Maternal SARS-CoV-2 impacts fetal placental macrophage programs and placenta-derived microglial models of neurodevelopment
Single-cell RNA-seq · human · 12 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 12 samples: 10 distinct titles, 1 of them repeatedGroups 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
- Maternal SARS-CoV-2 impacts fetal placental macrophage programs and placenta-derived microglial models of neurodevelopmentJournal of neuroinflammation · 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 GSE270321_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1126195 and SRA study SRP515149. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 12 sample titles: 10 distinct titles with little repetition. 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.
- GSM8339541 AEb11-2_171
- GSM8339542 AEb12
- GSM8339543 AEb13_285
- GSM8339544 AEb13_318
- GSM8339545 AEb13_OB54
- GSM8339546 AEb13_9-110
- GSM8339547 AEb13_170
- GSM8339548 AEb14-2_157_CTR_M
- GSM8339549 AEb14-4_012_REC_M
- GSM8339550 AEb7_145_CTR
- GSM8339551 AEb8-2_135_CTR
- GSM8339552 AEb9-2_207_CTR
- GSE323984 MEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [bulkRNAseq_WTC11_iMGL] 48 samples shares macrophage, programs
- GSE274986 Neurodevelopmental hijacking of oligodendrocyte lineage programs drives glioblastoma infiltration [scMultiome] 26 samples shares neurodevelopment, programs
- GSE323981 MEF2C controls lysosomal and lipid clearance programs linked to Alzheimer’s disease risk in macrophages [ATAC-seq] 8 samples shares macrophage, programs
- GSE276544 MVA-based SARS-CoV-2 vaccine candidates encoding different spike protein conformations induce distinct early transcriptional responses which may impact subsequent adaptive immunity 305 samples shares sars-cov-2
- GSE240766 SARS-CoV-2 infection of human pluripotent stem cell-derived vascular cells reveals smooth muscle cells as key mediators of vascular pathology during infection 101 samples shares sars-cov-2
- GSE297329 Evolution of SARS-CoV-2 T cell responses as a function of multiple COVID-19 boosters 98 samples shares sars-cov-2
- GSE281237 Widespread gene-environment interactions shape the immune response to SARS-CoV-2 infection in hospitalized COVID-19 patients 29 samples shares sars-cov-2
- GSE241292 SARS-CoV-2-infected human nasal epithelial air-liquid interface cultures 16 samples shares sars-cov-2
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.