Effect of PD-1 immune checkpoint in Alzheimer's disease transgenic mice
RNA-seq (gene expression) · mouse · 25 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
- 25 samples: 25 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.
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 GSE75484_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 PRJNA304412 and SRA study SRP066786. 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 25 sample titles: 25 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.
- GSM1956923 PD1-1_M_14
- GSM1956924 PD1-2_M_14
- GSM1956925 PD1-3_F_10
- GSM1956926 PD1-4_F_10
- GSM1956927 PD1-5_F_6
- GSM1956928 IgG-1_M_14
- GSM1956929 IgG-2_M_14
- GSM1956930 IgG-3_F_10
- GSM1956931 IgG-4_F_7
- GSM1956932 IgG-5_F_6
- GSM1956933 Un-1_M_14
- GSM1956934 Un-2_M_14
- GSM1956935 Un-3_F_8
- GSM1956936 Un-4_M_6
- GSM1956937 11_mic_D7PD1
- GSM1956938 12_mic_D7PD2
- GSM1956939 13_mic_D7PD3
- GSM1956940 5_mic_D14PD1
- GSM1956941 6_mic_D14PD2
- GSM1956942 7_mic_D14PD3
- GSM1956943 11_mono_D7PD1
- GSM1956944 12_mono_D7PD2
- GSM1956945 13_mono_D7PD3
- GSM1956946 5_mono_D14PD1
- GSM1956947 6_mono_D14PD2
- GSE223424 Immune checkpoint TIM-3 regulates microglia and Alzheimer’s disease 57 samples shares checkpoint, alzheimer
- GSE276797 Gene expression profile at single cell level of immune cells from the deep cervical lymph nodes (dCLNs), superficial cervical lymph nodes (sCLNs), and inguinal lymph nodes (iLNs) of wild-type (WT) and Alzheimer's disease (AD) transgenic animals (5xFAD) 34 samples shares transgenic, alzheimer
- GSE293295 Discovery of BMS-986408, a First-In-Class Dual DGK⍺ and DGK Inhibitor That Unleashes PD-1 Checkpoint and CAR-T Cell Immunotherapies 20 samples shares pd-1, checkpoint
- GSE327494 Localized PD-1 CAR T therapy reprograms neuroinflammation - mouse CAR T data. 302 samples shares pd-1
- GSE307127 Immune Receptor Lag3 Deletion Alleviates Neurodegeneration Phenotypes in a Mouse Model of Alzheimer’s Disease 36 samples shares alzheimer
- GSE301560 Hematopoietic loss of Y chromosome activates immune checkpoints to impair senescent cell clearance contributing to renal disease 20 samples shares checkpoint
- GSE269347 Daunorubicin-induced T cell remodeling facilitates a high antitumor response to PD-1 blockade therapy by promoting the expansion and effector function of CD8+ prolifeating T cells [scRNA-Seq] 16 samples shares pd-1
- GSE252358 Acetylcyssteine synergizes PD-1 blockers against colorectal cancer progression by promoting TCF1+PD1+CD8+ T cell differentiation in mice 10 samples shares pd-1
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.