Distinct Function for ASCL1 and NEUROD1 in Pulmonary Neuroendocrine Tumors
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 15 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
- 15 samples: 11 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.
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 GSE69398_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 PRJNA285363 and SRA study SRP058872. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 4 samples read as cases, 2 as controls.
How we read this: Read from 15 sample titles: 11 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.
- GSM1700631 Human SCLC H2107
- GSM1700632 Human SCLC H889
- GSM1700633 Human SCLC H82
- GSM1700634 Human SCLC H524
- GSM1700635 Mouse neuroendocrine lung tumor sample1
- GSM1700636 Mouse neuroendocrine lung tumor sample2
- GSM1700637 Human SCLC H128 ASCL1 ChIP
- GSM1700638 Human SCLC H2107 ASCL1 ChIP
- GSM1700639 Human SCLC H889 ASCL1 ChIP
- GSM1700640 Human SCLC H524 ASCL1 Ctrl Input
- GSM1700641 Human SCLC H82 NEUROD1 ChIP
- GSM1700642 Human SCLC H524 NEUROD1 ChIP
- GSM1700643 Human SCLC H889 NEUROD1 Ctrl Input
- GSM1700644 Mouse Neuroendocrine lung tumor ASCL1 ChIP
- GSM1700645 Mouse Neuroendocrine lung tumor Input
- GSE309745 Single-cell and single-nucleus transcriptomic profiling of mouse models and human lung tissues to study pulmonary fibrosis 54 samples shares pulmonary
- GSE242464 Epigenetic regulation of p63 blocks squamous-to-neuroendocrine transdifferentiation in esophageal development and malignancy 53 samples shares neuroendocrine
- GSE296513 Impaired AMPK Control of Alveolar Epithelial Cell Metabolism Promotes Pulmonary Fibrosis 45 samples shares pulmonary
- GSE249890 Antiandrogen treatment endows ZMYDN8 dependent epigenetic reprogramming to orchestrate neuroendocrine tumor transdifferentiation 40 samples shares neuroendocrine
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.