Hypoxia and loss of GCM1 expression prevents differentiation and contact inhibition in human trophoblast stem cells [RNA-Seq I]
RNA-seq (gene expression) · human · 26 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 26 samples: 9 conditions, mostly in triplicateGroups 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.
- Paper
- Hypoxia and loss of GCM1 expression prevents differentiation and contact inhibition in human trophoblast stem cellsbioRxiv : the preprint server for biology · 2024
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 GSE276595_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1157893 and SRA study SRP531175. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 26 samples.
How we read this: 9 replicated groups read from 26 sample titles; they account for 26 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.
- GSM8502788 CT1-20_rep1 CT1-20
- GSM8502789 CT3-20_rep1 CT3-20
- GSM8502790 BT2-20_rep1 BT2-20
- GSM8502791 CT1-5_rep1 CT1-5
- GSM8502792 CT3-5_rep1 CT3-5
- GSM8502793 BT2-5_rep1 BT2-5
- GSM8502794 CT1-2_rep1 CT1-2
- GSM8502795 CT3-2_rep1 CT3-2
- GSM8502796 BT2-2_rep1 BT2-2
- GSM8502797 CT1-20_rep2 CT1-20
- GSM8502798 CT3-20_rep2 CT3-20
- GSM8502799 CT1-5_rep2 CT1-5
- GSM8502800 CT3-5_rep2 CT3-5
- GSM8502801 BT2-5_rep2 BT2-5
- GSM8502802 CT1-2_rep2 CT1-2
- GSM8502803 CT3-2_rep2 CT3-2
- GSM8502804 BT2-2_rep2 BT2-2
- GSM8502805 CT1-20_rep3 CT1-20
- GSM8502806 CT3-5_rep3 CT3-5
- GSM8502807 BT2-20_rep2 BT2-20
- GSM8502808 BT2-2_rep3 BT2-2
- GSM8502809 CT1-2_rep3 CT1-2
- GSM8502810 BT2-5_rep3 BT2-5
- GSM8502811 CT1-5_rep3 CT1-5
- GSM8502812 CT3-2_rep3 CT3-2
- GSM8502813 CT3-20_rep3 CT3-20
- GSE292828 Inhibition of NFAT after human uterus transplant promotes loss of tissue-resident NK cells and attendant pregnancy complications [scRNA-seq] 39 samples shares inhibition, rna-seq, loss
- GSE304126 CDK8 inhibition sequesters Med1 at EWS-FLI enhancers [RNA-Seq] 68 samples shares inhibition, rna-seq
- GSE268776 Multi-omics approaches reveal that Diffuse Midline Gliomas are susceptible to replication stress therapy and cholesterol biosynthesis inhibition [RNA-seq] 64 samples shares inhibition, rna-seq
- GSE323965 Transcriptional signatures indicating RB function may predict response to CDK4/6 inhibition in endometrial cancer [RNA-Seq] 39 samples shares inhibition, rna-seq
- GSE313114 Inhibition of METTL3 by STC-15 induces RNA misprocessing that results in dsRNA formation and activates innate immunity [RNA-Seq dose_response] 21 samples shares inhibition, rna-seq
- GSE297335 ABHD18 is essential for cardiolipin remodeling and its inhibition restores mitochondrial function in Barth Syndrome [RNA-Seq] 18 samples shares inhibition, rna-seq
- GSE337276 DNA methylation maintenance by DNMT1 is essential for human trophoblast stem cell homeostasis and differentiation [RNA-seq] 15 samples shares trophoblast, rna-seq
- GSE311253 RNA-seq profiling of ADAM10 inhibition in DLD-1 and SW620 colorectal cancer cell lines 12 samples shares inhibition, rna-seq
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.