Pan organ and time course analysis of T cells in acute LCMV (armstrong) infection (day 60) [I40]
RNA-seq (gene expression) · mouse · 30 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
- 30 samples: 30 samples, each with a distinct title — no replicated groupsGroups 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
- Epidermal resident memory T cell fitness requires antigen encounter in the skineLife · 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 GSE301961_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 PRJNA1287788 and SRA study SRP598763. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 30 sample titles: 30 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.
- GSM9079193 I40H10_LNmediastinal_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079194 I40H10_LNmediastinal_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079195 I40H10_LNmediastinal_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079196 I40H1_spleen_allT_mouse0141_FBC
- GSM9079197 I40H1_spleen_allT_mouse0141_GEX
- GSM9079198 I40H1_spleen_allT_mouse0141_TCR
- GSM9079199 I40H2_spleen_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079200 I40H2_spleen_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079201 I40H2_spleen_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079202 I40H3_prostate_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079203 I40H3_prostate_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079204 I40H3_prostate_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079205 I40H4_salivarygland_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079206 I40H4_salivarygland_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079207 I40H4_salivarygland_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079208 I40H5_bonemarrow_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079209 I40H5_bonemarrow_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079210 I40H5_bonemarrow_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079211 I40H6_LNmesenteric_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079212 I40H6_LNmesenteric_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079213 I40H6_LNmesenteric_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079214 I40H7_smallintestineIEL_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079215 I40H7_smallintestineIEL_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079216 I40H7_smallintestineIEL_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079217 I40H8_smallintestineLP_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079218 I40H8_smallintestineLP_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079219 I40H8_smallintestineLP_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSM9079220 I40H9_lung_LCMVarm_D60_allT_P14_SMARTA_mouse0142_FBC
- GSM9079221 I40H9_lung_LCMVarm_D60_allT_P14_SMARTA_mouse0142_GEX
- GSM9079222 I40H9_lung_LCMVarm_D60_allT_P14_SMARTA_mouse0142_TCR
- GSE301960 Pan organ and time course analysis of T cells in acute LCMV (armstrong) infection (day 30) [I38] 30 samples shares lcmv, armstrong, course, organ, acute, time
- GSE301271 Pan organ and time course analysis of T cells in acute LCMV (armstrong) infection (day 7) [I36] 30 samples shares lcmv, armstrong, course, organ, acute, time
- GSE226067 scATAC-seq of antigen-specific CD8+ T cells from different time-course of LCMV-Armstrong infected mice 5 samples shares lcmv, armstrong, course, time
- GSE278804 Single cell RNA sequencing of TCF-1+ precursor cells reacting to LCMV gp33 vs np396 multimers sorted 30 days after infection with LCMV Armstrong [scRNA-Seq + TCR 10x] 12 samples shares lcmv, armstrong, time
- GSE44322 Gene expression profile analysis of mouse whole spleen following infection by lymphocytic choriomeningitis virus (LCMV), comparing LCMV-Armstrong and LCMV-Clone 13 expression patterns at 0, 5, 9, and 30 days 26 samples shares lcmv, armstrong
- GSE141640 Gene expression changes in bone marrow dendritic cell progenitors upon acute and chronic LCMV infection 24 samples shares lcmv, acute
- GSE300892 Cell-intrinsic Tim-3 is Required for Optimal CD8 Response to Acute LCMV Infection [RNAseq] 10 samples shares lcmv, acute
- GSE278803 Bulk RNA sequencing of PD1hi vs PD1low TCF-1+ P14 precursor cells sorted 7 days after infection with LCMV Armstrong [bulk RNA-seq] 10 samples shares lcmv, armstrong
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.