DOGMA-seq of opioid addiction treatment in HIV-1 infected individuals
RNA-seq (gene expression) · human · 27 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
- 27 samples: 6 conditions, mostly with about 6 replicates eachGroups 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
- Medications for opioid use disorder shape immune responses during chronic HIV infectionCell reports. Medicine · 2025
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 GSE234521_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 PRJNA981575 and SRA study SRP441904. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 27 samples.
How we read this: 6 replicated groups read from 27 sample titles; they account for 27 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.
- GSM7470297 PBMC, scRNA-seq group 1 PBMC, scRNA-seq group
- GSM7470298 CD4, scRNA-seq group 1 CD4, scRNA-seq group
- GSM7470299 CD4, scRNA-seq group 2 CD4, scRNA-seq group
- GSM7470300 PBMC, scRNA-seq group 2 PBMC, scRNA-seq group
- GSM7470301 CD4, scRNA-seq group 3 CD4, scRNA-seq group
- GSM7470302 CD4, scRNA-seq group 4 CD4, scRNA-seq group
- GSM7470303 PBMC, scRNA-seq group 3 PBMC, scRNA-seq group
- GSM7470304 CD4, scRNA-seq group 5 CD4, scRNA-seq group
- GSM7470305 CD4, scRNA-seq group 6 CD4, scRNA-seq group
- GSM7470306 PBMC, scATAC-seq group 1 PBMC, scATAC-seq group
- GSM7470307 CD4, scATAC-seq group 1 CD4, scATAC-seq group
- GSM7470308 CD4, scATAC-seq group 2 CD4, scATAC-seq group
- GSM7470309 PBMC, scATAC-seq group 2 PBMC, scATAC-seq group
- GSM7470310 CD4, scATAC-seq group 3 CD4, scATAC-seq group
- GSM7470311 CD4, scATAC-seq group 4 CD4, scATAC-seq group
- GSM7470312 PBMC, scATAC-seq group 3 PBMC, scATAC-seq group
- GSM7470313 CD4, scATAC-seq group 5 CD4, scATAC-seq group
- GSM7470314 CD4, scATAC-seq group 6 CD4, scATAC-seq group
- GSM7470315 PBMC, CITE-seq group 1 PBMC, CITE-seq group
- GSM7470316 CD4, CITE-seq group 1 CD4, CITE-seq group
- GSM7470317 CD4, CITE-seq group 2 CD4, CITE-seq group
- GSM7470318 PBMC, CITE-seq group 2 PBMC, CITE-seq group
- GSM7470319 CD4, CITE-seq group 3 CD4, CITE-seq group
- GSM7470320 CD4, CITE-seq group 4 CD4, CITE-seq group
- GSM7470321 PBMC, CITE-seq group 3 PBMC, CITE-seq group
- GSM7470322 CD4, CITE-seq group 5 CD4, CITE-seq group
- GSM7470323 CD4, CITE-seq group 6 CD4, CITE-seq group
- GSE299348 Single-cell epigenetic, transcriptional, protein, and TCR states of HIV-1-infected cells in gut 117 samples shares hiv-1, infected
- GSE299125 Paracrine Signals from HIV-1 Infected Immune Cells Reprogram Cervical Cancer Pathways 35 samples shares hiv-1, infected
- GSE247196 Productively HIV-1 infected and bystander primary human CD4+ T-cells 18 samples shares hiv-1, infected
- GSE336629 Integrated Transcriptomic Profiling of Rectal and Adipose HIV-1 Reservoirs Relative to Matched PBMCs in ART-Treated Individuals 14 samples shares hiv-1, individuals
- GSE328010 RNA sequencing of naïve, activated and HIV-1 infected CD4+ T cells 9 samples shares hiv-1, infected
- GSE303208 Single cell RNA seq of Healthy, covid-19 infected, recovered and long recovered individuals. 57 samples shares individuals, infected
- GSE277711 Transcriptional profiling of T cells of healthy individuals after treatment with supernatant of PBMCs of the same individuals treated overnight with sCD14 with isolated T cells cultured in TH17 polarizing condition and T cells treated with GABA overnight 28 samples shares individuals, treatment
- GSE341485 Heterogeneous epigenetic variation converges on splicing dysregulation in opioid addiction 24 samples shares addiction, opioid
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.