PEG3 function in trophoblast stem cells
DNA methylation · mouse · 34 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Mus musculus (mouse)
- Samples
- 34 samples: 34 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 GSE228265_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: Look for beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA949170 and SRA study SRP429503. 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 34 sample titles: 34 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.
- GSM7117916 Trophoblast stem cells, Day0, Peg3 KO RNA-seq, biol rep 1 [D0-KO19]
- GSM7117917 Trophoblast stem cells, Day0, Peg3 KO RNA-seq, biol rep 2 [D0-KO34]
- GSM7117918 Trophoblast stem cells, Day0, Peg3 KO RNA-seq, biol rep 3 [Day0-KO44]
- GSM7117919 Trophoblast stem cells, Day0, WT RNA-seq, biol rep 1 [D0-WT6]
- GSM7117920 Trophoblast stem cells, Day0, WT RNA-seq, biol rep 2 [D0-WT7]
- GSM7117921 Trophoblast stem cells, Day0, WT RNA-seq, biol rep 3 [D0-WT9]
- GSM7117922 Trophoblast stem cells, Day0, WT RNA-seq, biol rep 4 [D0-WT17]
- GSM7117923 Trophoblast stem cells, Day2, Peg3 KO RNA-seq, biol rep 1 [D2-KO19]
- GSM7117924 Trophoblast stem cells, Day2, Peg3 KO RNA-seq, biol rep 2 [D2-KO34]
- GSM7117925 Trophoblast stem cells, Day2, Peg3 KO RNA-seq, biol rep 3 [Day2-KO44]
- GSM7117926 Trophoblast stem cells, Day2, WT RNA-seq, biol rep 1 [D2-WT6]
- GSM7117927 Trophoblast stem cells, Day2, WT RNA-seq, biol rep 2 [D2-WT7]
- GSM7117928 Trophoblast stem cells, Day2, WT RNA-seq, biol rep 3 [D2-WT9]
- GSM7117929 Trophoblast stem cells, Day2, WT RNA-seq, biol rep 4 [D2-WT17]
- GSM7117930 Trophoblast stem cells, Day4, Peg3 KO RNA-seq, biol rep 1 [D4-KO19]
- GSM7117931 Trophoblast stem cells, Day4, Peg3 KO RNA-seq, biol rep 2 [D4-KO34]
- GSM7117932 Trophoblast stem cells, Day4, Peg3 KO RNA-seq, biol rep 3 [Day4-KO44]
- GSM7117933 Trophoblast stem cells, Day4, WT RNA-seq, biol rep 1 [D4-WT6]
- GSM7117934 Trophoblast stem cells, Day4, WT RNA-seq, biol rep 2 [D4-WT7]
- GSM7117935 Trophoblast stem cells, Day4, WT RNA-seq, biol rep 3 [D4-WT9]
- GSM7117936 Trophoblast stem cells, Day4, WT RNA-seq, biol rep 4 [D4-WT17]
- GSM7117937 Trophoblast stem cells, Peg3 KO meDIP-seq, biol rep 1 [Peg3 KO Sample 1 meDIP]
- GSM7117938 Trophoblast stem cells, Peg3 KO meDIP-seq, biol rep 2 [Peg3 KO Sample 2 meDIP]
- GSM7117939 Trophoblast stem cells, Peg3 KO meDIP-seq, biol rep 3 [Peg3 KO Sample 3 meDIP]
- GSM7117940 Trophoblast stem cells, Peg3 KO meDIP-seq, biol rep 4 [Peg3 KO Sample 4 meDIP]
- GSM7117941 Trophoblast stem cells, WT meDIP-seq, biol rep 1 [WT Sample 1 meDIP]
- GSM7117942 Trophoblast stem cells, WT meDIP-seq, biol rep 2 [WT Sample 2 meDIP]
- GSM7117943 Trophoblast stem cells, WT meDIP-seq, biol rep 3 [WT Sample 3 meDIP]
- GSM7117944 Trophoblast stem cells, WT meDIP-seq, biol rep 4 [WT Sample 4 meDIP]
- GSM7117945 Trophoblast stem cells, WT meDIP-seq, biol rep 5 [WT Sample 5 meDIP]
- GSM7117946 Trophoblast stem cells, WT meDIP-seq, biol rep 6 [WT Sample 6 meDIP]
- GSM7117947 Trophoblast stem cells, Peg3 KO input, biol rep 1 [Peg3 KO Sample 1 input]
- GSM7117948 Trophoblast stem cells, WT input, biol rep 1 [WT Sample 1 input]
- GSM7117949 Trophoblast stem cells, WT input, biol rep 2 [WT Sample 2 input]
- GSE271100 Stem cells tightly regulate dead cell clearance to maintain tissue fitness [scRNA-seq] 1037 samples shares stem
- GSE265909 yHSC and oHSC scRNAseq with oHSC AThi ATlo Index Sorting. Assessing the transcriptional changes associated with autophagy engagement in old hematopoietic stem cells at single cell resolution. [scRNA-Seq] 563 samples shares stem
- GSE270036 Investigate the functions of core pluripotency transcription factors in embryonic stem cells 30 samples shares stem
- GSE202079 Short term perturbation of mouse embryonic stem cells with morphogens and small molecule compounds 208 samples shares stem
- GSE272452 Generation of germinal-vesicle oocytes from mouse embryonic stem cells under an ovarian soma-free condition 202 samples shares stem
- GSE271800 Diploid embryo complementation of embryonic stem cells efficiently generates a homozygous Gjb2 mutant deaf mouse model 131 samples shares stem
- GSE295530 MeCP2 stabilizes the glucocorticoid system in active chromatin regions [RNA-seq] 723 samples shares stem
- GSE292289 H3K79 methylation and H3K36 trimethylation synergistically regulate gene expression in pluripotent stem cells 94 samples shares stem
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.