Transcriptomic Changes in THP-1 Macrophages Infected with Candida albicans SC5314 in the Presence or Absence of Cinnamaldehyde
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- Samples
- 18 samples: 6 × THP-1, Control, vs 6 × THP-1, Model, vs 6 × THP-1, cinnamaldehyde,Groups 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 GSE298989_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 PRJNA1272069 and SRA study SRP589892. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 3 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.
- GSM9029091 THP-1, Control, rep1 THP-1, Control,
- GSM9029092 THP-1, Control, rep2 THP-1, Control,
- GSM9029093 THP-1, Control, rep3 THP-1, Control,
- GSM9029094 THP-1, Control, rep4 THP-1, Control,
- GSM9029095 THP-1, Control, rep5 THP-1, Control,
- GSM9029096 THP-1, Control, rep6 THP-1, Control,
- GSM9029097 THP-1, Model, rep1 THP-1, Model,
- GSM9029098 THP-1, Model, rep2 THP-1, Model,
- GSM9029099 THP-1, Model, rep3 THP-1, Model,
- GSM9029100 THP-1, Model, rep4 THP-1, Model,
- GSM9029101 THP-1, Model, rep5 THP-1, Model,
- GSM9029102 THP-1, Model, rep6 THP-1, Model,
- GSM9029103 THP-1, cinnamaldehyde, rep1 THP-1, cinnamaldehyde,
- GSM9029104 THP-1, cinnamaldehyde, rep2 THP-1, cinnamaldehyde,
- GSM9029105 THP-1, cinnamaldehyde, rep3 THP-1, cinnamaldehyde,
- GSM9029106 THP-1, cinnamaldehyde, rep4 THP-1, cinnamaldehyde,
- GSM9029107 THP-1, cinnamaldehyde, rep5 THP-1, cinnamaldehyde,
- GSM9029108 THP-1, cinnamaldehyde, rep6 THP-1, cinnamaldehyde,
- GSE328953 Transcriptomics of THP-1-derived macrophages infected with mycobacteria 15 samples shares thp-1, macrophages, infected
- GSE313992 Comparative Immunotoxicity and Transcriptomic Profiling of Seven PFAS in THP-1 Macrophages 252 samples shares thp-1, macrophages
- GSE305300 Human memory CD4+ T cells recognize Mycobacterium tuberculosis-infected macrophages amid broader pathogen-specific responses [scRNA-seq] 36 samples shares macrophages, infected
- GSE307859 Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-infected Macrophages 27 samples shares macrophages, infected
- GSE294918 IFNγ-induced memory in human macrophages is not sustained by epigenetic changes but the durability of the cytokine itself [RNA-Seq] 20 samples shares macrophages, changes
- GSE248578 Butyrate and propionate are microbial danger signals that activate the NLRP3-inflammasome in human macrophages in the presence of TLR stimulation 18 samples shares macrophages, presence
- GSE307856 Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-infected Macrophages [JW81_JW82_JW84] 12 samples shares macrophages, infected
- GSE248579 Butyrate and propionate are microbial danger signals that activate the NLRP3-inflammasome in human macrophages in the presence of TLR stimulation 30 samples shares macrophages, presence
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.