title: Systematic repression of transcription factors reveals limited patterns of gene expression changes in ES cells.
abstract: Networks of transcription factors (TFs) are thought to determine and maintain the identity of cells. Here we systematically repressed each of 100 TFs with shRNA and carried out global gene expression profiling in mouse embryonic stem (ES) cells. Unexpectedly, only the repression of a handful of TFs significantly affected transcriptomes, which changed in two directions/trajectories: one trajectory by the repression of either Pou5f1 or Sox2; the other trajectory by the repression of either Esrrb, Sall4, Nanog, or Tcfap4. The data suggest that the trajectories of gene expression change are already preconfigured by the gene regulatory network and roughly correspond to extraembryonic and embryonic fates of cell differentiation, respectively. These data also indicate the robustness of the pluripotency gene network, as the transient repression of most TFs did not alter the transcriptomes.
authors: National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA. kom@z7.keio.jp
authors: Akira
authors: A
authors: Nishiyama
authors: Alexei A
authors: AA
authors: Sharov
authors: Yulan
authors: Y
authors: Piao
authors: Misa
authors: M
authors: Amano
authors: Tomokazu
authors: T
authors: Amano
authors: Hien G
authors: HG
authors: Hoang
authors: Bernard Y
authors: BY
authors: Binder
authors: Richard
authors: R
authors: Tapnio
authors: Uwem
authors: U
authors: Bassey
authors: Justin N
authors: JN
authors: Malinou
authors: Lina S
authors: LS
authors: Correa-Cerro
authors: Hong
authors: H
authors: Yu
authors: Li
authors: L
authors: Xin
authors: Emily
authors: E
authors: Meyers
authors: Michal
authors: M
authors: Zalzman
authors: Yuhki
authors: Y
authors: Nakatake
authors: Carole
authors: C
authors: Stagg
authors: Lioudmila
authors: L
authors: Sharova
authors: Yong
authors: Y
authors: Qian
authors: Dawood
authors: D
authors: Dudekula
authors: Sarah
authors: S
authors: Sheer
authors: Jean S
authors: JS
authors: Cadet
authors: Tetsuya
authors: T
authors: Hirata
authors: Hsih-Te
authors: HT
authors: Yang
authors: Ilya
authors: I
authors: Goldberg
authors: Michele K
authors: MK
authors: Evans
authors: Dan L
authors: DL
authors: Longo
authors: David
authors: D
authors: Schlessinger
authors: Minoru S H
authors: MS
authors: Ko
mesh_terms: D000818:Animals; D016000:Cluster Analysis; D053595:Embryonic Stem Cells / Q000378:metabolism*; D020869:Gene Expression Profiling; D018507:Gene Expression Regulation, Developmental; D020868:Gene Silencing; D051379:Mice; D008954:Models, Biological; D034622:RNA Interference; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism; D059467:Transcriptome
chemical_list: D014157:Transcription Factors