Predictive prioritization of enhancers associated with pancreatic disease risk
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 66 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
- 66 samples: 60 distinct titles, 6 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
- Predictive Prioritization of Enhancers Associated with Pancreas Disease RiskbioRxiv : the preprint server for biology · 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 GSE245484_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 PRJNA1028575 and SRA study SRP466592. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 66 sample titles: 60 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.
- GSM7843402 R290_duct
- GSM7843403 SAMN10391370_beta
- GSM7843404 SAMN10391370_alpha
- GSM7843405 SAMN10391370_delta
- GSM7843406 SAMN14132340_beta
- GSM7843407 SAMN13898077_duct
- GSM7843408 SAMN13898077_acinar
- GSM7843409 SAMN13283508_duct
- GSM7843410 SAMN13283508_acinar
- GSM7843411 SAMN13086797_acinar
- GSM7843412 SAMN13047843_duct
- GSM7843413 SAMN12736601_duct
- GSM7843414 SAMN12736601_acinar
- GSM7843415 HP19244_duct
- GSM7843416 R362_alpha
- GSM7843417 R362_delta
- GSM7843418 R364_beta
- GSM7843419 R364_delta
- GSM7843420 SAMN14327036_alpha
- GSM7843421 SAMN14327036_delta
- GSM7843422 R299_beta
- GSM7843423 HP20010_duct
- GSM7843424 HP20010_acinar
- GSM7843425 R356_beta
- GSM7843426 R356_alpha
- GSM7843427 R356_delta
- GSM7843428 R357_beta
- GSM7843429 R357_alpha
- GSM7843430 R357_delta
- GSM7843431 R360_alpha
- GSM7843432 R360_beta
- GSM7843433 R360_delta
- GSM7843434 R361_alpha
- GSM7843435 R361_delta
- GSM7843436 SAMN14124567_duct
- GSM7843437 SAMN14124567_acinar
- GSM7843438 SAMN14132340_alpha
- GSM7843613 R290_duct.
- GSM7843614 R290_acinar.
- GSM7843615 SAMN10391370_beta.
+ 26 more — browse all 66 samples with per-sample file links →
- GSE310807 KLF5 controls subtype-independent highly interactive enhancers in pancreatic cancer to regulate cell survival 21 samples shares pancreatic, enhancers
- GSE309861 KLF5 controls subtype-independent highly interactive enhancers in pancreatic cancer to regulate cell survival [HiChIPseq] 10 samples shares pancreatic, enhancers
- GSE328302 Identification of two genes associated with recurrence in Paget’s disease and construction of a predictive model 39 samples shares predictive
- GSE299353 Robust regulatory interplay of enhancers, facilitators, and promoters in a native chromatin context [ChIP-seq; 4C-seq] 18 samples shares enhancers
- GSE280271 Deep sequencing of microRNA and total RNA reveals distinct microRNA-mRNA signatures that differentiate pancreatic neuroendocrine neoplasia from non-diseased pancreas tissue [RNA-seq] 13 samples shares pancreatic
- GSE281129 Ongoing replication stress tolerance and clonal T cell responses distinguish liver and lung recurrence and outcomes in pancreatic cancer 794 samples shares pancreatic
- GSE271689 Enhancing Immunotherapy Outcomes: Spatial Multi-Omics Predictive Models for Non-Small Cell Lung Cancer 586 samples shares predictive
- GSE143584 Gene expression from laser capture microdissected epithelium and stroma during pancreatic carcinogenesis 366 samples shares pancreatic
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.