Enhancer engagement sustains oncogenic transformation and progression of B-cell precursor acute lymphoblastic leukemia
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 57 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)
- Topic
- Acute lymphoblastic leukemiaThis series is part of our curated briefing on it.
- Samples
- 57 samples: 55 distinct titles, 1 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
- Enhancer engagement sustains oncogenic transformation and progression of B-cell precursor acute lymphoblastic leukemiaJournal of experimental & clinical cancer research : CR · 2024
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 GSE214916_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 PRJNA887733 and SRA study SRP401308. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 31 samples read as cases, 4 as controls.
How we read this: Read from 57 sample titles: 55 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.
- GSM6617857 patient_7_Healthy_ATACseq
- GSM6617858 patient_8_Healthy_ATACseq
- GSM6617859 patient_9_Healthy_ATACseq
- GSM6617860 patient_6_Healthy_ATACseq
- GSM6617861 patient_4_Healthy_ATACseq
- GSM6617862 patient_5_Healthy_ATACseq
- GSM6617863 patient_7_Primary_ATACseq
- GSM6617864 patient_10_Primary_ATACseq
- GSM6617865 patient_11_Primary_ATACseq
- GSM6617866 patient_12_Primary_ATACseq
- GSM6617867 patient_13_Primary_ATACseq
- GSM6617868 patient_14_Primary_ATACseq
- GSM6617869 patient_16_Primary_ATACseq
- GSM6617870 patient_17_Primary_ATACseq
- GSM6617871 patient_19_Primary_ATACseq
- GSM6617872 patient_26_Primary_ATACseq
- GSM6617873 patient_27_Primary_ATACseq
- GSM6617874 patient_14_Relapse_ATACseq
- GSM6617875 patient_27_Relapse_ATACseq
- GSM6617876 patient_28_Relapse_ATACseq
- GSM6617877 patient_29_Relapse_ATACseq
- GSM6617878 patient_30_Relapse_ATACseq
- GSM6617879 patient_31_Relapse_ATACseq
- GSM6617880 patient_32_Relapse_ATACseq
- GSM6617881 patient_33_Relapse_ATACseq
- GSM6617882 patient_18_Remission_ATACseq
- GSM6617883 patient_20_Remission_ATACseq
- GSM6617884 patient_21_Remission_ATACseq
- GSM6617885 patient_22_Remission_ATACseq
- GSM6617886 patient_23_Remission_ATACseq
- GSM6617887 patient_24_Remission_ATACseq
- GSM6617888 patient_25_Remission_ATACseq
- GSM6617889 patient_26_Remission_ATACseq
- GSM6617890 LAL-B_Rep1_ATACseq
- GSM6617891 LAL-B_Rep2_ATACseq
- GSM6617892 LAL-B_Rep3_ATACseq
- GSM6617893 Healthy_12_RNAseq
- GSM6617894 Healthy_1_RNAseq
- GSM6617895 Healthy_2_RNAseq
- GSM6617896 Healthy_3_RNAseq
+ 17 more — browse all 57 samples with per-sample file links →
- GSE12995 Expression data for diagnosis acute lymphoblastic leukemia samples 175 samples same disease briefing · shares lymphoblastic
- GSE160298 The chromatin accessibility landscape of T-Cell Acute Lymphoblastic Leukemia 80 samples same disease briefing · shares lymphoblastic
- GSE115656 Alternative splicing analysis of pediatric B-cell acute lymphoblastic leukemia compared to normal bone marrow derived pro-B cells 38 samples same disease briefing · shares lymphoblastic
- GSE13425 Expression data from ALL patients included in the set used to construct a classification signature (COALL cohort) 190 samples same disease briefing
- GSE154675 PHF6 Interacts with LMO2 During Normal Haematopoiesis and in Leukaemia and Regulates the Level of Gene Expression and Genome Integrity 41 samples same disease briefing
- GSE193713 Genome-wide maps of chromatin state for histone modifications and chromatin remodeling factors in WT and PHF6-KO conditions in Jurkat T-ALL cells. 20 samples same disease briefing
- GSE18198 Expression profile of human T-ALL cell lines treated with DMSO or SAHM1 12 samples same disease briefing
- GSE239270 Investigate FOXA2, NKX2-1, CTCF and P300 cistrome and enhancer (H3K27ac and H3k4me1) reprogramming during NEPC transformation by ChIP-seq. 104 samples shares transformation, enhancer
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.