Analysis of a pair of HCA-7 derived cells with low expressing (CC) or high expressing (CC-CR) levels of miR-100 and miR-125b and RNA collected from Ago2 RNA immunoprecipitation (RNAseq_human_AGO2_IP.8635)
RNA-seq (gene expression) · human · 11 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
- 11 samples: 3 × CCCR_WC vs 3 × CC_WC vs 3 × CCCR_Ago2_RIP vs 2 × CC_Ago2_RIPGroups 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
- Transfer of miR-100 and miR-125b increases 3D growth and invasiveness in recipient cancer cellsExtracellular vesicles and circulating nucleic acids · 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 GSE259370_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 PRJNA1081379 and SRA study SRP492044. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 4 replicated groups read from 11 sample titles; they account for 11 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.
- GSM8114933 CCCR_WC_1 CCCR_WC
- GSM8114934 CCCR_WC_2 CCCR_WC
- GSM8114935 CCCR_WC_3 CCCR_WC
- GSM8114936 CC_WC_1 CC_WC
- GSM8114937 CC_WC_2 CC_WC
- GSM8114938 CC_WC_3 CC_WC
- GSM8114939 CCCR_Ago2_RIP_1 CCCR_Ago2_RIP
- GSM8114940 CCCR_Ago2_RIP_2 CCCR_Ago2_RIP
- GSM8114941 CCCR_Ago2_RIP_3 CCCR_Ago2_RIP
- GSM8114942 CC_Ago2_RIP_1 CC_Ago2_RIP
- GSM8114943 CC_Ago2_RIP_3 CC_Ago2_RIP
- GSE259372 Analysis of a pair of HCA-7 derived cells with low expressing (CC) or high expressing (CC-CR) levels of miR-100 and miR-125b and RNA collected from Ago2 RNA immunoprecipitation 22 samples shares mir-125b, mir-100, hca-7, cc-cr, ago2, immunoprecipitation, expressing, collected
- GSE259375 Analysis of an HCA-7 derived cell line (CC-CR) and cell lines generated with knockout of miR-100, miR-125b, or both miRNAs. 60 samples shares mir-125b, mir-100, hca-7, cc-cr
- GSE259373 Analysis of an HCA-7 derived cell line (CC-CR) and cell lines generated with knockout of miR-100, miR-125b, or both miRNAs (RNAseq_human_miR_KO.7223) 30 samples shares mir-125b, mir-100, hca-7, cc-cr
- GSE305290 Largazole targets Musashi protein expression via miR-125b-5p and sensitizes triple-negative breast cancer cells to irradiation 6 samples shares mir-125b
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.