The nucleoskeleton protein NuMA maintains local chromatin architecture partially through promoting linker histone H1’ binding to chromatin and nucleosome stacking
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 21 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
- 21 samples: 8 conditions, mostly in duplicateGroups 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 GSE227941_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 PRJNA947538 and SRA study SRP428213. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 8 replicated groups read from 21 sample titles; they account for 18 of them. 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.
- GSM7105845 histoneH1_AID_1 histoneH1_AID
- GSM7105846 histoneH1_AID_2 histoneH1_AID
- GSM7105847 histoneH1_NC_1 histoneH1_NC
- GSM7105848 histoneH1_NC_2 histoneH1_NC
- GSM7105849 NuMA-IgG
- GSM7105850 NuMA-C_terminal
- GSM7105851 NuMA-N_terminal
- GSM7105852 HiC_AID_rep1 HiC_AID
- GSM7105853 HiC_AID_rep2 HiC_AID
- GSM7105854 HiC_NC_rep1 HiC_NC
- GSM7105855 HiC_NC_rep2 HiC_NC
- GSM7105864 NuMA_depleted_rep1 NuMA_depleted
- GSM7105865 NuMA_depleted_rep2 NuMA_depleted
- GSM7105866 NuMA_control_rep1 NuMA_control
- GSM7105867 NuMA_control_rep2 NuMA_control
- GSM7111204 ATAC_AID_1 ATAC_AID
- GSM7111205 ATAC_AID_2 ATAC_AID
- GSM7111206 ATAC_AID_3 ATAC_AID
- GSM7111207 ATAC_NC_1 ATAC_NC
- GSM7111208 ATAC_NC_2 ATAC_NC
- GSM7111209 ATAC_NC_3 ATAC_NC
- GSE268035 STAG2 Mutations Reshape the Cohesin-Structured Spatial Chromatin Architecture to Drive Gene Regulation in Acute myeloid Leukemia 541 samples shares architecture, chromatin
- GSE195611 3D chromatin architecture of drug-tolerant cancer cells at single-cell resolution 410 samples shares architecture, chromatin
- GSE268031 STAG2 Mutations Reshape the Cohesin-Structured Spatial Chromatin Architecture to Drive Gene Regulation in Acute myeloid Leukemia [ChIP-Seq] 299 samples shares architecture, chromatin
- GSE215328 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [hESC_H9_d049_ChIP_Seq] 135 samples shares architecture, chromatin
- GSE256316 SWI/SNF complex-mediated ZNF410 cooperative binding maintains chromatin accessibility and enhancer activity [ChIP-Seq] 121 samples shares maintains, chromatin
- GSE296212 LINE-1 locus transcription nucleates oncogenic chromatin architecture [RNA-Seq] 80 samples shares architecture, chromatin
- GSE276491 EBNA Leader Protein is required to reshape chromatin architecture during B cell transformation by Epstein-Barr Virus 62 samples shares architecture, chromatin
- GSE215323 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [HEK293T_BPK25_ChIP_Seq] 53 samples shares architecture, chromatin
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.