GEO series

CYP1B1-AS1 regulates CYP1B1 to promote Coxiella burnetii pathogenesis by inhibiting ROS and host cell death

GSE292317 Homo sapiens (human) RNA-seq (gene expression) 78 samples Submitted 2025/07/14 Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 78 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: 78 samples: 64 distinct titles, 1 of them repeatedGroups 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: CYP1B1-AS1 regulates CYP1B1 to promote Coxiella burnetii pathogenesis by inhibiting ROS and host cell deathNature communications · 2025

Summary (written by the submitters)

Coxiella burnetii (Cb), the causative agent of Q fever, replicates within host macrophages by modulating immune responses through poorly understood mechanisms. Long non-coding RNAs (lncRNAs) are crucial yet underexplored regulators of inflammation, particularly in Cb pathogenesis.

Read the full summary ↓

Employing a comparative transcriptomic analysis of THP-1 macrophages infected with 16 different microbes, we dissected a core set of immune-responsive lncRNAs such as MAILR, LINC01215, PACER, and MROCKI-common to human anti-pathogen responses, and distinguished them from lncRNAs specifically altered at early (1 h) time points in individual infections. In particular, our approach unveiled lncRNA CYP1B1-AS1 as specifically upregulated in a spatiotemporal manner along with CYP1B1 in cis during Cb infection. Promoter assays confirmed their co-regulation via a shared bidirectional promoter, while aryl hydrocarbon receptor (AHR)-lucia luciferase and nuclear translocation assays demonstrated that Cb infection activates AHR, driving their transcription. Knockdown of CYP1B1-AS1 or CYP1B1 alone disrupted mitochondrial homeostasis, increased ROS and mitochondrial dysfunction, and exacerbated apoptosis during infection. These findings position the CYP1B1-AS1/CYP1B1 axis as a key regulator of mitochondrial homeostasis under AHR signaling, supporting an intracellular environment that benefits Cb replication. Our results highlight the critical roles of lncRNAs in immune regulation and provide a valuable resource for future lncRNA research.

Published in

CYP1B1-AS1 regulates CYP1B1 to promote Coxiella burnetii pathogenesis by inhibiting ROS and host cell death

Arunima A, Niyakan S, Butler SM et al. · Nature communications 2025 · PMID 40796858 · doi:10.1038/s41467-025-62762-2

This dataset

Open GSE292317 in finder → Find more human RNA-seq datasets →

Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE292317_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1228654 and SRA study SRP566782. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40796858) ↗

Study design

64 distinct titles, 1 of them repeated

Uninfected ×15

How we read this: Read from 78 sample titles: 64 distinct titles with little repetition. 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.

Samples in this study

GSM8856143 RNA-seq of THP-1 macrophages:Uninfected-1
GSM8856144 RNA-seq of THP-1 macrophages:DH5 infected-a
GSM8856145 RNA-seq of THP-1 macrophages:DH5 infected-b
GSM8856146 RNA-seq of THP-1 macrophages:DH5 infected-c
GSM8856147 RNA-seq of THP-1 macrophages:DH5 infected-d
GSM8856148 RNA-seq of THP-1 macrophages:Uninfected-2
GSM8856149 RNA-seq of THP-1 macrophages:R.radiobacter infected-a
GSM8856150 RNA-seq of THP-1 macrophages:R.radiobacter infected-b
GSM8856151 RNA-seq of THP-1 macrophages:R.radiobacter infected-c
GSM8856152 RNA-seq of THP-1 macrophages:R.radiobacter infected-d
GSM8856153 RNA-seq of THP-1 macrophages:Uninfected-3
GSM8856154 RNA-seq of THP-1 macrophages:M.luteus infected-a
GSM8856155 RNA-seq of THP-1 macrophages:M.luteus infected-b
GSM8856156 RNA-seq of THP-1 macrophages:M.luteus infected-c
GSM8856157 RNA-seq of THP-1 macrophages:M.luteus infected-d
GSM8856158 RNA-seq of THP-1 macrophages:Uninfected-4
GSM8856159 RNA-seq of THP-1 macrophages:C.burnetiidotB infected-a
GSM8856160 RNA-seq of THP-1 macrophages:C.burnetiidotB infected-b
GSM8856161 RNA-seq of THP-1 macrophages:C.burnetiidotB infected-c
GSM8856162 RNA-seq of THP-1 macrophages:C.burnetiidotB infected-d
GSM8856163 RNA-seq of THP-1 macrophages:Uninfected-5
GSM8856164 RNA-seq of THP-1 macrophages:E.faecalis infected-a
GSM8856165 RNA-seq of THP-1 macrophages:E.faecalis infected-b
GSM8856166 RNA-seq of THP-1 macrophages:E.faecalis infected-c
GSM8856167 RNA-seq of THP-1 macrophages:E.faecalis infected-d
GSM8856168 RNA-seq of THP-1 macrophages:Uninfected-6
GSM8856169 RNA-seq of THP-1 macrophages:B.melitensisvjbR infected-a
GSM8856170 RNA-seq of THP-1 macrophages:B.melitensisvjbR infected-b
GSM8856171 RNA-seq of THP-1 macrophages:B.melitensisvjbR infected-c
GSM8856172 RNA-seq of THP-1 macrophages:B.melitensisvjbR infected-d
GSM8856173 RNA-seq of THP-1 macrophages:Uninfected-7
GSM8856174 RNA-seq of THP-1 macrophages:L.innocua infected-a
GSM8856175 RNA-seq of THP-1 macrophages:L.innocua infected-b
GSM8856176 RNA-seq of THP-1 macrophages:L.innocua infected-c
GSM8856177 RNA-seq of THP-1 macrophages:L.innocua infected-d
GSM8856178 RNA-seq of THP-1 macrophages:Uninfected-8
GSM8856179 RNA-seq of THP-1 macrophages: Enterohemorrhagic E.coli O157:H7 infected-a
GSM8856180 RNA-seq of THP-1 macrophages: Enterohemorrhagic E. coli O157:H7 infected-b
GSM8856181 RNA-seq of THP-1 macrophages: Enterohemorrhagic E.coli O157:H7 infected-c
GSM8856182 RNA-seq of THP-1 macrophages: Enterohemorrhagic E.coli O157:H7 infected-d

+ 38 more — browse all 78 samples with per-sample file links →

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