MYC drives progression of small cell lung cancer to a variant neuroendocrine subtype with vulnerability to Aurora kinase inhibition
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 20 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
- 20 samples: 17 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.
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 GSE89664_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 PRJNA352858 and SRA study SRP090029. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 20 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.
- GSM2319228 PB115_Myc_ChIP-seq
- GSM2319229 PB119_Myc_ChIP-seq
- GSM2319230 PB120_Myc_ChIP-seq
- GSM2319231 PB115_input
- GSM2319232 PB119_input
- GSM2319233 PB120_input
- GSM2386311 PB115
- GSM2386312 PB119
- GSM2386313 PB120
- GSM2386314 PB124
- GSM2386315 PB189B
- GSM2386316 PB190A
- GSM2386317 PB190C
- GSM2386318 PB191A
- GSM2386319 PB280H
- GSM2386320 PB281E
- GSM2386321 PB281F
- GSM2386322 S90-71
- GSM2386323 S100-12
- GSM2386324 S105-5
- GSE297143 EZH2 alters aggressive variant prostate cancer subtype evolution, but is not required for neuroendocrine prostate cancer [RNAseq] 54 samples shares neuroendocrine, variant, subtype
- GSE297048 EZH2 alters aggressive variant prostate cancer subtype evolution, but is not required for neuroendocrine prostate cancer [ChIP-seq] 40 samples shares neuroendocrine, variant, subtype
- GSE293599 The Polycomb Protein EED Constrains the SCLC Neuroendocrine Phenotype and Drives Lung Cancer Histological Transformation [Bulk RNA-seq] 50 samples shares neuroendocrine, drives
- GSE231802 IL-1R signaling drives enteric glia-macrophage interaction in colorectal cancer progression [bulkRNA-Seq] 36 samples shares progression, drives
- GSE293598 The Polycomb Protein EED Constrains the SCLC Neuroendocrine Phenotype and Drives Lung Cancer Histological Transformation [ChIP-seq] 27 samples shares neuroendocrine, drives
- GSE245607 WWOX promotes osteosarcoma development via upregulation of Myc 39 samples shares myc
- GSE288156 Progressive intestinal tumor cell plasticity, Myc activation and loss of Lgr5+ tumor stem cell lineage commitment upon Wnt depletion 14 samples shares myc
- GSE313654 Activated Interferon Signaling Suppresses Age-Dependent Liver Cancer [RNAseq_MycRux] 58 samples shares myc
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.