Specificity protein 6 governs human cytotrophoblast fate decisions and trophoblast stem cell establishment by targeting MSX2 regulatory elements
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 42 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
- Homo sapiens (human)
- Samples
- 42 samples: 20 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.
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 GSE236796_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 PRJNA992434 and SRA study SRP448029. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 40 samples.
How we read this: 20 replicated groups read from 42 sample titles; they account for 40 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.
- GSM7577174 G3M,CON,H3K27me3_rep1 G3M,CON,H3K27me3
- GSM7577175 G3M,CON,H3K27me3_rep2 G3M,CON,H3K27me3
- GSM7577176 G3M,SP6KO,H3K27me3_rep1 G3M,SP6KO,H3K27me3
- GSM7577177 G3M,SP6KO,H3K27me3_rep2 G3M,SP6KO,H3K27me3
- GSM7577178 G3M,CON,H3K4me3_rep1 G3M,CON,H3K4me3
- GSM7577179 G3M,CON,H3K4me3_rep2 G3M,CON,H3K4me3
- GSM7577180 G3M,SP6KO,H3K4me3_rep1 G3M,SP6KO,H3K4me3
- GSM7577181 G3M,SP6KO,H3K4me3_rep2 G3M,SP6KO,H3K4me3
- GSM7577182 G3M,CON,IgG
- GSM7577183 G3M,SP6KO,IgG
- GSM7577184 G3MS6G,HA_rep1 G3MS6G,HA
- GSM7577185 G3MS6G,HA_rep2 G3MS6G,HA
- GSM7577186 G3M,CON,CT_like_rep1 G3M,CON,CT_like
- GSM7577187 G3M,CON,CT_like_rep2 G3M,CON,CT_like
- GSM7577188 G3M,SP6KO,CT_like_rep1 G3M,SP6KO,CT_like
- GSM7577189 G3M,SP6KO,CT_like_rep2 G3M,SP6KO,CT_like
- GSM7577190 G3M/S6G,HIGH_rep1 G3M/S6G,HIGH
- GSM7577191 G3M/S6G,HIGH_rep2 G3M/S6G,HIGH
- GSM7577192 G3M/S6G,LOW_rep1 G3M/S6G,LOW
- GSM7577193 G3M/S6G,LOW_rep2 G3M/S6G,LOW
- GSM7577194 G3M,CT_like,D0_rep1 G3M,CT_like,D0
- GSM7577195 G3M,CT_like,D0_rep2 G3M,CT_like,D0
- GSM7577196 G3M,CT_like,D1,DOX_rep1 G3M,CT_like,D1,DOX
- GSM7577197 G3M,CT_like,D1,DOX_rep2 G3M,CT_like,D1,DOX
- GSM7577198 G3M,CT_like,D1,noDOX_rep1 G3M,CT_like,D1,noDOX
- GSM7577199 G3M,CT_like,D1,noDOX_rep2 G3M,CT_like,D1,noDOX
- GSM7577200 G3M,CT_like,D2,DOX_rep1 G3M,CT_like,D2,DOX
- GSM7577201 G3M,CT_like,D2,DOX_rep2 G3M,CT_like,D2,DOX
- GSM7577202 G3M,CT_like,D2,noDOX_rep1 G3M,CT_like,D2,noDOX
- GSM7577203 G3M,CT_like,D2,noDOX_rep2 G3M,CT_like,D2,noDOX
- GSM7577204 G3M,CT_like,D3,DOX_rep1 G3M,CT_like,D3,DOX
- GSM7577205 G3M,CT_like,D3,DOX_rep2 G3M,CT_like,D3,DOX
- GSM7577206 G3M,CT_like,D3,noDOX_rep1 G3M,CT_like,D3,noDOX
- GSM7577207 G3M,CT_like,D3,noDOX_rep2 G3M,CT_like,D3,noDOX
- GSM7951527 G3M,CON,H3K27ac_SI_rep1 G3M,CON,H3K27ac_SI
- GSM7951528 G3M,CON,H3K27ac_SI_rep2 G3M,CON,H3K27ac_SI
- GSM7951529 G3M,SP6KO,H3K27ac_SI_rep1 G3M,SP6KO,H3K27ac_SI
- GSM7951530 G3M,SP6KO,H3K27ac_SI_rep2 G3M,SP6KO,H3K27ac_SI
- GSM7951531 G3M,CON,P300_SI_rep1 G3M,CON,P300_SI
- GSM7951532 G3M,CON,P300_SI_rep2 G3M,CON,P300_SI
+ 2 more — browse all 42 samples with per-sample file links →
- GSE236795 Specificity protein 6 governs human cytotrophoblast fate decisions and trophoblast stem cell establishment by targeting MSX2 regulatory elements [RNA-seq] 22 samples shares msx2, cytotrophoblast, establishment, specificity, trophoblast, regulatory, decisions, targeting
- GSE236794 Specificity protein 6 governs human cytotrophoblast fate decisions and trophoblast stem cell establishment by targeting MSX2 regulatory elements [ChIP-seq] 20 samples shares msx2, cytotrophoblast, establishment, specificity, trophoblast, regulatory, decisions, targeting
- GSE281471 Targeting CD206+ macrophages disrupts the establishment of a key anti-tumor immune axis [Bulk RNA-seq] 243 samples shares establishment, targeting
- GSE270174 Trajectory modeling of first trimester placenta highlight differences between cytotrophoblast progenitors and trophoblast stem cells 50 samples shares cytotrophoblast, trophoblast
- GSE250585 Establishment and comparison of human term placenta-derived trophoblast cells 31 samples shares establishment, trophoblast
- GSE279087 Placental cytotrophoblast microvillar stabilization is required for cell-cell fusion 20 samples shares cytotrophoblast, trophoblast
- GSE270586 The specificity of gene activation was revealed by RNA-seq in the HEK293T cells transfected with the dCasMINI-VPR or dhpCasMINI-VPR system targeting IL1RN [RNA-seq] 18 samples shares specificity, targeting
- GSE8501 MicroRNA targeting specificity in mammals: determinants beyond seed pairing 18 samples shares specificity, targeting
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.