Role of MYC acetylated lysine residues in cell transformation and gene-selective regulation [MCF10A]
RNA-seq (gene expression) · human · 15 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
- 15 samples: 5 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
- MYC acetylated lysine residues drive oncogenic cell transformation and regulate select genetic programs for cell adhesion-independent growth and survivalGenes & development · 2023
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 GSE220918_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 PRJNA912073 and SRA study SRP412962. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 9 samples read as cases, 3 as controls.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM6829327 MCF10A Cells, Empty, rep1 MCF10A Cells, Empty,
- GSM6829328 MCF10A Cells, Empty, rep2 MCF10A Cells, Empty,
- GSM6829329 MCF10A Cells, Empty, rep3 MCF10A Cells, Empty,
- GSM6829330 MCF10A Cells, Wild Type, rep1 MCF10A Cells, Wild Type,
- GSM6829331 MCF10A Cells, Wild Type, rep2 MCF10A Cells, Wild Type,
- GSM6829332 MCF10A Cells, Wild Type, rep3 MCF10A Cells, Wild Type,
- GSM6829333 MCF10A Cells, Mutant R149, rep1 MCF10A Cells, Mutant R1…
- GSM6829334 MCF10A Cells, Mutant R149, rep2 MCF10A Cells, Mutant R1…
- GSM6829335 MCF10A Cells, Mutant R149, rep3 MCF10A Cells, Mutant R1…
- GSM6829336 MCF10A Cells, Mutant R158, rep1 MCF10A Cells, Mutant R1…
- GSM6829337 MCF10A Cells, Mutant R158, rep2 MCF10A Cells, Mutant R1…
- GSM6829338 MCF10A Cells, Mutant R158, rep3 MCF10A Cells, Mutant R1…
- GSM6829339 MCF10A Cells, Mutant R323, rep1 MCF10A Cells, Mutant R3…
- GSM6829340 MCF10A Cells, Mutant R323, rep2 MCF10A Cells, Mutant R3…
- GSM6829341 MCF10A Cells, Mutant R323, rep3 MCF10A Cells, Mutant R3…
- GSE272349 Connexin 43 drives glioblastoma cancer stem cell phenotypes through a WNK lysine-deficient protein kinase 1-c-MYC signaling axis 15 samples shares myc, lysine
- GSE164456 Histone lysine demethylase 4 family proteins maintain the transcriptional program and adrenergic cellular state of MYCN-amplified neuroblastoma 69 samples shares myc, lysine
- GSE293201 Ectopic MYC Expression Reprograms Epigenetic Landscapes and Transcription Factor Networks to Drive Differentiation Block and Malignant Transformation in AML [ATAC-seq] 35 samples shares myc, transformation
- GSE267774 Specific CD4+ T cell phenotypes associate with bacterial control in people who ‘resist’ infection with Mycobacterium tuberculosis 3076 samples shares myc
- GSE287043 Unique Mycobacterium tuberculosis-specific blood immune signatures in sarcoidosis: implications for clinical diagnosis 542 samples shares myc
- GSE288604 Whole blood transcriptomics characterize molecular phenotypes of pulmonary Mycobacterium avium complex disease 200 samples shares myc
- GSE274269 Distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae 174 samples shares myc
- GSE280973 Transcriptional Regulation of Protein Synthesis by Mediator Kinase Represents a Therapeutic Vulnerability in MYC-driven Medulloblastoma 20 samples shares myc
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.