Trajectory modeling of first trimester placenta highlight differences between cytotrophoblast progenitors and trophoblast stem cells
RNA-seq (gene expression) · human · 50 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
- 50 samples: 9 conditions, mostly with about 4 replicates eachGroups 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
- Single-cell transcriptomics reveal differences between chorionic and basal plate cytotrophoblasts and trophoblast stem cellsbioRxiv : the preprint server for biology · 2024
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 GSE270174_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 PRJNA1125375 and SRA study SRP514626. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 44 samples.
How we read this: 9 replicated groups read from 50 sample titles; they account for 44 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.
- GSM8335886 Whole Placenta, patient 856, 5000, rep1
- GSM8335887 Whole Placenta, patient 856, 10000, rep2
- GSM8335888 Whole Placenta, patient 860, 5000, rep1
- GSM8335889 Whole Placenta, patient 860, 10000, rep2
- GSM8335890 Whole Placenta, patient 861, 10000, rep1
- GSM8335891 Whole Placenta, patient 866, 10000, rep1
- GSM8335892 Basal Plate, patient 1276 Basal Plate, patient
- GSM8335893 Chorionic Plate, patient 1276 Chorionic Plate, patient
- GSM8335894 Basal Plate, patient 1290 Basal Plate, patient
- GSM8335895 Chorionic Plate, patient 1290 Chorionic Plate, patient
- GSM8335896 TSC, patient 906 TSC, patient
- GSM8335897 TSC, patient 1000 TSC, patient
- GSM8335898 TSC, patient 1278 TSC, patient
- GSM8335923 CP-CTB_1459_2 CP-CTB_1459
- GSM8335924 CP-CTB_1459_4 CP-CTB_1459
- GSM8335925 CP-CTB_1459_5 CP-CTB_1459
- GSM8335926 CP-CTB_1459_6 CP-CTB_1459
- GSM8335927 CP-CTB_1459_7 CP-CTB_1459
- GSM8335928 CP-CTB_1459_8 CP-CTB_1459
- GSM8335929 BP-CTB_1459_10 BP-CTB_1459
- GSM8335930 BP-CTB_1459_11 BP-CTB_1459
- GSM8335931 BP-CTB_1459_12 BP-CTB_1459
- GSM8335932 CP-CTB_1459_15 CP-CTB_1459
- GSM8335933 CP-CTB_1347_1 CP-CTB_1347
- GSM8335934 CP-CTB_1347_2 CP-CTB_1347
- GSM8335935 CP-CTB_1347_3 CP-CTB_1347
- GSM8335936 CP-CTB_1347_4 CP-CTB_1347
- GSM8335937 CP-CTB_1347_5 CP-CTB_1347
- GSM8335938 CP-CTB_1347_6 CP-CTB_1347
- GSM8335939 CP-CTB_1347_7 CP-CTB_1347
- GSM8335940 CP-CTB_1347_8 CP-CTB_1347
- GSM8335941 BP-CTB_1344_1 BP-CTB_1344
- GSM8335942 BP-CTB_1344_2 BP-CTB_1344
- GSM8335943 BP-CTB_1344_3 BP-CTB_1344
- GSM8335944 BP-CTB_1344_4 BP-CTB_1344
- GSM8335945 BP-CTB_1344_5 BP-CTB_1344
- GSM8335946 BP-CTB_1344_6 BP-CTB_1344
- GSM8335947 BP-CTB_1344_7 BP-CTB_1344
- GSM8335948 BP-CTB_1344_8 BP-CTB_1344
- GSM8335949 BP-CTB_1344_10 BP-CTB_1344
+ 10 more — browse all 50 samples with per-sample file links →
- GSE270170 Trajectory modeling of first trimester placenta highlight differences between cytotrophoblast progenitors and trophoblast stem cells [scRNA-seq] 13 samples shares cytotrophoblast, differences, progenitors, trophoblast, trajectory, trimester, highlight, modeling
- GSE243579 iPSC-based modeling of preeclampsia identifies defects in extravillous trophoblast differentiation 144 samples shares trophoblast, modeling
- GSE236796 Specificity protein 6 governs human cytotrophoblast fate decisions and trophoblast stem cell establishment by targeting MSX2 regulatory elements 42 samples shares cytotrophoblast, trophoblast
- GSE303324 SARS-CoV-2 Variant Boosters and Breakthrough Infections Drive Functional Differences in the Memory B Cell Repertoire 55 samples shares differences
- GSE332623 Immunological Differences in Atopic Dermatitis Across Age Groups: Insights from Single-Cell Multi-Omics 54 samples shares differences
- GSE266455 hiv-seq reveals global host gene expression differences between hiv-transcribing cells from viremic and suppressed people with hiv 48 samples shares differences
- GSE277202 Comprehensive Transcriptomic and Translational Profiling of Human Embryonic Stem Cell Differentiation to Definitive Endoderm and Pancreatic Progenitors via RNA-seq and Ribo-seq 14 samples shares progenitors
- GSE255685 Age-related transcriptomic differences in peripheral blood of adolescents with major depressive disorder 279 samples shares differences
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.