Deficiency of lncRNA MERRICAL abrogates macrophage chemotaxis and alleviates diabetes-associated atherosclerosis
RNA-seq (gene expression) · mouse · 11 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
- Mus musculus (mouse)
- Samples
- 11 samples: 11 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
- Deficiency of lncRNA MERRICAL abrogates macrophage chemotaxis and diabetes-associated atherosclerosisCell reports · 2024
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 GSE235419_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 PRJNA986050 and SRA study SRP445121. 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 11 sample titles: 11 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.
- GSM7502247 M0-BMDM-NS [A1_counts]
- GSM7502248 M0-BMDM-NS [A2_counts]
- GSM7502249 M0-BMDM-NS [A4_counts]
- GSM7502250 M1-BMDM-NS [B1_counts]
- GSM7502251 M1-BMDM-NS [B2_counts]
- GSM7502252 M1-BMDM-NS [B4_counts]
- GSM7502253 M0-BMDM-KD [C1_counts]
- GSM7502254 M0-BMDM-KD [C2_counts]
- GSM7502255 M0-BMDM-KD [C4_counts]
- GSM7502256 M1-BMDM-KD [D5_counts]
- GSM7502257 M1-BMDM-KD [D6_counts]
- GSE302738 Glutamine influx licenses macrophage glutaminolysis for restorative functions in atherosclerosis 29 samples shares atherosclerosis, macrophage
- GSE252926 Influence of GPR35 deficiency on the ileal and macrophage transcriptome 20 samples shares deficiency, macrophage
- GSE276417 Data Mining of IFNgamma-induced macrophage and Atherosclerotic Plaque Transcriptomes predicts a macrophage-specific role of STAT1 in human atherosclerosis [VSMC] 18 samples shares atherosclerosis, macrophage
- GSE276416 Data Mining of IFNgamma-induced macrophage and Atherosclerotic Plaque Transcriptomes predicts a macrophage-specific role of STAT1 in human atherosclerosis [BMDM] 18 samples shares atherosclerosis, macrophage
- GSE298755 GATA2 deficiency drives a profibrotic program and metabolic dysfunction in alveolar macrophages 14 samples shares deficiency, macrophage
- GSE202753 DsbA-L deficiency attenuates LPS-induced acute kidney injury via NF-κB/AP-1 regulation of macrophage polarization 13 samples shares deficiency, macrophage
- GSE287944 Adenine Nucleotide translocase 1 (ANT1) Deficiency Impairs Macrophage Metabolism and Migration, Protecting Against Emphysema in COPD 12 samples shares deficiency, macrophage
- GSE250202 Yin Yang 1 Deficiency in Skeletal Muscle Stem Cell Aggravates Muscle Fibrosis in Duchenne Muscular Dystrophy Mouse by Disrupting Muscle Stem Cell/Macrophage/Fibro-adipogenic Progenitor Crosstalk [RNA-Seq] 12 samples shares deficiency, macrophage
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.