NK cells in the female reproductive tract (FRT) acquire an effector transcriptional program during menstruation
RNA-seq (gene expression) · mouse · 19 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
- Mus musculus (mouse)
- Samples
- 19 samples: 5 × UFRT_D8_pospos vs 5 × Spleen_D8 vs 5 × Spleen_MPA vs 4 × MPA_UFRT_posposGroups 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
- Murine modeling of menstruation identifies immune correlates of protection during Chlamydia muridarum challengePLoS pathogens · 2025
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 GSE297609_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 PRJNA1265255 and SRA study SRP586387. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 19 samples.
How we read this: 4 replicated groups read from 19 sample titles; they account for 19 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.
- GSM8995713 UFRT_D8_pospos_Rep1 UFRT_D8_pospos
- GSM8995714 UFRT_D8_pospos_Rep2 UFRT_D8_pospos
- GSM8995715 UFRT_D8_pospos_Rep3 UFRT_D8_pospos
- GSM8995716 UFRT_D8_pospos_Rep4 UFRT_D8_pospos
- GSM8995717 UFRT_D8_pospos_Rep5 UFRT_D8_pospos
- GSM8995718 MPA_UFRT_pospos_Rep1 MPA_UFRT_pospos
- GSM8995719 MPA_UFRT_pospos_Rep2 MPA_UFRT_pospos
- GSM8995720 MPA_UFRT_pospos_Rep3 MPA_UFRT_pospos
- GSM8995721 MPA_UFRT_pospos_Rep4 MPA_UFRT_pospos
- GSM8995722 Spleen_D8_Rep1 Spleen_D8
- GSM8995723 Spleen_D8_Rep2 Spleen_D8
- GSM8995724 Spleen_D8_Rep3 Spleen_D8
- GSM8995725 Spleen_D8_Rep4 Spleen_D8
- GSM8995726 Spleen_D8_Rep5 Spleen_D8
- GSM8995727 Spleen_MPA_Rep1 Spleen_MPA
- GSM8995728 Spleen_MPA_Rep2 Spleen_MPA
- GSM8995729 Spleen_MPA_Rep3 Spleen_MPA
- GSM8995730 Spleen_MPA_Rep4 Spleen_MPA
- GSM8995731 Spleen_MPA_Rep5 Spleen_MPA
- GSE305066 The postcopulatory transcriptional response in different sections of the female reproductive tract 39 samples shares reproductive, female, tract
- GSE269257 A lack of commensal microbiota influences the male reproductive tract intergenerationally in mice 62 samples shares reproductive, tract
- GSE158473 Exposure to di(2-ethylhexyl) phthalate and diisononyl phthalate during adulthood disrupts hormones and ovarian folliculogenesis throughout the prime reproductive life of the female mouse. 30 samples shares reproductive, female
- GSE279193 BHLHE40 Orchestrates TL1A-Driven ILC3 Effector Programs and RORγt⁺ APC-Mediated Tolerance 24 samples shares effector, program
- GSE241318 Asynchronous female reproductive organ ageing as revealed by single-cell transcriptomic atlas 21 samples shares reproductive, female
- GSE294713 Proton-secreting cells modulate mucosal immune surveillance in the male reproductive tract 18 samples shares reproductive, tract
- GSE300140 Engineering effector domains of MEF2C and GATA4 enhances cardiac reprogramming 15 samples shares effector, program
- GSE339513 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence (bulk experiment, NupHox mice, Lm-OVA infection) 15 samples shares effector, program
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.