NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE111786 Query DataSets for GSE111786
Status Public on Jan 01, 2019
Title Impact of shRNA-mediated KLF4 down-modulation on the transcriptome profile of human keratinocyte precursor cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Characterization at the global transcriptome level of the gene networks ensuring the regulation of the immature status of cutaneous stem- and precursor-cells is a necessary step to further understand the concept of ‘stemness’ in this tissue. Moreover, considering possible clinical applications, the search for molecular targets to control stem cell characteristics and regenerative capacity is a necessary step to improve therapeutic approaches. Cutaneous cell therapy is concerned by this objective, as skin graft bioengineering requires a phase of ex vivo expansion of keratinocytes from donors, during which the preservation of a sufficient stem cell pool is critical for graft take and long-term skin regeneration. We have investigated the role of transcription factor KLF4 in native keratinocyte precursors from adult human skin. A stable lentiviral-based shRNA-mediated KLF4 knock‑down (KD) approach was developed and used to study the properties of KLF4-deficient [KLF4KD] versus control [KLF4WT] native keratinocyte precursors. Using long-term cultures and clonal assays, we found that decreased KLF4 expression increased keratinocyte precursor immaturity and clonogenic potential, thus promoting self-renewal. Importantly, [KLF4KD] keratinocyte precursors exhibited an improved grafting capacity in an in vivo skin xenograft model and in serial grafting. To analyze the biological impact of KLF4 knock‑down at the molecular level, comparative transcriptome profiling of [KLF4WT] and [KLF4KD] cells was performed using next-generation RNA sequencing (RNA-seq). This set of data provides a material that permits the dissection of genetic networks modulated by KLF4 in human keratinocyte precursor cells, and controlling their immature status and epidermis regeneration capacity.
 
Overall design The study is based on the comparative RNA-seq analysis of human keratinocyte precursor cells corresponding to 3 cellular contexts: 1) non-transduced wild-type (WT) cells, [KLF4WT]; 2) cells transduced with a control lentiviral vector driving the expression of the reporter gene GFP, [KLF4WT]; 3) cells transduced with a lentiviral vector driving the expression of GFP and an anti-KLF4 shRNA, [KLF4KD]. For each cellular context 3 biological replicates were conducted (Bio rep), each including 3 technical replicates (Tech rep).
 
Contributor(s) Fortunel NO, Chadli L, Deleuze J, Martin MT
Citation(s) 32998444, 38542324
Submission date Mar 13, 2018
Last update date Apr 04, 2024
Contact name Nicolas Fortunel
E-mail(s) [email protected]
Phone +33160873492
Organization name CEA
Department IRCM/SCSR
Lab LGRK
Street address 2 rue Gaston Cremieux
City EVRY
ZIP/Postal code 91000
Country France
 
Platforms (1)
GPL15433 Illumina HiSeq 1000 (Homo sapiens)
Samples (26)
GSM3039677 Non-transduced [KLF4WT] Bio rep.1 Tech rep a
GSM3039678 Non-transduced [KLF4WT] Bio rep.1 Tech rep b
GSM3039679 Non-transduced [KLF4WT] Bio rep.1 Tech rep c
Relations
BioProject PRJNA438134
SRA SRP135295

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE111786_counts_normalized.csv.gz 2.8 Mb (ftp)(http) CSV
GSE111786_counts_raw.csv.gz 664.6 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap