Landscape of mitochondrial RNA binding proteome
RNA-seq (gene expression) · human · 17 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
- Homo sapiens (human)
- Samples
- 17 samples: 8 conditions, mostly in duplicateGroups 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.
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 GSE194141_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 PRJNA799300 and SRA study SRP356124. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 17 sample titles; they account for 16 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.
- GSM5828994 mitoRICK - Ctrlinput.rep1 mitoRICK - Ctrlinput
- GSM5828995 mitoRICK - Ctrlinput.rep2 mitoRICK - Ctrlinput
- GSM5828996 mitoRICK - CtrlPD.rep1 mitoRICK - CtrlPD
- GSM5828997 mitoRICK - CtrlPD.rep2 mitoRICK - CtrlPD
- GSM5828998 mitoRICK - EUinput.rep1 mitoRICK - EUinput
- GSM5828999 mitoRICK - EUinput.rep2 mitoRICK - EUinput
- GSM5829000 mitoRICK - EUPD.rep1 mitoRICK - EUPD
- GSM5829001 mitoRICK - EUPD.rep2 mitoRICK - EUPD
- GSM5829002 PAR-CLIP_GTPBP6 - rep1 PAR-CLIP_GTPBP6
- GSM5829003 PAR-CLIP_GTPBP6 - rep2 PAR-CLIP_GTPBP6
- GSM5829004 PAR-CLIP_MOV10 - rep1 PAR-CLIP_MOV10
- GSM5829005 PAR-CLIP_MOV10 - rep2 PAR-CLIP_MOV10
- GSM5829006 RNA-seq - siDHX30 - rep1 RNA-seq - siDHX30
- GSM5829007 RNA-seq - siDHX30 - rep2 RNA-seq - siDHX30
- GSM5829008 RNA-seq - siTfam - rep1 RNA-seq - siTfam
- GSM5829009 RNA-seq - siTfam - rep2 RNA-seq - siTfam
- GSM5829010 RNA-seq - NC
- GSE239815 Epigenetic inheritance of diet-induced and sperm-borne mitochondrial RNAs 307 samples shares mitochondrial
- GSE281781 MYC binding to nascent RNA suppresses innate immune signaling by R-loop-derived RNA-DNA hybrids 186 samples shares binding
- GSE312574 Unbalanced chromatin binding of Polycomb complexes drives neurodevelopmental disorders 179 samples shares binding
- GSE342640 Insulin resistance is associated with mammary mitochondrial dysfunction at the onset of human lactation 159 samples shares mitochondrial
- GSE244770 Integrator complex enables NF- KB binding to induce innate immune response. 129 samples shares binding
- GSE195453 Identification of the endothelial cell microproteome. 121 samples shares proteome
- GSE251674 Redistribution of PU.1 partner transcription factor RUNX1 binding secures cell survival during leukemogenesis 79 samples shares binding
- GSE287770 Simultaneous profiling of native-state proteomes and transcriptomes of neural cell types using proximity labeling 74 samples shares proteome
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.