Human CD14+ monocytes from early inflammatory arthritis patients before and after a 5day-and 30day-period of methotrexate treatment
RNA-seq (gene expression) · human · 72 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
- 72 samples: 72 samples, each with a distinct title — no replicated groupsGroups 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
- Monocytes from inflammatory arthritis patients accumulate methotrexate and their transcriptome predicts methotrexate clinical responseCellular and molecular life sciences : CMLS · 2026
Read the full summary ↓
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 GSE279719_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 PRJNA1174145 and SRA study SRP539375. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 72 sample titles: 72 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.
- GSM8578896 CD14+ monocytes patient #2 pre-MTX
- GSM8578897 CD14+ monocytes patient #2 5 days post-MTX treatment
- GSM8578898 CD14+ monocytes patient #2 30 days post-MTX treatment
- GSM8578899 CD14+ monocytes patient #4 pre-MTX
- GSM8578900 CD14+ monocytes patient #4 5 days post-MTX treatment
- GSM8578901 CD14+ monocytes patient #4 30 days post-MTX treatment
- GSM8578902 CD14+ monocytes patient #7 pre-MTX
- GSM8578903 CD14+ monocytes patient #7 5 days post-MTX treatment
- GSM8578904 CD14+ monocytes patient #7 30 days post-MTX treatment
- GSM8578905 CD14+ monocytes patient #9 pre-MTX
- GSM8578906 CD14+ monocytes patient #9 5 days post-MTX treatment
- GSM8578907 CD14+ monocytes patient #9 30 days post-MTX treatment
- GSM8578908 CD14+ monocytes patient #10 pre-MTX
- GSM8578909 CD14+ monocytes patient #10 5 days post-MTX treatment
- GSM8578910 CD14+ monocytes patient #10 30 days post-MTX treatment
- GSM8578911 CD14+ monocytes patient #11 pre-MTX
- GSM8578912 CD14+ monocytes patient #11 5 days post-MTX treatment
- GSM8578913 CD14+ monocytes patient #11 30 days post-MTX treatment
- GSM8578914 CD14+ monocytes patient #12 pre-MTX
- GSM8578915 CD14+ monocytes patient #12 5 days post-MTX treatment
- GSM8578916 CD14+ monocytes patient #12 30 days post-MTX treatment
- GSM8578917 CD14+ monocytes patient #13 pre-MTX
- GSM8578918 CD14+ monocytes patient #13 5 days post-MTX treatment
- GSM8578919 CD14+ monocytes patient #13 30 days post-MTX treatment
- GSM8578920 CD14+ monocytes patient #14 pre-MTX
- GSM8578921 CD14+ monocytes patient #14 5 days post-MTX treatment
- GSM8578922 CD14+ monocytes patient #14 30 days post-MTX treatment
- GSM8578923 CD14+ monocytes patient #15 pre-MTX
- GSM8578924 CD14+ monocytes patient #15 5 days post-MTX treatment
- GSM8578925 CD14+ monocytes patient #15 30 days post-MTX treatment
- GSM8578926 CD14+ monocytes patient #16 pre-MTX
- GSM8578927 CD14+ monocytes patient #16 5 days post-MTX treatment
- GSM8578928 CD14+ monocytes patient #16 30 days post-MTX treatment
- GSM8578929 CD14+ monocytes patient #17 pre-MTX
- GSM8578930 CD14+ monocytes patient #17 5 days post-MTX treatment
- GSM8578931 CD14+ monocytes patient #17 30 days post-MTX treatment
- GSM8578932 CD14+ monocytes patient #18 pre-MTX
- GSM8578933 CD14+ monocytes patient #18 5 days post-MTX treatment
- GSM8578934 CD14+ monocytes patient #18 30 days post-MTX treatment
- GSM8578935 CD14+ monocytes patient #19 pre-MTX
+ 32 more — browse all 72 samples with per-sample file links →
- GSE253495 Human CD14+ monocytes from rheumatoid arthritis patients before and after a 3-month period of Upadacitinib treatment 6 samples shares cd14, monocytes, arthritis, treatment
- GSE294225 Transcriptional profiles are dramatically altered in circulating CD14+ monocytes in Rheumatoid Arthritis [RNA-seq] 24 samples shares cd14, monocytes, arthritis
- GSE289101 Human CD14+ monocytes from volunteers before and after a 3 hours, 24 hours and 120 hours-period of methotrexate intake. METOMAC trial 20 samples shares cd14, methotrexate, monocytes
- GSE294235 Rheumatoid Arthritis circulating CD14+ monocytes are epigenetically primed [ChIP-seq] 75 samples shares cd14, monocytes, arthritis
- GSE268374 Restoration of CD56dim NK Cells by Methotrexate Contributes to the Treatment of Juvenile Idiopathic Arthritis 8 samples shares methotrexate, arthritis, treatment
- GSE186500 RNAseq analysis of human CD14+ monocytes exposed or not to IL4 and ligands of Aryl Hydrocarbon Receptor 42 samples shares cd14, monocytes
- 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 cd14, treatment
- GSE214091 RNAseq analysis of human CD14+ monocytes exposed to an agonist of Aryl Hydrocarbon Receptor 18 samples shares cd14, monocytes
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.