Elucidating the impact of chemotherapy on skeletal progenitors
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 43 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 43 samples: 32 distinct titles, 8 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.
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 GSE296761_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 peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1261009 and SRA study SRP584196. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 43 sample titles: 32 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.
- GSM8975917 PBS female pooled two bio rep
- GSM8975918 DOX female pooled two bio rep
- GSM8975967 PBS bio rep 1 female
- GSM8975968 PBS bio rep 2 female
- GSM8975969 PBS bio rep 3 female
- GSM8975970 DOX4X bio rep 1 female
- GSM8975971 DOX4X bio rep 2 female
- GSM8975972 DOX4X bio rep 3 female
- GSM8975973 DOX4X bio rep 4 female
- GSM8975974 DOX4X bio rep 5 female
- GSM8975975 PBS bio rep 1 female
- GSM8975976 PBS bio rep 2 female
- GSM8975977 PBS bio rep 3 female
- GSM8975978 DOX bio rep 1 female
- GSM8975979 DOX1X bio rep 1 female
- GSM8975980 DOX1X bio rep 2 female
- GSM8975981 DOX1X bio rep 3 female
- GSM8975982 DOX4X bio rep 1 female
- GSM8975983 DOX4X bio rep 2 female
- GSM8975984 DOX4X bio rep 3 female
- GSM8975985 DOX4X bio rep 4 female
- GSM8975986 PBS bio rep 1 female
- GSM8975987 PBS bio rep 2 female
- GSM8975988 PBS bio rep 3 female
- GSM8975989 DOX bio rep 1 female
- GSM8975990 DOX bio rep 2 female
- GSM8975991 DOX bio rep 3 female
- GSM9493304 Patient 4 Diagnosis
- GSM9493305 Patient 4 Relapse
- GSM9493306 Patient 1 Diagnosis
- GSM9493307 Patient 1 Remission
- GSM9493308 Patient 2 Diagnosis
- GSM9493309 Patient 2 Remission
- GSM9493310 Patient 3 Diagnosis
- GSM9493311 Patient 3 Remission
- GSM9493312 Patient 8 Diagnosis
- GSM9493313 Patient 8 Remission
- GSM9493314 Patient 7 Diagnosis
- GSM9493315 Patient 7 No response
- GSM9493316 Patient 5 Diagnosis
+ 3 more — browse all 43 samples with per-sample file links →
- GSE317069 Multiscale analysis and functional validation of the cellular and genetic determinants of skeletal disease 47 samples shares skeletal
- GSE284443 L1CAM generates SOX2+ metastatic progenitors through planar cell polarity signaling in lung adenocarcinoma 6 samples shares progenitors
- GSE226008 Histone Lactylation Antagonizes Senescence and Skeletal Muscle Aging by Modulating Aging-Related Pathways 72 samples shares skeletal
- GSE100041 Reduced representation bisulfite-sequencing of human leukemia cells and mouse hematopoietic progenitors 34 samples shares progenitors
- GSE285990 Chemotherapy triggers immune evasion by fostering LEPR+ Kupffer cell differentiation in liver metastases [RNA-seq] 23 samples shares chemotherapy
- GSE327356 miR-339-5p impairs myogenic proliferation and differentiation by repressing contractile gene programs in skeletal muscle 18 samples shares skeletal
- GSE262910 Optimization of in vitro production of human satellite cells for skeletal muscle cell therapy 5 samples shares skeletal
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.