SWI/SNF Chromatin Remodeling Complex Orchestrates Sequential Binding of Key Transcription Factors in B Cells and Restricts Aggressive Lymphoma [human ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- 14 samples: 12 distinct titles, 2 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.
- Paper
- ARID1A orchestrates SWI/SNF-mediated sequential binding of transcription factors with ARID1A loss driving pre-memory B cell fate and lymphomagenesisCancer cell · 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 GSE262093_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 PRJNA1090224 and SRA study SRP496783. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 14 sample titles: 12 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.
- GSM8157383 H3K27ac_Arid1aHet_R1.ChIP
- GSM8157384 H3K27ac_Arid1aWt_R1.ChIP
- GSM8157385 Pbrm1_Arid1aHet_R1.ChIP
- GSM8157386 Pbrm1_Arid1aWt_R1.ChIP
- GSM8157387 Smarca4_Arid1aHet_R1.ChIP
- GSM8157388 Smarca4_Arid1aWt_R1.ChIP
- GSM8157389 Pu1_Arid1aHet_R1.ChIP
- GSM8157390 Pu1_Arid1aHet_R2.ChIP
- GSM8157391 Pu1_Arid1aWt_R1.ChIP
- GSM8157392 Pu1_Arid1aWt_R2.ChIP
- GSM8157393 Input_Arid1aHet_R1
- GSM8157394 Input_Arid1aHet_R2
- GSM8157395 Input_Arid1aWt_R1
- GSM8157396 Input_Arid1aWt_R2
- GSE301505 Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation 210 samples shares swi, snf, chromatin
- GSE328578 CBFA2T3-GLIS2 fusion-mediated mSWI/SNF chromatin remodeler disruption generates cancer-specific dependencies in AMKL 156 samples shares swi, snf, chromatin
- GSE270787 ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotency 205 samples shares swi, snf
- GSE296190 Hypoxic regulation of chromatin and gene transcription [ChIP-seq] 84 samples shares transcription, chromatin
- GSE196619 Synthetic transcription factor overrides persistent repressive chromatin marks 120 samples shares transcription, chromatin
- GSE296192 Hypoxic regulation of chromatin and gene transcription 98 samples shares transcription, chromatin
- GSE171817 SUMOylation Regulates Super-Enhancers Through Transcription Factor TFAP2C Binding on Chromatin 30 samples shares transcription, chromatin
- GSE324427 Myasthenia thymus reprograms class switched B cells into BAFF dependent survivors 73 samples shares swi
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.