Targeted citrullination enables p53 binding to non-canonical sites
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 258 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
- 258 samples: 258 samples, each with a distinct title — no replicated groupsGroups 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 GSE288344_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 PRJNA1216978 and SRA study SRP559480. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 258 sample titles: 258 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.
- GSM8752974 1_HCT116_PADI4tet_untreated_ChIP_citH3
- GSM8752975 2_HCT116_PADI4tet_Nutlin_ChIP_H3K27ac
- GSM8752976 3_HCT116_PADI4tet_Doxy_ChIP_H3K27ac
- GSM8752977 4_HCT116_PADI4tet_NutlinandDoxy_ChIP_H3K27ac
- GSM8752978 5_HCT116_PADI4tet_untreated_ChIP_H3K27ac
- GSM8752979 6_HCT116_PADI4tet_Nutlin_ChIP_citH3
- GSM8752980 7_HCT116_PADI4tet_Doxy_ChIP_citH3
- GSM8752981 8_HCT116_PADI4tet_NutlinandDoxy_ChIP_citH3
- GSM8752982 9_HCT116_PADI4tet_untreated_ChIP_PADI4pt
- GSM8752983 10_HCT116_PADI4tet_Nutlin_ChIP_p53
- GSM8752984 11_HCT116_PADI4tet_Doxy_ChIP_p53
- GSM8752985 12_HCT116_PADI4tet_NutlinandDoxy_ChIP_p53
- GSM8752986 13_HCT116_PADI4tet_untreated_ChIP_p53
- GSM8752987 14_HCT116_PADI4tet_Nutlin_ChIP_PADI4pt
- GSM8752988 15_HCT116_PADI4tet_Doxy_ChIP_PADI4pt
- GSM8752989 16_HCT116_PADI4tet_NutlinandDoxy_ChIP_PADI4pt
- GSM8752990 17_HCT116_PADI4tet_untreated_ChIP_PADI4abonline
- GSM8752991 18_HCT116_PADI4tet_Nutlin_ChIP_PADI4abonline
- GSM8752992 19_HCT116_PADI4tet_Doxy_ChIP_PADI4abonline
- GSM8752993 20_HCT116_PADI4tet_NutlinandDoxy_ChIP_PADI4abonline
- GSM8752994 21_HCT116_PADI4tet_untreated_input
- GSM8752995 22_HCT116_PADI4tet_Nutlin_input
- GSM8752996 23_HCT116_PADI4tet_Doxy_input
- GSM8752997 24_HCT116_PADI4tet_NutlinandDoxy_input
- GSM8752998 1_1-HCT116-tet-EV-untreated-replicate-1
- GSM8752999 2_2-HCT116-tet-EV-untreated-replicate-2
- GSM8753000 3_3-HCT116-tet-EV-untreated-replicate-3
- GSM8753001 4_4-HCT116-tet-EV-Nutlin-replicate-1
- GSM8753002 5_5-HCT116-tet-EV-Nutlin-replicate-2
- GSM8753003 6_6-HCT116-tet-EV-Nutlin-replicate-3
- GSM8753004 7_7-HCT116-tet-EV-Doxycyline-replicate-1
- GSM8753005 8_8-HCT116-tet-EV-Doxycyline-replicate-2
- GSM8753006 9_9-HCT116-tet-EV-Doxycyline-replicate-3
- GSM8753007 10_10-HCT116-tet-EV-Nutlin-and-Doxycycline-replicate-1
- GSM8753008 11_11-HCT116-tet-EV-Nutlin-and-Doxycycline-replicate-2
- GSM8753009 12_12-HCT116-tet-EV-Nutlin-and-Doxycycline-replicate-3
- GSM8753010 13_13-HCT116-tet-PADI4-untreated-replicate-1
- GSM8753011 14_14-HCT116-tet-PADI4-untreated-replicate-2
- GSM8753012 15_15-HCT116-tet-PADI4-untreated-replicate-3
- GSM8753013 16_16-HCT116-tet-PADI4-Nutlin-replicate-1
+ 218 more — browse all 258 samples with per-sample file links →
- GSE303870 A tumor-associated macrophage-targeted immunocytokine leveraging T and NK cell synergy for potent cancer immunotherapy 223 samples shares targeted
- GSE249981 Non-canonical PRC1.1 licenses transcriptional response to enable Treg plasticity in immune adaptation. 70 samples shares non-canonical
- GSE201710 Targeted partial reprogramming of age-associated cell states improves markers of health in mouse models of aging 49 samples shares targeted
- GSE266956 Increased translation driven by a non-canonical EZH2 cistrome creates a synthetic vulnerability in enzalutamide-resistant prostate cancer 42 samples shares non-canonical
- GSE63281 Targeted disruption of DNMT1, 3A and 3B in human embryonic stem cells 34 samples shares targeted
- GSE269664 Heterobifunctional proteomimetic polymers for targeted degradation of MYC and KRAS 33 samples shares targeted
- GSE51741 Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for amyotrophic lateral sclerosis and frontotemporal dementia 33 samples shares targeted
- GSE219284 Alzheimer’s disease neuroinflammatory risk genes can be targeted with RNase-H active antisense oligonucleotides in human microglia 24 samples shares targeted
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.