by Myb, Etv2, and Tbx6, and ovary by Pitx1, Pitx2, and Dmrtc2). These data also provide and lists of inferred target genes of each TF and possible functions of these TFs. The results demonstrate the utility of mouse ESC lines and their transcriptome data for understanding the mechanism of cell differentiation and the function of TFs.

UR - http://www.scopus.com/inward/record.url?scp=84967153429&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84967153429&partnerID=8YFLogxK

U2 - 10.1038/srep25667

DO - 10.1038/srep25667

M3 - Article

C2 - 27150017

AN - SCOPUS:84967153429

VL - 6

JO - Scientific Reports

JF - Scientific Reports

SN - 2045-2322

M1 - 25667

ER -