ROR2 regulates cellular plasticity in pancreatic neoplasia and adenocarcinoma
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 48 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
- 48 samples: 18 conditions, mostly in triplicateGroups 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
- ROR2 Regulates Cellular Plasticity in Pancreatic Neoplasia and AdenocarcinomaCancer discovery · 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 GSE253600_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 PRJNA1066335 and SRA study SRP484530. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 48 samples.
How we read this: 18 replicated groups read from 48 sample titles; they account for 48 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.
- GSM8023957 Ptf1aERT, 2 weeks, replicate 1 Ptf1aERT, 2 weeks,
- GSM8023958 Ptf1aERT, 2 weeks, replicate 2 Ptf1aERT, 2 weeks,
- GSM8023959 Ptf1aERT;K*, 2 weeks, replicate 1 Ptf1aERT;K*, 2 weeks,
- GSM8023960 Ptf1aERT;K*, 2 weeks, replicate 2 Ptf1aERT;K*, 2 weeks,
- GSM8023961 Ptf1aERT;Pdx1f/f, 2 weeks, replicate 1 Ptf1aERT;Pdx1f/f, 2 wee…
- GSM8023962 Ptf1aERT;Pdx1f/f, 2 weeks, replicate 2 Ptf1aERT;Pdx1f/f, 2 wee…
- GSM8023963 Ptf1aERT;K*;Pdx1f/f, 2 weeks, replicate 1 Ptf1aERT;K*;Pdx1f/f, 2 …
- GSM8023964 Ptf1aERT;K*;Pdx1f/f, 2 weeks, replicate 2 Ptf1aERT;K*;Pdx1f/f, 2 …
- GSM8023965 Ptf1aERT;K*, 10 weeks, replicate 1 Ptf1aERT;K*, 10 weeks,
- GSM8023966 Ptf1aERT;K*, 10 weeks, replicate 2 Ptf1aERT;K*, 10 weeks,
- GSM8023967 Ptf1aERT;K*;Pdx1f/f, 10 weeks, replicate 1 Ptf1aERT;K*;Pdx1f/f, 10…
- GSM8023968 Ptf1aERT;K*;Pdx1f/f, 10 weeks, replicate 2 Ptf1aERT;K*;Pdx1f/f, 10…
- GSM8023971 HPAF-II, vector control, replicate 1 HPAF-II, vector control,
- GSM8023972 HPAF-II, vector control, replicate 2 HPAF-II, vector control,
- GSM8023973 HPAF-II, vector control, replicate 3 HPAF-II, vector control,
- GSM8023974 HPAF-II, ROR2, replicate 1 HPAF-II, ROR2,
- GSM8023975 HPAF-II, ROR2, replicate 2 HPAF-II, ROR2,
- GSM8023976 HPAF-II, ROR2, replicate 3 HPAF-II, ROR2,
- GSM8023977 UM32, vector control, replicate 1 UM32, vector control,
- GSM8023978 UM32, vector control, replicate 2 UM32, vector control,
- GSM8023979 UM32, vector control, replicate 3 UM32, vector control,
- GSM8023980 UM32, ROR2, replicate 1 UM32, ROR2,
- GSM8023981 UM32, ROR2, replicate 2 UM32, ROR2,
- GSM8023982 UM32, ROR2, replicate 3 UM32, ROR2,
- GSM8030533 Ptf1aERT, replicate 1 Ptf1aERT,
- GSM8030534 Ptf1aERT, replicate 2 Ptf1aERT,
- GSM8030535 Ptf1aERT, replicate 3 Ptf1aERT,
- GSM8030536 Ptf1aERT;K*, replicate 1 Ptf1aERT;K*,
- GSM8030537 Ptf1aERT;K*, replicate 2 Ptf1aERT;K*,
- GSM8030538 Ptf1aERT;K*, replicate 3 Ptf1aERT;K*,
- GSM8030539 Ptf1aERT;Pdx1f/f, replicate 1 Ptf1aERT;Pdx1f/f,
- GSM8030540 Ptf1aERT;Pdx1f/f, replicate 2 Ptf1aERT;Pdx1f/f,
- GSM8030541 Ptf1aERT;Pdx1f/f, replicate 3 Ptf1aERT;Pdx1f/f,
- GSM8030542 Ptf1aERT;K*;Pdx1f/f, replicate 1 Ptf1aERT;K*;Pdx1f/f,
- GSM8030543 Ptf1aERT;K*;Pdx1f/f, replicate 2 Ptf1aERT;K*;Pdx1f/f,
- GSM8030544 Ptf1aERT;K*;Pdx1f/f, replicate 3 Ptf1aERT;K*;Pdx1f/f,
- GSM8030553 PANC1, sicontrol, replicate 1 PANC1, sicontrol,
- GSM8030554 PANC1, sicontrol, replicate 2 PANC1, sicontrol,
- GSM8030555 PANC1, sicontrol, replicate 3 PANC1, sicontrol,
- GSM8030556 PANC1, siROR2, replicate 1 PANC1, siROR2,
+ 8 more — browse all 48 samples with per-sample file links →
- GSE17891 Pervasive subtypes of pancreatic ductal adenocarcinoma (PDA) and their differing response to therapy. 62 samples shares adenocarcinoma, pancreatic
- GSE285193 Effect of pancreatic cancer derived extracellular vesicles on bone marrow drived macrophages 18 samples shares pancreatic, cellular
- GSE248948 Spatiotemporal control of SMARCA5 by a MAPK-RUNX1 axis distinguishes mutant KRAS-driven pancreatic malignancy from tissue regeneration 170 samples shares pancreatic
- GSE99311 Enhancer reprogramming promotes pancreatic cancer progression and metastasis 136 samples shares pancreatic
- GSE63782 Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition 103 samples shares plasticity
- GSE284443 L1CAM generates SOX2+ metastatic progenitors through planar cell polarity signaling in lung adenocarcinoma 6 samples shares adenocarcinoma
- GSE7828 MicroRNA profiles of 84 colon adenocarcinomas and paired nontumorous 170 samples shares adenocarcinoma
- GSE224832 Active repression of cell fate plasticity by PROX1 safeguards hepatocyte identity and prevents liver tumorigenesis. 104 samples shares plasticity
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.