Alveolar Soft Part Sarcoma is driven by ASPSCR1::TFE3-dependent and therapeutically targetable transcriptional programs [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 17 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
- Homo sapiens (human)
- Samples
- 17 samples: 17 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
- ASPSCR1::TFE3 Drives Alveolar Soft Part Sarcoma by Inducing Targetable Transcriptional ProgramsCancer research · 2024
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 GSE235737_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 PRJNA987535 and SRA study SRP445807. 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 17 sample titles: 17 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.
- GSM7508707 ASPS_Tumor-1_H3K27ac
- GSM7508708 ASPS_Tumor-1_input
- GSM7508709 ASPS_Tumor-2_H3K27ac
- GSM7508710 ASPS_Tumor-2_input
- GSM7508711 ASPS_Tumor-3_H3K27ac
- GSM7508712 ASPS_Tumor-3_input
- GSM7508713 ASPS_Tumor-4_H3K27ac
- GSM7508714 ASPS_Tumor-4_input
- GSM7508715 ASPS_PDX_H3K27ac
- GSM7508716 ASPS_PDX_input
- GSM7508717 ASPS-1_H3K27ac
- GSM7508718 ASPS-1_input
- GSM7508719 ASPS-KY_H3K27ac
- GSM7508720 ASPS-KY_input
- GSM7508721 ASPS-KY_HA
- GSM7508722 FUUR1_H3K27ac
- GSM7508723 FUUR1_input
- GSE255962 Alveolar Soft Part Sarcoma is driven by ASPSCR1::TFE3-dependent and therapeutically targetable transcriptional programs [ATAC-Seq] 10 samples shares aspscr1, therapeutically, tfe3-dependent, targetable, alveolar, programs, sarcoma
- GSE235738 Alveolar Soft Part Sarcoma is driven by ASPSCR1::TFE3-dependent and therapeutically targetable transcriptional programs [RNA-Seq] 35 samples shares aspscr1, therapeutically, tfe3-dependent, targetable, alveolar, programs, sarcoma
- GSE235739 ASPSCR1::TFE3 Drives Alveolar Soft Part Sarcoma by Inducing Targetable Transcriptional Programs 62 samples shares aspscr1, targetable, alveolar, programs, sarcoma
- GSE281436 Loss of SMARCB1 evokes targetable epigenetic vulnerabilities in Epithelioid Sarcoma [ChIP-Seq] 24 samples shares targetable, chip-seq, sarcoma
- GSE279336 Dependence of PAX3-FOXO1 chromatin occupancy on ETS1 at important disease-promoting genes exposes new targetable vulnerability in Fusion-Positive Rhabdomyosarcoma [CUT&Run] 34 samples shares targetable, sarcoma
- GSE337829 Integrated single-cell profiling of RNA and DNA interactomes reveals targetable chromatin architectures in cancer [ChIP-Seq] 32 samples shares targetable, chip-seq
- GSE225995 Disruption of RNAPII transcription elongation links Oncogenic splicing factor mutations to replciation stress and targetable alterations in chromatin landscape [Ser2PRNAPII ChIP-seq] 29 samples shares targetable, chip-seq
- GSE281434 Loss of SMARCB1 evokes targetable epigenetic vulnerabilities in Epithelioid Sarcoma [ATAC-Seq] 24 samples shares targetable, sarcoma
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.