GEO series
Klf5 functions as a multi-lineage reprogramming transcription factor
GSE281941
Mus musculus
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
30 samples
Submitted 2025/06/01
Platform GPL24247Platform GPL28330
Summary
The transcription factor Klf5 is indispensable for both embryonic (redundantly with Klf4) and extra-embryonic development during pre-implantation, yet its role in re-establishing these different fates in vitro remains largely unexplored. Here, we demonstrate that in the absence of WNT signaling activation at the beginning, ectopic expression of Klf5 in post-implantation epiblast stem cells (EpiSCs) not only induces naïve pluripotency, but also exclusively drives reprogramming into trophoblast stem cells (TSCs) and primordial germ cells (PGCs) by directly reactivating key lineage-specific determinants. Single-cell transcriptome analysis reveals distinct reprogramming trajectories toward these three fates, alongside a non-reprogramming trajectory that driven by Klf5-mediated BMP signaling activation. Moreover, endogenous Klf5 is crucial for establishing TSC and PGC fates from embryonic stem cells driven by other inducers. Our findings highlight Klf5’s multipotent reprogramming capacity and its pivotal role in early TSC and PGC fate specification, offering new insights into its versatile functions during embryonic development.
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE281941_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 30 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1070353 and SRA study SRP486406. Searching any of these in the dataset finder brings you back here.
Study design
14 conditions, mostly in duplicate
EpiSCs_WT ×2
TSC_WT ×2
ESC_WT ×2
ESC_Klf5_KO ×2
iTSC_Epi2-1_No5 ×2
iTSC_OC-Epi_No2 ×2
iEmpty_D2_LIF ×2
iKlf5_D2_LIF ×2
+8 more
Supports a between-group comparison across 28 samples.
14 replicated groups read from 30 sample titles; they account for 28 of them. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8633205 CUT&Tag of Mus musculus: iKlf5_D2_LIF_KLF5_CUTTag
- GSM8633206 CUT&Tag of Mus musculus: ESC_IgG_CUTTag
- GSM8633207 RNA-seq of Mus musculus: EpiSCs_WT_rep1
- GSM8633208 RNA-seq of Mus musculus: EpiSCs_WT_rep2
- GSM8633209 RNA-seq of Mus musculus: TSC_WT_rep2
- GSM8633210 RNA-seq of Mus musculus: TSC_WT_rep1
- GSM8633211 RNA-seq of Mus musculus: ESC_WT_rep2
- GSM8633212 RNA-seq of Mus musculus: ESC_WT_rep1
- GSM8633213 RNA-seq of Mus musculus: ESC_Klf5_KO_rep2
- GSM8633214 RNA-seq of Mus musculus: ESC_Klf5_KO_rep1
- GSM8633215 RNA-seq of Mus musculus: iTSC_Epi2-1_No5_rep1
- GSM8633216 RNA-seq of Mus musculus: iTSC_Epi2-1_No5_rep2
- GSM8633217 RNA-seq of Mus musculus: iTSC_OC-Epi_No2_rep1
- GSM8633218 RNA-seq of Mus musculus: iTSC_OC-Epi_No2_rep2
- GSM8633219 RNA-seq of Mus musculus: iEmpty_D2_LIF_rep1
- GSM8633220 RNA-seq of Mus musculus: iEmpty_D2_LIF_rep2
- GSM8633221 RNA-seq of Mus musculus: iKlf5_D2_LIF_rep1
- GSM8633222 RNA-seq of Mus musculus: iKlf5_D2_LIF_rep2
- GSM8633223 RNA-seq of Mus musculus: iEmpty_D2_CHIR_LIF_rep1
- GSM8633224 RNA-seq of Mus musculus: iEmpty_D2_CHIR_LIF_rep2
- GSM8633225 RNA-seq of Mus musculus: iKlf5_D2_CHIR_LIF_rep2
- GSM8633226 RNA-seq of Mus musculus: iKlf5_D2_CHIR_LIF_rep1
- GSM8633227 RNA-seq of Mus musculus: iEmpty_D5_LIF_rep1
- GSM8633228 RNA-seq of Mus musculus: iEmpty_D5_LIF_rep2
- GSM8633229 RNA-seq of Mus musculus: iKlf5_D5_LIF_rep1
- GSM8633230 RNA-seq of Mus musculus: iKlf5_D5_LIF_rep2
- GSM8633231 RNA-seq of Mus musculus: iEmpty_D5_CHIR_LIF_rep1
- GSM8633232 RNA-seq of Mus musculus: iEmpty_D5_CHIR_LIF_rep2
- GSM8633233 RNA-seq of Mus musculus: iKlf5_D5_CHIR_LIF_rep1
- GSM8633234 RNA-seq of Mus musculus: iKlf5_D5_CHIR_LIF_rep2
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