AKAP95 condensates regulate transcription and can be targeted in MLL-fusion driven oncogenesis (RNA-Seq)
RNA-seq (gene expression) · mouse · 18 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 18 samples: 7 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.
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 GSE271857_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1133760 and SRA study SRP518868. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 7 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8387201 WT_MA9_Rep1 WT_MA9
- GSM8387202 WT_MA9_Rep2 WT_MA9
- GSM8387203 WT_MA9_Rep3 WT_MA9
- GSM8387204 KO_MA9_Rep1 KO_MA9
- GSM8387205 KO_MA9_Rep2 KO_MA9
- GSM8387206 KO_MA9_Rep3 KO_MA9
- GSM8387207 Hela_Scr_Rep1 Hela_Scr
- GSM8387208 Hela_Scr_Rep2 Hela_Scr
- GSM8387209 Hela_Scr_Rep3 Hela_Scr
- GSM8387210 Hela_KD_Rep1 Hela_KD
- GSM8387211 Hela_KD_Rep2 Hela_KD
- GSM8387212 Hela_KD_Rep3 Hela_KD
- GSM8387213 Hela_PSmut_Rep1 Hela_PSmut
- GSM8387214 Hela_PSmut_Rep2 Hela_PSmut
- GSM8387215 Hela_Wt_Rep1 Hela_Wt
- GSM8387216 Hela_Wt_Rep2 Hela_Wt
- GSM8387217 Hela_Zfmut_Rep1 Hela_Zfmut
- GSM8387218 Hela_Zfmut_Rep2 Hela_Zfmut
- GSE188415 The PAF1 Complex Regulates Transcriptional Termination and Reinitiation [RNA-seq] 26 samples shares transcription, regulate, rna-seq
- GSE260456 DOT1L provides transcriptional memory through PRC1.1 antagonism [RNA-seq] 180 samples shares transcription, rna-seq
- GSE218715 EZH2 gain-of-function mutations distort H3K27me3 landscapes and transform transcriptional responses to PRC2 inhibition [RNA-seq] 88 samples shares transcription, rna-seq
- GSE240505 Histone lysine demethylase 4 family proteins maintain the transcriptional program and adrenergic cellular state of MYCN-amplified neuroblastoma [RNA-seq] 22 samples shares transcription, rna-seq
- GSE269226 Hoxblinc lncRNA reprograms CTCF-independent TADs to drive leukemic transcription and HSC dysregulation in NUP98 fusion transformed leukemia [RNA-Seq] 20 samples shares transcription, rna-seq
- GSE218866 ZBTB24 is a conserved multifaceted transcription factor at genes and centromeres that governs the DNA methylation state and expression of satellite repeats [RNA-Seq] 12 samples shares transcription, rna-seq
- GSE267261 IRF2BP2 affects T-ALL cell proliferation by cooperating with master transcription factors [RNA-Seq] 9 samples shares transcription, rna-seq
- GSE267145 The transcription factor ZNF469 regulates collagen production in liver fibrosis 508 samples shares transcription, regulate
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.