Endocardial HAND2 orchestrates hypoxic and TGFbeta signaling to modulate coronary artery formation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 19 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
- 19 samples: 7 × HD-ko vs 7 × HD-wt vs 3 × NGGroups 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.
Read the full summary ↓
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 GSE311984_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 PRJNA1372001 and SRA study SRP650277. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 17 samples.
How we read this: 3 replicated groups read from 19 sample titles; they account for 17 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.
- GSM9335661 HD-ko1 HD-ko
- GSM9335662 HD-ko2 HD-ko
- GSM9335663 HD-ko3 HD-ko
- GSM9335664 HD-wt1 HD-wt
- GSM9335665 HD-wt2 HD-wt
- GSM9335666 HD-wt3 HD-wt
- GSM9335667 NG1 NG
- GSM9335668 NG2 NG
- GSM9335669 NG3 NG
- GSM9335670 HD-ko1 HD-ko
- GSM9335671 HD-ko2 HD-ko
- GSM9335672 HD-ko3 HD-ko
- GSM9335673 HD-ko4 HD-ko
- GSM9335674 HD-wt1 HD-wt
- GSM9335675 HD-wt2 HD-wt
- GSM9335676 HD-wt3 HD-wt
- GSM9335677 HD-wt4 HD-wt
- GSM9335678 hand2_ko
- GSM9335679 hand2_wt
- GSE299579 Hand1 gene replacement with Hand2 reveals overlap in function with unique occurrence of omphalocele and heart defects 24 samples shares hand2
- GSE261250 Gfi1 controls the formation of effector CD8+ T cells during chronic infection and cancer 47 samples shares formation
- GSE332710 Splice isoforms of the histone variants macroH2A1 differentially regulate hippocampal gene expression and memory formation 33 samples shares formation
- GSE276300 EGR2 O-GlcNAcylation Orchestrates the Development of Protumoral Macrophages to Limit CD8+ T Cell Antitumor Responses. 27 samples shares orchestrates
- GSE247946 Regulation of transcriptional signal integration and memory by inflammation-induced chromosome conformation 132 samples shares formation
- GSE272603 DNA glycosylases Ogg1 and Mutyh mediate gene expression of PRC2 targets important for memory formation 128 samples shares formation
- GSE333480 METTL3-mediated m6A modification controls Tcra recombination center formation and thymic T cell development 98 samples shares formation
- GSE185862 A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation 95 samples shares formation
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.