Genome wide map of long noncoding RNA Tug1 binding sites in cultured mouse podocytes
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 6 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
- 6 samples
- 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 GSE77493_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 PRJNA310632 and SRA study SRP069202. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 6 more — browse all 6 samples with per-sample file links →
- GSE77506 Gene expression analysis in mouse podocytes expressing shRNA directed against the long noncoding RNA Tug1 6 samples shares tug1, noncoding, podocytes, long
- GSE230527 Genome-wide profiling of Kdm2a binding and H3K36me2 of hypoxia-cultured B cells derived from miR-155-sufficient and -deficient mice [ChIP-seq] 18 samples shares cultured, binding, wide
- GSE215057 MYCL-GFP and HEY1-GFP binding sites in primary airway mouse epithelial cells (mTECs) cultured at air-liquid interface for one day. 8 samples shares cultured, binding, sites
- GSE55914 RNA-RNA interactions enable specific targeting of noncoding RNAs to nascent pre-mRNAs and chromatin sites 46 samples shares noncoding, sites
- GSE298129 The long noncoding RNA lnc13 restrains inflammatory responses to maintain oral tolerance to gluten 36 samples shares noncoding, long
- GSE310182 The long noncoding RNA Peanut promotes neurogenesis and rod photoreceptor differentiation during postnatal retinal development. 14 samples shares noncoding, long
- GSE310313 The long noncoding RNA Malat1 contains an internal ribosome entry site mediating micropeptide translation 12 samples shares noncoding, long
- GSE78873 A long noncoding RNA lincRNA-EPS acts as a transcriptional brake to restrain inflammation 12 samples shares noncoding, long
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.