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Due to system maintenance, the application system, application review by the Data Access Committee will be unavailable during the following period.
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Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Research ID

hum0115-v1Release info

Latest

Research title

Controlling cell differentiation with precision through understanding the structure and dynamics of gene regulatory networks

Research overview

Aims
Transcriptome analyses for transgene induced ES cell (TF-hESC) lines which carry open reading frame (ORF) of transcriptional factors (TFs).
Methods
RNA sequencing and Microarray assay
Participants/materials
Transcriptome data of each transcriptional factor induced human embryonic stem cell (TF-hESC) lines which were derived from SEES3.
<RNA-seq data>
Each TF-hESC line was specifically induced in response to 437 transgenes (almost all of them were categorized as transcriptional factor: TF). Each line has biological replicate from two independent clones (some are missing replicates because of poor gene inductions). Each data was obtained from cell culture with or without TF induction, at 48-hour , or multiple time points. As total, 2300 samples were analyzed in parallel experiments (437 genes x [1 or 2 clones] x [2 or more culture conditions]).
<microarray data>
Each TF-hESC line was specifically induced in response to 116 transgenes (almost all of them were categorized as transcriptional factor: TF). As total, 448 samples were obtained from 48-hour culture with or without transgene induction (116 genes x [1 or 2 clones] x 2 culture conditions).
URL
N/A

Datasets

CartDataset IDType of dataAnalysis methodAccess criteriaDate published
JGAD000132Microarray
  • 発現アレイ
Controlled-access (Type I)2020-09-28
DRA006296NGS (RNA-seq)
  • RNA-seq
Unrestricted-access2019-10-18

Data provider

Principal investigator
Minoru S.H. Ko
Affiliation
Department of Systems Medicine, Mitsunada SakaguchiLaboratory, Keio University School of Medicine

Research projects

NameURL
JST CREST: Creation of Fundamental Technologies for Understanding and Control of Biosystem Dynamics / Controlling cell differentiation with precision through understanding the structure and dynamics of gene regulatory networks

Grants

NameTitleProject number
CREST / Creation of Fundamental Technologies for Understanding and Control of Biosystem Dynamics
Controlling cell differentiation with precision through understanding the structure and dynamics of gene regulatory networks
  • JPMJCR12W4

Related publications

TitleDOIDataset ID
Generation and Profiling of 2,135 Human ESC Lines for the Systematic Analyses of Cell States Perturbed by Inducing Single Transcription Factors
https://doi.org/10.1016/j.celrep.2020.107655 (opens in a new tab)

Controlled access users

No use of the controlled access data has been recorded.