Klf5 functions as a multi-lineage reprogramming transcription factor
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 30 samples: 14 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE281941_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1070353 and SRA study SRP486406. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 28 samples.
How we read this: 14 replicated groups read from 30 sample titles; they account for 28 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- 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 EpiSCs_WT
- GSM8633208 RNA-seq of Mus musculus: EpiSCs_WT_rep2 EpiSCs_WT
- GSM8633209 RNA-seq of Mus musculus: TSC_WT_rep2 TSC_WT
- GSM8633210 RNA-seq of Mus musculus: TSC_WT_rep1 TSC_WT
- GSM8633211 RNA-seq of Mus musculus: ESC_WT_rep2 ESC_WT
- GSM8633212 RNA-seq of Mus musculus: ESC_WT_rep1 ESC_WT
- GSM8633213 RNA-seq of Mus musculus: ESC_Klf5_KO_rep2 ESC_Klf5_KO
- GSM8633214 RNA-seq of Mus musculus: ESC_Klf5_KO_rep1 ESC_Klf5_KO
- GSM8633215 RNA-seq of Mus musculus: iTSC_Epi2-1_No5_rep1 iTSC_Epi2-1_No5
- GSM8633216 RNA-seq of Mus musculus: iTSC_Epi2-1_No5_rep2 iTSC_Epi2-1_No5
- GSM8633217 RNA-seq of Mus musculus: iTSC_OC-Epi_No2_rep1 iTSC_OC-Epi_No2
- GSM8633218 RNA-seq of Mus musculus: iTSC_OC-Epi_No2_rep2 iTSC_OC-Epi_No2
- GSM8633219 RNA-seq of Mus musculus: iEmpty_D2_LIF_rep1 iEmpty_D2_LIF
- GSM8633220 RNA-seq of Mus musculus: iEmpty_D2_LIF_rep2 iEmpty_D2_LIF
- GSM8633221 RNA-seq of Mus musculus: iKlf5_D2_LIF_rep1 iKlf5_D2_LIF
- GSM8633222 RNA-seq of Mus musculus: iKlf5_D2_LIF_rep2 iKlf5_D2_LIF
- GSM8633223 RNA-seq of Mus musculus: iEmpty_D2_CHIR_LIF_rep1 iEmpty_D2_CHIR_LIF
- GSM8633224 RNA-seq of Mus musculus: iEmpty_D2_CHIR_LIF_rep2 iEmpty_D2_CHIR_LIF
- GSM8633225 RNA-seq of Mus musculus: iKlf5_D2_CHIR_LIF_rep2 iKlf5_D2_CHIR_LIF
- GSM8633226 RNA-seq of Mus musculus: iKlf5_D2_CHIR_LIF_rep1 iKlf5_D2_CHIR_LIF
- GSM8633227 RNA-seq of Mus musculus: iEmpty_D5_LIF_rep1 iEmpty_D5_LIF
- GSM8633228 RNA-seq of Mus musculus: iEmpty_D5_LIF_rep2 iEmpty_D5_LIF
- GSM8633229 RNA-seq of Mus musculus: iKlf5_D5_LIF_rep1 iKlf5_D5_LIF
- GSM8633230 RNA-seq of Mus musculus: iKlf5_D5_LIF_rep2 iKlf5_D5_LIF
- GSM8633231 RNA-seq of Mus musculus: iEmpty_D5_CHIR_LIF_rep1 iEmpty_D5_CHIR_LIF
- GSM8633232 RNA-seq of Mus musculus: iEmpty_D5_CHIR_LIF_rep2 iEmpty_D5_CHIR_LIF
- GSM8633233 RNA-seq of Mus musculus: iKlf5_D5_CHIR_LIF_rep1 iKlf5_D5_CHIR_LIF
- GSM8633234 RNA-seq of Mus musculus: iKlf5_D5_CHIR_LIF_rep2 iKlf5_D5_CHIR_LIF
- GSE243165 Signal-responsive transcription factors cooperate to establish alveolar macrophage identity 42 samples shares transcription, factor
- GSE294772 Single-Cell Epigenomics Uncovers Heterochromatin Instability and Transcription Factor Dysfunction during Mouse Brain Aging [snATAC-Seq] [10X Multiome] 142 samples shares transcription, factor
- GSE283382 N6-methyladenosine modulate second cell fate decision by enhancing mRNA stability of pivotal transcription factors during primitive endoderm development [TBLC_RNAseq] 98 samples shares transcription, factor
- GSE286046 Asymmetric Histone Inheritance Regulates Differential Transcription Re-initiation and Cell Fate Decisions in Mouse Olfactory Horizontal Basal Cells 96 samples shares transcription, factor
- GSE282280 DNA methylation-sensitive transcription factors and bivalency orchestrate transposon expression in the absence of DNA methylation. 93 samples shares transcription, factor
- GSE269910 The pioneer transcription factor PBX as a downstream target of MNX1 [ACT] 55 samples shares transcription, factor
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares transcription, factor
- GSE302858 Multi-tier signaling and epigenomic reprogramming drive microglial inflammatory states and functions associated with demyelination [ATAC-seq] 42 samples shares reprogramming, functions
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.