Interplay between Two Paralogous Human Silencing Hub (HuSH) Complexes in Regulating LINE-1 Element Silencing
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 23 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
- 23 samples: 21 distinct titles, 2 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
- Interplay between Two Paralogous Human Silencing Hub (HuSH) Complexes in Regulating LINE-1 Element SilencingNature communications · 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 GSE234281_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 PRJNA980677 and SRA study SRP441353. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 23 sample titles: 21 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.
- GSM7461492 K-562, ChIP input
- GSM7461493 K-562, MPP8, ChIP
- GSM7461494 K-562 MPP8 KO, MPP8, ChIP
- GSM7461495 K-562 PPHLN1 KO, MPP8, ChIP
- GSM7461496 K-562 TASOR KO, MPP8, ChIP
- GSM7461497 K-562 TASOR2 KO, MPP8, ChIP
- GSM7461498 K-562 TASORs dKO, MPP8, ChIP
- GSM7461499 K-562 +FLAG-TASOR, MPP8, ChIP
- GSM7461500 K-562 +FLAG-TASOR2, MPP8, ChIP
- GSM7461501 K-562 TASOR KO, TASOR, ChIP
- GSM7461502 K-562 TASOR KO + FLAG-TASOR, TASOR, ChIP
- GSM7461503 K-562 TASOR KO + FLAG-TASOR(-PARP), TASOR, ChIP
- GSM7461504 K-562 TASOR KO + FLAG-TASOR (-PIN), TASOR, ChIP
- GSM7461505 K-562 parental wildtype, negative sgRNA replicate 1
- GSM7461506 K-562 parental wildtype, negative sgRNA replicate 2
- GSM7461507 K-562 TASOR KO, replicate 1
- GSM7461508 K-562 TASOR KO, replicate 2
- GSM7461511 K-562 TASOR KO, replicate 1, expressing FLAG-TASOR transgene
- GSM7461512 K-562 TASOR KO, replicate 2, expressing FLAG-TASOR transgene
- GSM7461515 K-562 parental wildtype, replicate 1, expressing FLAG-TASOR2 transgene
- GSM7461516 K-562 parental wildtype, replicate 2, expressing FLAG-TASOR2 transgene
- GSM8437190 K562, TASOR2, ChIP
- GSM8437191 K562 TASOR2 KO, TASOR2, ChIP
- GSE234279 Interplay between Two Paralogous Human Silencing Hub (HuSH) Complexes in Regulating LINE-1 Element Silencing [ChIP-seq] 15 samples shares line-1, paralogous, regulating, interplay, silencing, complexes, element, hush
- GSE283600 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development 83 samples shares line-1, element
- GSE283597 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development [bulkRNA-seq] 45 samples shares line-1, element
- GSE284086 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development [snRNA-seq] 19 samples shares line-1, element
- GSE243767 Molecular mechanisms of NEXT complexes regulating H3K27me3 levels and affecting tumor progression 10 samples shares regulating, complexes
- GSE296212 LINE-1 locus transcription nucleates oncogenic chromatin architecture [RNA-Seq] 80 samples shares line-1
- GSE302851 Methylation variability and LINE-1 activation in multiple myeloma 23 samples shares line-1
- GSE201774 LINE-1 retrotransposons are reduced in bone of osteoporotic patients, correlate positively to BMD, and stimulate bone anabolism in transfected mesenchymal stem cells 16 samples shares line-1
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.