Alternative isoform expression of key thermogenic genes in human beige adipocytes
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 46 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
- 46 samples: 12 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
- Alternative isoform expression of key thermogenic genes in human beige adipocytesFrontiers in endocrinology · 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 GSE256262_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 PRJNA1078799 and SRA study SRP490788. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 36 samples.
How we read this: 12 replicated groups read from 46 sample titles; they account for 36 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.
- GSM8092098 subject3_white_rep1 subject3_white
- GSM8092099 subject3_beige_rep1 subject3_beige
- GSM8092100 subject4_beige_rep1 subject4_beige
- GSM8092101 subject2_white_rep1 subject2_white
- GSM8092102 subject2_beige_rep1 subject2_beige
- GSM8092103 subject1_white_rep1 subject1_white
- GSM8092104 subject1_beige_rep1 subject1_beige
- GSM8092105 subject6_beige_rep1 subject6_beige
- GSM8092106 subject5_white_rep1 subject5_white
- GSM8092107 subject5_beige_rep1 subject5_beige
- GSM8092108 subject3_white_rep2 subject3_white
- GSM8092109 subject3_beige_rep2 subject3_beige
- GSM8092110 subject4_beige_rep2 subject4_beige
- GSM8092111 subject2_white_rep2 subject2_white
- GSM8092112 subject2_beige_rep2 subject2_beige
- GSM8092113 subject1_white_rep2 subject1_white
- GSM8092114 subject1_beige_rep2 subject1_beige
- GSM8092115 subject6_beige_rep2 subject6_beige
- GSM8092116 subject5_white_rep2 subject5_white
- GSM8092117 subject5_beige_rep2 subject5_beige
- GSM8092118 subject3_white_rep3 subject3_white
- GSM8092119 subject3_beige_rep3 subject3_beige
- GSM8092120 subject4_beige_rep3 subject4_beige
- GSM8092121 subject2_white_rep3 subject2_white
- GSM8092122 subject2_beige_rep3 subject2_beige
- GSM8092123 subject1_white_rep3 subject1_white
- GSM8092124 subject1_beige_rep3 subject1_beige
- GSM8092125 subject6_beige_rep3 subject6_beige
- GSM8092126 subject5_white_rep3 subject5_white
- GSM8092127 subject5_beige_rep3 subject5_beige
- GSM8092128 subject4_white_rep1 subject4_white
- GSM8092129 subject4_white_rep2 subject4_white
- GSM8092130 subject4_white_rep3 subject4_white
- GSM8092131 subject6_white_rep1 subject6_white
- GSM8092132 subject6_white_rep2 subject6_white
- GSM8092133 subject6_white_rep3 subject6_white
- GSM8092134 white_H3K4me3_ChIP
- GSM8092135 beige_H3K4me3_ChIP
- GSM8092136 white_H3K27me3_ChIP
- GSM8092137 beige_H3K27me3_ChIP
+ 6 more — browse all 46 samples with per-sample file links →
- GSE297994 Native long-read RNA sequencing of human monocytes reveals activation-induced alternative splicing toward functional isoforms 22 samples shares alternative, isoform
- GSE293136 Multimodal remodeling of epigenetic and enhancer networks shapes the transcriptional landscape of beige adipocytes 66 samples shares adipocytes, beige
- GSE250435 High-density resolution of the Kaposi’s Sarcoma associated Herpesvirus transcriptome identifies novel transcript isoforms generated by long-range transcription and alternative splicing 23 samples shares alternative, isoform
- GSE315136 Comprehensive long-read transcriptome analysis uncovers alternative RNA processing feature and isoform diversity in ovarian cancer progression 18 samples shares alternative, isoform
- GSE250431 High-density resolution of the Kaposi’s Sarcoma associated Herpesvirus transcriptome identifies novel transcript isoforms generated by long-range transcription and alternative splicing [KSHV_TRIMD_Ritu_Illumina] 4 samples shares alternative, isoform
- GSE285352 Alternate isoforms of IRF7 Differentially Regulate Interferon Expression 74 samples shares isoform
- GSE287072 Alternative splicing and differential gene expression during changes in endometrial receptivity in patients with recurrent implantation failure 73 samples shares alternative
- GSE270408 OBSCN undergoes extensive alternative splicing throughout human cardiac and skeletal muscle development 71 samples shares alternative
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.